Mouse Myc encodes c-Myc, a nuclear basic helix-loop-helix leucine zipper transcription factor. Myc heterodimerizes with Max to bind E-box DNA motifs and regulate RNA polymerase II transcriptional programs controlling growth, proliferation, ribosome biogenesis, metabolism, apoptosis, and stem-cell state. The core activity is Myc-Max DNA-binding transcriptional regulation; many developmental, cell-cycle, and metabolic annotations are downstream or context-specific outputs.
| GO Term | Evidence | Action | Reason |
|---|---|---|---|
| GO:0005634 nucleus | IBA GO_REF:0000033 | ACCEPT | Summary: nucleus is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0071943 Myc-Max complex | IBA GO_REF:0000033 | ACCEPT | Summary: Myc-Max complex is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc does not efficiently homodimerize or bind DNA alone; it requires MAX as an obligate heterodimerization partner for promoter binding and transcriptional activation. |
| GO:0008284 positive regulation of cell population proliferation | IBA GO_REF:0000033 | KEEP AS NON CORE | Summary: positive regulation of cell population proliferation is a well-known downstream Myc output, but not the direct core molecular function. Reason: The review defines the core function as Myc-Max E-box DNA-binding transcriptional regulation; proliferation and cell-cycle outputs should be retained as non-core consequences unless supported as the direct molecular activity. Supporting Evidence: file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier that controls genes involved in cell cycle entry, proliferation, metabolism, ribosome biogenesis, differentiation, apoptosis, development, tissue homeostasis, and regeneration file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. |
| GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding | IBA GO_REF:0000033 | ACCEPT | Summary: RNA polymerase II cis-regulatory region sequence-specific DNA binding is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0006357 regulation of transcription by RNA polymerase II | IBA GO_REF:0000033 | ACCEPT | Summary: regulation of transcription by RNA polymerase II is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific | IBA GO_REF:0000033 | ACCEPT | Summary: DNA-binding transcription factor activity, RNA polymerase II-specific is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0003700 DNA-binding transcription factor activity | IEA GO_REF:0000002 | ACCEPT | Summary: DNA-binding transcription factor activity is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0005634 nucleus | IEA GO_REF:0000044 | ACCEPT | Summary: nucleus is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0005654 nucleoplasm | IEA GO_REF:0000044 | ACCEPT | Summary: nucleoplasm is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0005694 chromosome | IEA GO_REF:0000044 | ACCEPT | Summary: chromosome is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0005730 nucleolus | IEA GO_REF:0000044 | ACCEPT | Summary: nucleolus is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0005737 cytoplasm | IEA GO_REF:0000044 | KEEP AS NON CORE | Summary: cytoplasm reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0005739 mitochondrion | IEA GO_REF:0000108 | MARK AS OVER ANNOTATED | Summary: mitochondrion likely overstates a direct role for Myc and is better interpreted as an indirect consequence of its transcriptional program. Reason: The core evidence supports Myc as a transcription factor; this term is too downstream, pathway-level, or weakly connected to a direct molecular function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0006355 regulation of DNA-templated transcription | IEA GO_REF:0000002 | ACCEPT | Summary: regulation of DNA-templated transcription is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0046983 protein dimerization activity | IEA GO_REF:0000002 | ACCEPT | Summary: protein dimerization activity is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc does not efficiently homodimerize or bind DNA alone; it requires MAX as an obligate heterodimerization partner for promoter binding and transcriptional activation. |
| GO:0005515 protein binding | IPI PMID:19269368 The TRIM-NHL protein TRIM32 activates microRNAs and prevents... | REMOVE | Summary: protein binding is not a useful retained annotation for Myc in this review. Reason: The annotation is too generic, unsupported as a direct Myc activity, or represents an interaction/process better captured by specific transcription factor and Myc-Max terms. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc is primarily a nuclear bHLH-leucine zipper transcription factor; generic binding, localization, and metabolic-output terms should not replace its direct DNA-binding transcriptional role. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report supports more informative terms for Myc than generic protein binding: bHLH-LZ-mediated MAX heterodimerization, Myc-Max complex formation, E-box DNA binding, and transcriptional regulation. |
| GO:0005515 protein binding | IPI PMID:20211142 An atlas of combinatorial transcriptional regulation in mous... | REMOVE | Summary: protein binding is not a useful retained annotation for Myc in this review. Reason: The annotation is too generic, unsupported as a direct Myc activity, or represents an interaction/process better captured by specific transcription factor and Myc-Max terms. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc is primarily a nuclear bHLH-leucine zipper transcription factor; generic binding, localization, and metabolic-output terms should not replace its direct DNA-binding transcriptional role. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report supports more informative terms for Myc than generic protein binding: bHLH-LZ-mediated MAX heterodimerization, Myc-Max complex formation, E-box DNA binding, and transcriptional regulation. |
| GO:0005515 protein binding | IPI PMID:20434984 c-Myc regulates transcriptional pause release. | REMOVE | Summary: protein binding is not a useful retained annotation for Myc in this review. Reason: The annotation is too generic, unsupported as a direct Myc activity, or represents an interaction/process better captured by specific transcription factor and Myc-Max terms. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc is primarily a nuclear bHLH-leucine zipper transcription factor; generic binding, localization, and metabolic-output terms should not replace its direct DNA-binding transcriptional role. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report supports more informative terms for Myc than generic protein binding: bHLH-LZ-mediated MAX heterodimerization, Myc-Max complex formation, E-box DNA binding, and transcriptional regulation. |
| GO:0005515 protein binding | IPI PMID:20946988 A Myc network accounts for similarities between embryonic st... | REMOVE | Summary: protein binding is not a useful retained annotation for Myc in this review. Reason: The annotation is too generic, unsupported as a direct Myc activity, or represents an interaction/process better captured by specific transcription factor and Myc-Max terms. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc is primarily a nuclear bHLH-leucine zipper transcription factor; generic binding, localization, and metabolic-output terms should not replace its direct DNA-binding transcriptional role. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report supports more informative terms for Myc than generic protein binding: bHLH-LZ-mediated MAX heterodimerization, Myc-Max complex formation, E-box DNA binding, and transcriptional regulation. |
