Citation defect register
Generated by harvest_