| GO:0005515 protein binding | IPI PMID:36124234 Integrative analysis reveals histone demethylase LSD1 promot... | REMOVE | Summary: protein binding is not a useful retained annotation for Myc in this review. Reason: The annotation is too generic, unsupported as a direct Myc activity, or represents an interaction/process better captured by specific transcription factor and Myc-Max terms. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc is primarily a nuclear bHLH-leucine zipper transcription factor; generic binding, localization, and metabolic-output terms should not replace its direct DNA-binding transcriptional role. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report supports more informative terms for Myc than generic protein binding: bHLH-LZ-mediated MAX heterodimerization, Myc-Max complex formation, E-box DNA binding, and transcriptional regulation. |
| GO:0005515 protein binding | IPI PMID:9764821 The C. elegans MDL-1 and MXL-1 proteins can functionally sub... | REMOVE | Summary: protein binding is not a useful retained annotation for Myc in this review. Reason: The annotation is too generic, unsupported as a direct Myc activity, or represents an interaction/process better captured by specific transcription factor and Myc-Max terms. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc is primarily a nuclear bHLH-leucine zipper transcription factor; generic binding, localization, and metabolic-output terms should not replace its direct DNA-binding transcriptional role. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report supports more informative terms for Myc than generic protein binding: bHLH-LZ-mediated MAX heterodimerization, Myc-Max complex formation, E-box DNA binding, and transcriptional regulation. |
| GO:0000082 G1/S transition of mitotic cell cycle | ISO GO_REF:0000119 | KEEP AS NON CORE | Summary: G1/S transition of mitotic cell cycle is a well-known downstream Myc output, but not the direct core molecular function. Reason: The review defines the core function as Myc-Max E-box DNA-binding transcriptional regulation; proliferation and cell-cycle outputs should be retained as non-core consequences unless supported as the direct molecular activity. Supporting Evidence: file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier that controls genes involved in cell cycle entry, proliferation, metabolism, ribosome biogenesis, differentiation, apoptosis, development, tissue homeostasis, and regeneration file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. |
| GO:0000122 negative regulation of transcription by RNA polymerase II | ISO GO_REF:0000096 | ACCEPT | Summary: negative regulation of transcription by RNA polymerase II is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0000122 negative regulation of transcription by RNA polymerase II | ISO GO_REF:0000119 | ACCEPT | Summary: negative regulation of transcription by RNA polymerase II is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0000165 MAPK cascade | ISO GO_REF:0000119 | KEEP AS NON CORE | Summary: MAPK cascade reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0000320 re-entry into mitotic cell cycle | ISO GO_REF:0000096 | KEEP AS NON CORE | Summary: re-entry into mitotic cell cycle reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0000785 chromatin | ISO GO_REF:0000119 | ACCEPT | Summary: chromatin is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding | ISO GO_REF:0000119 | ACCEPT | Summary: RNA polymerase II cis-regulatory region sequence-specific DNA binding is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific | ISO GO_REF:0000119 | ACCEPT | Summary: DNA-binding transcription factor activity, RNA polymerase II-specific is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0001046 core promoter sequence-specific DNA binding | ISO GO_REF:0000119 | ACCEPT | Summary: core promoter sequence-specific DNA binding is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0001221 transcription coregulator binding | ISO GO_REF:0000119 | ACCEPT | Summary: transcription coregulator binding is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0001227 DNA-binding transcription repressor activity, RNA polymerase II-specific | ISO GO_REF:0000119 | ACCEPT | Summary: DNA-binding transcription repressor activity, RNA polymerase II-specific is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0001228 DNA-binding transcription activator activity, RNA polymerase II-specific | ISO GO_REF:0000119 | ACCEPT | Summary: DNA-binding transcription activator activity, RNA polymerase II-specific is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0002082 regulation of oxidative phosphorylation | ISO GO_REF:0000096 | KEEP AS NON CORE | Summary: regulation of oxidative phosphorylation reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0003677 DNA binding | ISO GO_REF:0000096 | ACCEPT | Summary: DNA binding is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0003690 double-stranded DNA binding | ISO GO_REF:0000096 | ACCEPT | Summary: double-stranded DNA binding is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0003700 DNA-binding transcription factor activity | ISO GO_REF:0000096 | ACCEPT | Summary: DNA-binding transcription factor activity is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0005634 nucleus | ISO GO_REF:0000119 | ACCEPT | Summary: nucleus is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0005654 nucleoplasm | ISO GO_REF:0000119 | ACCEPT | Summary: nucleoplasm is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0005730 nucleolus | ISO GO_REF:0000119 | ACCEPT | Summary: nucleolus is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0006006 glucose metabolic process | ISO GO_REF:0000096 | KEEP AS NON CORE | Summary: glucose metabolic process reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0006338 chromatin remodeling | ISO GO_REF:0000119 | ACCEPT | Summary: chromatin remodeling is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0006351 DNA-templated transcription | ISO GO_REF:0000096 | ACCEPT | Summary: DNA-templated transcription is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0006352 DNA-templated transcription initiation | ISO GO_REF:0000096 | MODIFY | Summary: Myc is well supported as a nuclear Myc-Max DNA-binding transcription regulator, but the evidence does not establish the initiation-specific process captured by this term. Reason: Replace the initiation-specific annotation with a broader RNA polymerase II transcription-regulation term that matches the supported Myc transcription factor biology. Proposed replacements: regulation of transcription by RNA polymerase II Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0006355 regulation of DNA-templated transcription | ISO GO_REF:0000096 | ACCEPT | Summary: regulation of DNA-templated transcription is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0006366 transcription by RNA polymerase II | ISO GO_REF:0000096 | ACCEPT | Summary: transcription by RNA polymerase II is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0006848 pyruvate transport | ISO GO_REF:0000096 | MARK AS OVER ANNOTATED | Summary: pyruvate transport likely overstates a direct role for Myc and is better interpreted as an indirect consequence of its transcriptional program. Reason: The core evidence supports Myc as a transcription factor; this term is too downstream, pathway-level, or weakly connected to a direct molecular function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0006865 amino acid transport | ISO GO_REF:0000096 | KEEP AS NON CORE | Summary: amino acid transport reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0006879 intracellular iron ion homeostasis | ISO GO_REF:0000119 | KEEP AS NON CORE | Summary: intracellular iron ion homeostasis reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0006974 DNA damage response | ISO GO_REF:0000119 | KEEP AS NON CORE | Summary: DNA damage response reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0007007 inner mitochondrial membrane organization | ISO GO_REF:0000096 | MARK AS OVER ANNOTATED | Summary: inner mitochondrial membrane organization likely overstates a direct role for Myc and is better interpreted as an indirect consequence of its transcriptional program. Reason: The core evidence supports Myc as a transcription factor; this term is too downstream, pathway-level, or weakly connected to a direct molecular function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0007346 regulation of mitotic cell cycle | ISO GO_REF:0000096 | KEEP AS NON CORE | Summary: regulation of mitotic cell cycle reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0008284 positive regulation of cell population proliferation | ISO GO_REF:0000096 | KEEP AS NON CORE | Summary: positive regulation of cell population proliferation is a well-known downstream Myc output, but not the direct core molecular function. Reason: The review defines the core function as Myc-Max E-box DNA-binding transcriptional regulation; proliferation and cell-cycle outputs should be retained as non-core consequences unless supported as the direct molecular activity. Supporting Evidence: file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier that controls genes involved in cell cycle entry, proliferation, metabolism, ribosome biogenesis, differentiation, apoptosis, development, tissue homeostasis, and regeneration file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. |
| GO:0010564 regulation of cell cycle process | ISO GO_REF:0000119 | KEEP AS NON CORE | Summary: regulation of cell cycle process is a well-known downstream Myc output, but not the direct core molecular function. Reason: The review defines the core function as Myc-Max E-box DNA-binding transcriptional regulation; proliferation and cell-cycle outputs should be retained as non-core consequences unless supported as the direct molecular activity. Supporting Evidence: file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier that controls genes involved in cell cycle entry, proliferation, metabolism, ribosome biogenesis, differentiation, apoptosis, development, tissue homeostasis, and regeneration file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. |
| GO:0010628 positive regulation of gene expression | ISO GO_REF:0000119 | ACCEPT | Summary: positive regulation of gene expression is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0010629 negative regulation of gene expression | ISO GO_REF:0000096 | KEEP AS NON CORE | Summary: negative regulation of gene expression reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0010918 positive regulation of mitochondrial membrane potential | ISO GO_REF:0000096 | KEEP AS NON CORE | Summary: positive regulation of mitochondrial membrane potential reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0014911 positive regulation of smooth muscle cell migration | ISO GO_REF:0000096 | KEEP AS NON CORE | Summary: positive regulation of smooth muscle cell migration reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0016072 rRNA metabolic process | ISO GO_REF:0000119 | KEEP AS NON CORE | Summary: Myc regulates ribosome biogenesis and nucleolar transcription programs, but rRNA metabolism is a downstream growth program rather than the core Myc-Max DNA-binding function. Reason: Retain as non-core because Myc can drive ribosome-biogenesis programs, while the primary molecular function remains sequence-specific transcriptional regulation through Myc-Max. Supporting Evidence: file:mouse/Myc/Myc-deep-research-falcon.md Functional-annotation implication: this strengthens the mechanistic annotation of Myc as a regulator of ribosome biogenesis/nucleolar transcription programs, with clinically relevant downstream dependencies. |
| GO:0032204 regulation of telomere maintenance | ISO GO_REF:0000119 | KEEP AS NON CORE | Summary: regulation of telomere maintenance reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0032986 protein-DNA complex disassembly | ISO GO_REF:0000119 | KEEP AS NON CORE | Summary: protein-DNA complex disassembly reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc does not efficiently homodimerize or bind DNA alone; it requires MAX as an obligate heterodimerization partner for promoter binding and transcriptional activation. |
| GO:0032991 protein-containing complex | ISO GO_REF:0000119 | ACCEPT | Summary: protein-containing complex is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc does not efficiently homodimerize or bind DNA alone; it requires MAX as an obligate heterodimerization partner for promoter binding and transcriptional activation. |
| GO:0042802 identical protein binding | ISO GO_REF:0000119 | REMOVE | Summary: identical protein binding is not a useful retained annotation for Myc in this review. Reason: The annotation is too generic, unsupported as a direct Myc activity, or represents an interaction/process better captured by specific transcription factor and Myc-Max terms. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc is primarily a nuclear bHLH-leucine zipper transcription factor; generic binding, localization, and metabolic-output terms should not replace its direct DNA-binding transcriptional role. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report supports more informative terms for Myc than generic protein binding: bHLH-LZ-mediated MAX heterodimerization, Myc-Max complex formation, E-box DNA binding, and transcriptional regulation. |
| GO:0043565 sequence-specific DNA binding | ISO GO_REF:0000096 | ACCEPT | Summary: sequence-specific DNA binding is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0044027 negative regulation of gene expression via chromosomal CpG island methylation | ISO GO_REF:0000119 | KEEP AS NON CORE | Summary: negative regulation of gene expression via chromosomal CpG island methylation reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0044877 protein-containing complex binding | ISO GO_REF:0000096 | ACCEPT | Summary: protein-containing complex binding is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc does not efficiently homodimerize or bind DNA alone; it requires MAX as an obligate heterodimerization partner for promoter binding and transcriptional activation. |
| GO:0044877 protein-containing complex binding | ISO GO_REF:0000119 | ACCEPT | Summary: protein-containing complex binding is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc does not efficiently homodimerize or bind DNA alone; it requires MAX as an obligate heterodimerization partner for promoter binding and transcriptional activation. |
| GO:0045656 negative regulation of monocyte differentiation | ISO GO_REF:0000119 | KEEP AS NON CORE | Summary: negative regulation of monocyte differentiation reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0045787 positive regulation of cell cycle | ISO GO_REF:0000096 | KEEP AS NON CORE | Summary: positive regulation of cell cycle reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0045821 positive regulation of glycolytic process | ISO GO_REF:0000096 | KEEP AS NON CORE | Summary: positive regulation of glycolytic process reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0045893 positive regulation of DNA-templated transcription | ISO GO_REF:0000096 | ACCEPT | Summary: positive regulation of DNA-templated transcription is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0045893 positive regulation of DNA-templated transcription | ISO GO_REF:0000119 | ACCEPT | Summary: positive regulation of DNA-templated transcription is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0045944 positive regulation of transcription by RNA polymerase II | ISO GO_REF:0000096 | ACCEPT | Summary: positive regulation of transcription by RNA polymerase II is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0045944 positive regulation of transcription by RNA polymerase II | ISO GO_REF:0000119 | ACCEPT | Summary: positive regulation of transcription by RNA polymerase II is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0046325 negative regulation of D-glucose import across plasma membrane | ISO GO_REF:0000096 | MARK AS OVER ANNOTATED | Summary: negative regulation of D-glucose import across plasma membrane likely overstates a direct role for Myc and is better interpreted as an indirect consequence of its transcriptional program. Reason: The core evidence supports Myc as a transcription factor; this term is too downstream, pathway-level, or weakly connected to a direct molecular function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0046722 lactic acid secretion | ISO GO_REF:0000096 | MARK AS OVER ANNOTATED | Summary: lactic acid secretion likely overstates a direct role for Myc and is better interpreted as an indirect consequence of its transcriptional program. Reason: The core evidence supports Myc as a transcription factor; this term is too downstream, pathway-level, or weakly connected to a direct molecular function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0048146 positive regulation of fibroblast proliferation | ISO GO_REF:0000096 | KEEP AS NON CORE | Summary: positive regulation of fibroblast proliferation reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0048146 positive regulation of fibroblast proliferation | ISO GO_REF:0000119 | KEEP AS NON CORE | Summary: positive regulation of fibroblast proliferation reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0048147 negative regulation of fibroblast proliferation | ISO GO_REF:0000119 | KEEP AS NON CORE | Summary: negative regulation of fibroblast proliferation reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0048661 positive regulation of smooth muscle cell proliferation | ISO GO_REF:0000096 | KEEP AS NON CORE | Summary: positive regulation of smooth muscle cell proliferation reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0050679 positive regulation of epithelial cell proliferation | ISO GO_REF:0000119 | KEEP AS NON CORE | Summary: positive regulation of epithelial cell proliferation reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0051276 chromosome organization | ISO GO_REF:0000119 | KEEP AS NON CORE | Summary: chromosome organization reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0051782 negative regulation of cell division | ISO GO_REF:0000119 | MARK AS OVER ANNOTATED | Summary: negative regulation of cell division likely overstates a direct role for Myc and is better interpreted as an indirect consequence of its transcriptional program. Reason: The core evidence supports Myc as a transcription factor; this term is too downstream, pathway-level, or weakly connected to a direct molecular function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0060252 positive regulation of glial cell proliferation | ISO GO_REF:0000096 | KEEP AS NON CORE | Summary: positive regulation of glial cell proliferation reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0060633 negative regulation of transcription initiation by RNA polymerase II | ISO GO_REF:0000119 | MODIFY | Summary: Myc can repress RNA polymerase II transcription in some contexts, but the cited evidence does not justify the more specific transcription-initiation mechanism. Reason: Replace the initiation-specific repression annotation with the broader supported negative regulation of RNA polymerase II transcription. Proposed replacements: negative regulation of transcription by RNA polymerase II Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt GO; GO:0000122; P:negative regulation of transcription by RNA polymerase II; IDA:MGI. file:mouse/Myc/Myc-deep-research-falcon.md MBIIIaβMIZ-1-associated repression in some contexts. |
| GO:0070371 ERK1 and ERK2 cascade | ISO GO_REF:0000119 | KEEP AS NON CORE | Summary: ERK1 and ERK2 cascade reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0070888 E-box binding | ISO GO_REF:0000119 | ACCEPT | Summary: E-box binding is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0071456 cellular response to hypoxia | ISO GO_REF:0000119 | KEEP AS NON CORE | Summary: cellular response to hypoxia reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0071466 cellular response to xenobiotic stimulus | ISO GO_REF:0000119 | MARK AS OVER ANNOTATED | Summary: cellular response to xenobiotic stimulus likely overstates a direct role for Myc and is better interpreted as an indirect consequence of its transcriptional program. Reason: The core evidence supports Myc as a transcription factor; this term is too downstream, pathway-level, or weakly connected to a direct molecular function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0140297 DNA-binding transcription factor binding | ISO GO_REF:0000119 | ACCEPT | Summary: DNA-binding transcription factor binding is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:1901857 positive regulation of cellular respiration | ISO GO_REF:0000096 | KEEP AS NON CORE | Summary: positive regulation of cellular respiration reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:1902255 positive regulation of intrinsic apoptotic signaling pathway by p53 class mediator | ISO GO_REF:0000119 | KEEP AS NON CORE | Summary: positive regulation of intrinsic apoptotic signaling pathway by p53 class mediator reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:1902895 positive regulation of miRNA transcription | ISO GO_REF:0000119 | KEEP AS NON CORE | Summary: positive regulation of miRNA transcription reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:1903862 positive regulation of oxidative phosphorylation | ISO GO_REF:0000096 | KEEP AS NON CORE | Summary: positive regulation of oxidative phosphorylation reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:1904036 negative regulation of epithelial cell apoptotic process | ISO GO_REF:0000096 | KEEP AS NON CORE | Summary: negative regulation of epithelial cell apoptotic process reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:1905761 SCF ubiquitin ligase complex binding | ISO GO_REF:0000119 | KEEP AS NON CORE | Summary: SCF ubiquitin ligase complex binding reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc does not efficiently homodimerize or bind DNA alone; it requires MAX as an obligate heterodimerization partner for promoter binding and transcriptional activation. |
| GO:2001171 positive regulation of ATP biosynthetic process | ISO GO_REF:0000096 | KEEP AS NON CORE | Summary: positive regulation of ATP biosynthetic process reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0071943 Myc-Max complex | ISO GO_REF:0000119 | ACCEPT | Summary: Myc-Max complex is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc does not efficiently homodimerize or bind DNA alone; it requires MAX as an obligate heterodimerization partner for promoter binding and transcriptional activation. |
| GO:0090571 RNA polymerase II transcription repressor complex | ISO GO_REF:0000119 | ACCEPT | Summary: RNA polymerase II transcription repressor complex is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc does not efficiently homodimerize or bind DNA alone; it requires MAX as an obligate heterodimerization partner for promoter binding and transcriptional activation. |
| GO:0005634 nucleus | IDA PMID:20434984 c-Myc regulates transcriptional pause release. | ACCEPT | Summary: nucleus is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0045893 positive regulation of DNA-templated transcription | IDA PMID:20434984 c-Myc regulates transcriptional pause release. | MODIFY | Summary: PMID:20434984 supports Myc regulation of Pol II promoter-proximal pause release rather than a broad transcription-positive-regulation assertion. Reason: Use the more specific transcription-elongation term because the paper reports Myc acting mainly at Pol II pause release instead of recruitment. Proposed replacements: positive regulation of transcription elongation by RNA polymerase II Supporting Evidence: PMID:20434984 c-Myc regulates transcriptional pause release. PMID:20434984 c-Myc, a key regulator of cellular proliferation, plays a major role in Pol II pause release rather than Pol II recruitment at its target genes. |
| GO:0043161 proteasome-mediated ubiquitin-dependent protein catabolic process | ISO GO_REF:0000119 | KEEP AS NON CORE | Summary: proteasome-mediated ubiquitin-dependent protein catabolic process reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0016072 rRNA metabolic process | ISS GO_REF:0000024 | KEEP AS NON CORE | Summary: Myc regulates ribosome biogenesis and nucleolar transcription programs, but rRNA metabolism is a downstream growth program rather than the core Myc-Max DNA-binding function. Reason: Retain as non-core because Myc can drive ribosome-biogenesis programs, while the primary molecular function remains sequence-specific transcriptional regulation through Myc-Max. Supporting Evidence: file:mouse/Myc/Myc-deep-research-falcon.md Functional-annotation implication: this strengthens the mechanistic annotation of Myc as a regulator of ribosome biogenesis/nucleolar transcription programs, with clinically relevant downstream dependencies. |
| GO:0032206 positive regulation of telomere maintenance | IMP PMID:9637678 Myc activates telomerase. | KEEP AS NON CORE | Summary: positive regulation of telomere maintenance reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0045944 positive regulation of transcription by RNA polymerase II | IDA PMID:9637678 Myc activates telomerase. | ACCEPT | Summary: positive regulation of transcription by RNA polymerase II is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific | ISS GO_REF:0000024 | ACCEPT | Summary: DNA-binding transcription factor activity, RNA polymerase II-specific is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0001866 NK T cell proliferation | IMP PMID:19423665 Intrathymic proliferation wave essential for Valpha14+ natur... | KEEP AS NON CORE | Summary: NK T cell proliferation reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0000082 G1/S transition of mitotic cell cycle | ISS GO_REF:0000024 | KEEP AS NON CORE | Summary: G1/S transition of mitotic cell cycle is a well-known downstream Myc output, but not the direct core molecular function. Reason: The review defines the core function as Myc-Max E-box DNA-binding transcriptional regulation; proliferation and cell-cycle outputs should be retained as non-core consequences unless supported as the direct molecular activity. Supporting Evidence: file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier that controls genes involved in cell cycle entry, proliferation, metabolism, ribosome biogenesis, differentiation, apoptosis, development, tissue homeostasis, and regeneration file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. |
| GO:0005515 protein binding | IPI PMID:23277542 Domain-specific c-Myc ubiquitylation controls c-Myc transcri... | REMOVE | Summary: protein binding is not a useful retained annotation for Myc in this review. Reason: The annotation is too generic, unsupported as a direct Myc activity, or represents an interaction/process better captured by specific transcription factor and Myc-Max terms. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc is primarily a nuclear bHLH-leucine zipper transcription factor; generic binding, localization, and metabolic-output terms should not replace its direct DNA-binding transcriptional role. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report supports more informative terms for Myc than generic protein binding: bHLH-LZ-mediated MAX heterodimerization, Myc-Max complex formation, E-box DNA binding, and transcriptional regulation. |
| GO:0006355 regulation of DNA-templated transcription | IDA PMID:31005419 TAF5L and TAF6L Maintain Self-Renewal of Embryonic Stem Cell... | ACCEPT | Summary: regulation of DNA-templated transcription is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:1904672 regulation of somatic stem cell population maintenance | IDA PMID:31005419 TAF5L and TAF6L Maintain Self-Renewal of Embryonic Stem Cell... | KEEP AS NON CORE | Summary: regulation of somatic stem cell population maintenance reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0005654 nucleoplasm | TAS Reactome:R-MMU-9634437 | ACCEPT | Summary: nucleoplasm is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0060261 positive regulation of transcription initiation by RNA polymerase II | IDA PMID:26691508 Physical Interactions and Functional Coordination between th... | MODIFY | Summary: PMID:26691508 supports Myc-dependent activation of Set1/Mll core subunit expression during reprogramming, but not the specific mechanism of RNA polymerase II transcription initiation. Reason: Replace the initiation-specific term with a broader transcriptional activation term; independent Myc evidence also emphasizes Pol II pause release rather than recruitment/initiation at target genes. Proposed replacements: positive regulation of transcription by RNA polymerase II Supporting Evidence: PMID:26691508 Thus, Myc directly promotes the expression of two core subunits of the H3K4 methyltransferase complexes with a potential functional implication. PMID:20434984 c-Myc, a key regulator of cellular proliferation, plays a major role in Pol II pause release rather than Pol II recruitment at its target genes. |
| GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding | IDA PMID:18625840 Nucleophosmin and its AML-associated mutant regulate c-Myc t... | ACCEPT | Summary: RNA polymerase II cis-regulatory region sequence-specific DNA binding is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0005515 protein binding | IPI PMID:26523946 Combined Overexpression of JARID2, PRDM14, ESRRB, and SALL4A... | REMOVE | Summary: protein binding is not a useful retained annotation for Myc in this review. Reason: The annotation is too generic, unsupported as a direct Myc activity, or represents an interaction/process better captured by specific transcription factor and Myc-Max terms. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc is primarily a nuclear bHLH-leucine zipper transcription factor; generic binding, localization, and metabolic-output terms should not replace its direct DNA-binding transcriptional role. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report supports more informative terms for Myc than generic protein binding: bHLH-LZ-mediated MAX heterodimerization, Myc-Max complex formation, E-box DNA binding, and transcriptional regulation. |
| GO:0005634 nucleus | IDA PMID:18625840 Nucleophosmin and its AML-associated mutant regulate c-Myc t... | ACCEPT | Summary: nucleus is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0005634 nucleus | IDA PMID:22328504 TRIM6 interacts with Myc and maintains the pluripotency of m... | ACCEPT | Summary: nucleus is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0031625 ubiquitin protein ligase binding | IPI PMID:22328504 TRIM6 interacts with Myc and maintains the pluripotency of m... | KEEP AS NON CORE | Summary: TRIM6 ubiquitin-ligase binding is a regulatory ES-cell interaction for Myc, not a core Myc function. Reason: The paper supports TRIM6 interaction that attenuates Myc transcriptional activity in embryonic stem cells; this regulatory interaction should not be treated as core Myc-Max DNA-binding transcription factor activity. Supporting Evidence: PMID:22328504 TRIM6, one of the TRIM family ubiquitin ligases, was selectively expressed in ES cells and interacted with Myc PMID:22328504 TRIM6 regulates the transcriptional activity of Myc during the maintenance of ES cell pluripotency |
| GO:0048471 perinuclear region of cytoplasm | IDA PMID:22328504 TRIM6 interacts with Myc and maintains the pluripotency of m... | MARK AS OVER ANNOTATED | Summary: perinuclear region of cytoplasm likely overstates a direct role for Myc and is better interpreted as an indirect consequence of its transcriptional program. Reason: The core evidence supports Myc as a transcription factor; this term is too downstream, pathway-level, or weakly connected to a direct molecular function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0035457 cellular response to interferon-alpha | IDA PMID:24795346 Posttranscriptional regulation of c-Myc expression in adult ... | MARK AS OVER ANNOTATED | Summary: cellular response to interferon-alpha likely overstates a direct role for Myc and is better interpreted as an indirect consequence of its transcriptional program. Reason: The core evidence supports Myc as a transcription factor; this term is too downstream, pathway-level, or weakly connected to a direct molecular function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0000791 euchromatin | IDA PMID:22723415 Wnt/Ξ²-catenin signaling regulates telomerase in stem cells a... | ACCEPT | Summary: euchromatin is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0042981 regulation of apoptotic process | IMP PMID:23277542 Domain-specific c-Myc ubiquitylation controls c-Myc transcri... | KEEP AS NON CORE | Summary: regulation of apoptotic process reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0045944 positive regulation of transcription by RNA polymerase II | IDA PMID:23277542 Domain-specific c-Myc ubiquitylation controls c-Myc transcri... | ACCEPT | Summary: positive regulation of transcription by RNA polymerase II is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0005634 nucleus | IDA PMID:23770341 Overexpression of c-myc in hepatocytes promotes activation o... | ACCEPT | Summary: nucleus is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0010468 regulation of gene expression | ISO PMID:21447833 TIP110/p110nrb/SART3/p110 regulation of hematopoiesis throug... | ACCEPT | Summary: regulation of gene expression is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0008630 intrinsic apoptotic signaling pathway in response to DNA damage | IDA PMID:14517295 c-Myc augments gamma irradiation-induced apoptosis by suppre... | KEEP AS NON CORE | Summary: intrinsic apoptotic signaling pathway in response to DNA damage reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0008630 intrinsic apoptotic signaling pathway in response to DNA damage | IMP PMID:14517295 c-Myc augments gamma irradiation-induced apoptosis by suppre... | KEEP AS NON CORE | Summary: intrinsic apoptotic signaling pathway in response to DNA damage reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:2001235 positive regulation of apoptotic signaling pathway | IDA PMID:14517295 c-Myc augments gamma irradiation-induced apoptosis by suppre... | KEEP AS NON CORE | Summary: positive regulation of apoptotic signaling pathway reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:2001235 positive regulation of apoptotic signaling pathway | IMP PMID:14517295 c-Myc augments gamma irradiation-induced apoptosis by suppre... | KEEP AS NON CORE | Summary: positive regulation of apoptotic signaling pathway reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0035914 skeletal muscle cell differentiation | IMP PMID:22147266 Analysis of early C2C12 myogenesis identifies stably and dif... | KEEP AS NON CORE | Summary: skeletal muscle cell differentiation reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0000987 cis-regulatory region sequence-specific DNA binding | IDA PMID:15511642 A role for nucleoprotein Zap3 in the reduction of telomerase... | ACCEPT | Summary: cis-regulatory region sequence-specific DNA binding is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0005515 protein binding | IPI PMID:18438430 Pim kinase-dependent inhibition of c-Myc degradation. | REMOVE | Summary: protein binding is not a useful retained annotation for Myc in this review. Reason: The annotation is too generic, unsupported as a direct Myc activity, or represents an interaction/process better captured by specific transcription factor and Myc-Max terms. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc is primarily a nuclear bHLH-leucine zipper transcription factor; generic binding, localization, and metabolic-output terms should not replace its direct DNA-binding transcriptional role. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report supports more informative terms for Myc than generic protein binding: bHLH-LZ-mediated MAX heterodimerization, Myc-Max complex formation, E-box DNA binding, and transcriptional regulation. |
| GO:0006974 DNA damage response | IDA PMID:20212154 p38 MAPK/MK2-mediated induction of miR-34c following DNA dam... | KEEP AS NON CORE | Summary: DNA damage response reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0000165 MAPK cascade | ISS GO_REF:0000024 | KEEP AS NON CORE | Summary: MAPK cascade reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0006338 chromatin remodeling | ISS GO_REF:0000024 | ACCEPT | Summary: chromatin remodeling is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0006879 intracellular iron ion homeostasis | ISS GO_REF:0000024 | KEEP AS NON CORE | Summary: intracellular iron ion homeostasis reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0006974 DNA damage response | ISS GO_REF:0000024 | KEEP AS NON CORE | Summary: DNA damage response reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0032204 regulation of telomere maintenance | ISS GO_REF:0000024 | KEEP AS NON CORE | Summary: regulation of telomere maintenance reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0044877 protein-containing complex binding | ISS GO_REF:0000024 | ACCEPT | Summary: protein-containing complex binding is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc does not efficiently homodimerize or bind DNA alone; it requires MAX as an obligate heterodimerization partner for promoter binding and transcriptional activation. |
| GO:0045656 negative regulation of monocyte differentiation | ISS GO_REF:0000024 | KEEP AS NON CORE | Summary: negative regulation of monocyte differentiation reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0048146 positive regulation of fibroblast proliferation | ISS GO_REF:0000024 | KEEP AS NON CORE | Summary: positive regulation of fibroblast proliferation reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0050679 positive regulation of epithelial cell proliferation | ISS GO_REF:0000024 | KEEP AS NON CORE | Summary: positive regulation of epithelial cell proliferation reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0051276 chromosome organization | ISS GO_REF:0000024 | KEEP AS NON CORE | Summary: chromosome organization reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0051782 negative regulation of cell division | ISS GO_REF:0000024 | MARK AS OVER ANNOTATED | Summary: negative regulation of cell division likely overstates a direct role for Myc and is better interpreted as an indirect consequence of its transcriptional program. Reason: The core evidence supports Myc as a transcription factor; this term is too downstream, pathway-level, or weakly connected to a direct molecular function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0070888 E-box binding | ISS GO_REF:0000024 | ACCEPT | Summary: E-box binding is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0005634 nucleus | IDA PMID:19796622 Uncovering early response of gene regulatory networks in ESC... | ACCEPT | Summary: nucleus is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0009314 response to radiation | IMP PMID:14517295 c-Myc augments gamma irradiation-induced apoptosis by suppre... | MARK AS OVER ANNOTATED | Summary: response to radiation likely overstates a direct role for Myc and is better interpreted as an indirect consequence of its transcriptional program. Reason: The core evidence supports Myc as a transcription factor; this term is too downstream, pathway-level, or weakly connected to a direct molecular function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0016055 Wnt signaling pathway | IDA PMID:19056892 A functional link between Wnt signaling and SKP2-independent... | KEEP AS NON CORE | Summary: Wnt signaling pathway reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0005654 nucleoplasm | ISS GO_REF:0000024 | ACCEPT | Summary: nucleoplasm is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0005730 nucleolus | ISS GO_REF:0000024 | ACCEPT | Summary: nucleolus is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0045893 positive regulation of DNA-templated transcription | ISS GO_REF:0000024 | ACCEPT | Summary: positive regulation of DNA-templated transcription is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0090096 positive regulation of metanephric cap mesenchymal cell proliferation | IMP PMID:19161241 C-myc as a modulator of renal stem/progenitor cell populatio... | MARK AS OVER ANNOTATED | Summary: positive regulation of metanephric cap mesenchymal cell proliferation likely overstates a direct role for Myc and is better interpreted as an indirect consequence of its transcriptional program. Reason: The core evidence supports Myc as a transcription factor; this term is too downstream, pathway-level, or weakly connected to a direct molecular function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0001658 branching involved in ureteric bud morphogenesis | IMP PMID:19161241 C-myc as a modulator of renal stem/progenitor cell populatio... | KEEP AS NON CORE | Summary: branching involved in ureteric bud morphogenesis reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0002053 positive regulation of mesenchymal cell proliferation | IMP PMID:19161241 C-myc as a modulator of renal stem/progenitor cell populatio... | KEEP AS NON CORE | Summary: positive regulation of mesenchymal cell proliferation reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0000122 negative regulation of transcription by RNA polymerase II | IDA PMID:12196193 c-Myc represses the murine Nramp1 promoter. | ACCEPT | Summary: negative regulation of transcription by RNA polymerase II is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0030424 axon | IDA PMID:10482234 Requirement for the homeobox gene Hb9 in the consolidation o... | MARK AS OVER ANNOTATED | Summary: axon likely overstates a direct role for Myc and is better interpreted as an indirect consequence of its transcriptional program. Reason: The core evidence supports Myc as a transcription factor; this term is too downstream, pathway-level, or weakly connected to a direct molecular function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0002904 positive regulation of B cell apoptotic process | IGI PMID:11604501 Bax loss impairs Myc-induced apoptosis and circumvents the s... | KEEP AS NON CORE | Summary: positive regulation of B cell apoptotic process reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0008284 positive regulation of cell population proliferation | IDA PMID:12235125 Beta-catenin-induced melanoma growth requires the downstream... | KEEP AS NON CORE | Summary: positive regulation of cell population proliferation is a well-known downstream Myc output, but not the direct core molecular function. Reason: The review defines the core function as Myc-Max E-box DNA-binding transcriptional regulation; proliferation and cell-cycle outputs should be retained as non-core consequences unless supported as the direct molecular activity. Supporting Evidence: file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier that controls genes involved in cell cycle entry, proliferation, metabolism, ribosome biogenesis, differentiation, apoptosis, development, tissue homeostasis, and regeneration file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. |
| GO:0008284 positive regulation of cell population proliferation | IDA PMID:14517295 c-Myc augments gamma irradiation-induced apoptosis by suppre... | KEEP AS NON CORE | Summary: positive regulation of cell population proliferation is a well-known downstream Myc output, but not the direct core molecular function. Reason: The review defines the core function as Myc-Max E-box DNA-binding transcriptional regulation; proliferation and cell-cycle outputs should be retained as non-core consequences unless supported as the direct molecular activity. Supporting Evidence: file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier that controls genes involved in cell cycle entry, proliferation, metabolism, ribosome biogenesis, differentiation, apoptosis, development, tissue homeostasis, and regeneration file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. |
| GO:0008284 positive regulation of cell population proliferation | IGI PMID:17596282 Unique mechanisms of growth regulation and tumor suppression... | KEEP AS NON CORE | Summary: positive regulation of cell population proliferation is a well-known downstream Myc output, but not the direct core molecular function. Reason: The review defines the core function as Myc-Max E-box DNA-binding transcriptional regulation; proliferation and cell-cycle outputs should be retained as non-core consequences unless supported as the direct molecular activity. Supporting Evidence: file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier that controls genes involved in cell cycle entry, proliferation, metabolism, ribosome biogenesis, differentiation, apoptosis, development, tissue homeostasis, and regeneration file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. |
| GO:0043085 positive regulation of catalytic activity | IMP PMID:17382917 c-Myc is essential for urokinase plasminogen activator expre... | KEEP AS NON CORE | Summary: positive regulation of catalytic activity reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0045944 positive regulation of transcription by RNA polymerase II | IMP PMID:17382917 c-Myc is essential for urokinase plasminogen activator expre... | ACCEPT | Summary: positive regulation of transcription by RNA polymerase II is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0010468 regulation of gene expression | IDA PMID:11438662 Apoptosis triggered by Myc-induced suppression of Bcl-X(L) o... | ACCEPT | Summary: regulation of gene expression is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0005634 nucleus | IDA PMID:17631878 Epidermal hyperplasia and expansion of the interfollicular s... | ACCEPT | Summary: nucleus is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0001783 B cell apoptotic process | IMP PMID:12970677 c-Myc-deficient B lymphocytes are resistant to spontaneous a... | KEEP AS NON CORE | Summary: B cell apoptotic process reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0016485 protein processing | IMP PMID:12970677 c-Myc-deficient B lymphocytes are resistant to spontaneous a... | MARK AS OVER ANNOTATED | Summary: protein processing likely overstates a direct role for Myc and is better interpreted as an indirect consequence of its transcriptional program. Reason: The core evidence supports Myc as a transcription factor; this term is too downstream, pathway-level, or weakly connected to a direct molecular function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0043279 response to alkaloid | IMP PMID:12970677 c-Myc-deficient B lymphocytes are resistant to spontaneous a... | MARK AS OVER ANNOTATED | Summary: response to alkaloid likely overstates a direct role for Myc and is better interpreted as an indirect consequence of its transcriptional program. Reason: The core evidence supports Myc as a transcription factor; this term is too downstream, pathway-level, or weakly connected to a direct molecular function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0042474 middle ear morphogenesis | IMP PMID:17523175 Neural crest cell deficiency of c-myc causes skull and heari... | MARK AS OVER ANNOTATED | Summary: middle ear morphogenesis likely overstates a direct role for Myc and is better interpreted as an indirect consequence of its transcriptional program. Reason: The core evidence supports Myc as a transcription factor; this term is too downstream, pathway-level, or weakly connected to a direct molecular function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0043473 pigmentation | IMP PMID:17523175 Neural crest cell deficiency of c-myc causes skull and heari... | MARK AS OVER ANNOTATED | Summary: pigmentation likely overstates a direct role for Myc and is better interpreted as an indirect consequence of its transcriptional program. Reason: The core evidence supports Myc as a transcription factor; this term is too downstream, pathway-level, or weakly connected to a direct molecular function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0048705 skeletal system morphogenesis | IMP PMID:17523175 Neural crest cell deficiency of c-myc causes skull and heari... | KEEP AS NON CORE | Summary: skeletal system morphogenesis reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0050910 detection of mechanical stimulus involved in sensory perception of sound | IMP PMID:17523175 Neural crest cell deficiency of c-myc causes skull and heari... | MARK AS OVER ANNOTATED | Summary: detection of mechanical stimulus involved in sensory perception of sound likely overstates a direct role for Myc and is better interpreted as an indirect consequence of its transcriptional program. Reason: The core evidence supports Myc as a transcription factor; this term is too downstream, pathway-level, or weakly connected to a direct molecular function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0006355 regulation of DNA-templated transcription | IGI PMID:8521822 Mad3 and Mad4: novel Max-interacting transcriptional repress... | ACCEPT | Summary: regulation of DNA-templated transcription is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0016604 nuclear body | IDA PMID:15735755 PML interacts with Myc, and Myc target gene expression is al... | KEEP AS NON CORE | Summary: nuclear body reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0005634 nucleus | ISO PMID:15994933 Identification of a novel c-Myc protein interactor, JPO2, wi... | ACCEPT | Summary: nucleus is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0008284 positive regulation of cell population proliferation | ISO PMID:15994933 Identification of a novel c-Myc protein interactor, JPO2, wi... | KEEP AS NON CORE | Summary: positive regulation of cell population proliferation is a well-known downstream Myc output, but not the direct core molecular function. Reason: The review defines the core function as Myc-Max E-box DNA-binding transcriptional regulation; proliferation and cell-cycle outputs should be retained as non-core consequences unless supported as the direct molecular activity. Supporting Evidence: file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier that controls genes involved in cell cycle entry, proliferation, metabolism, ribosome biogenesis, differentiation, apoptosis, development, tissue homeostasis, and regeneration file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. |
| GO:0003677 DNA binding | IDA PMID:12970171 Deletion of Mnt leads to disrupted cell cycle control and tu... | ACCEPT | Summary: DNA binding is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0005819 spindle | IDA PMID:15509711 Serine-threonine kinases and transcription factors active in... | MARK AS OVER ANNOTATED | Summary: spindle likely overstates a direct role for Myc and is better interpreted as an indirect consequence of its transcriptional program. Reason: The core evidence supports Myc as a transcription factor; this term is too downstream, pathway-level, or weakly connected to a direct molecular function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0009314 response to radiation | IDA PMID:14517295 c-Myc augments gamma irradiation-induced apoptosis by suppre... | MARK AS OVER ANNOTATED | Summary: response to radiation likely overstates a direct role for Myc and is better interpreted as an indirect consequence of its transcriptional program. Reason: The core evidence supports Myc as a transcription factor; this term is too downstream, pathway-level, or weakly connected to a direct molecular function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0003677 DNA binding | IDA PMID:14560010 Miz1 is required for early embryonic development during gast... | ACCEPT | Summary: DNA binding is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
| GO:0042981 regulation of apoptotic process | IDA PMID:12235125 Beta-catenin-induced melanoma growth requires the downstream... | KEEP AS NON CORE | Summary: regulation of apoptotic process reflects a downstream, cell-type-specific, or pathway-level output of Myc transcriptional regulation rather than the core molecular activity. Reason: Myc drives broad growth, proliferation, metabolism, apoptosis, and differentiation programs; this annotation can be retained as non-core but should not define the primary function. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc controls broad transcriptional programs for growth, proliferation, metabolism, apoptosis, and differentiation; many process annotations are downstream or context-specific outputs rather than core molecular functions. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md The report distinguishes Myc core function as nuclear transcriptional regulation from downstream programs in proliferation, metabolism, ribosome biogenesis, apoptosis, development, and tissue homeostasis. |
| GO:0005634 nucleus | IDA PMID:11872843 Colorectal cancer in mice genetically deficient in the mucin... | ACCEPT | Summary: nucleus is consistent with Myc as a nuclear Myc-Max DNA-binding transcription factor that regulates RNA polymerase II target genes. Reason: The term directly reflects Myc DNA binding, transcription factor activity, Myc-Max complex formation, or nuclear/chromatin localization. Supporting Evidence: file:mouse/Myc/Myc-bioreason-rl-predictions.md Myc binds E-box DNA sequences as a heterodimer with MAX and regulates RNA polymerase II target gene expression. file:mouse/Myc/Myc-uniprot.txt Transcription factor that binds DNA in a non-specific manner, yet also specifically recognizes the core sequence 5'-CAC[GA]TG-3'. file:mouse/Myc/Myc-deep-research-falcon.md c-Myc is best annotated as a sequence-specific nuclear transcription regulator / transcriptional amplifier, with canonical nuclear localization and MYC:MAX E-box binding. |
Loading supporting contentβ¦
Download this section (compressed HTML)Q: Which mouse Myc metabolic and mitochondrial GO annotations represent direct Myc target-gene regulation versus downstream effects of altered growth state?
Q: Which Myc repressive functions through Miz1 or other cofactors should be represented as distinct non-core transcriptional mechanisms?
Experiment: Use Myc and Max perturbation with CUT&RUN/ChIP-seq plus nascent RNA profiling in mouse cells to separate direct Myc-Max target transcription from secondary metabolic and cell-cycle effects.
Experiment: Compare wild-type Myc with dimerization-defective and DNA-binding-defective mutants in mouse cells to test which GO process annotations require direct Myc-Max DNA binding.
Loading supporting contentβ¦
Download this section (compressed HTML)Loading supporting contentβ¦
Download this section (compressed HTML)Loading supporting contentβ¦
Download this section (compressed HTML)Loading supporting contentβ¦
Download this section (compressed HTML)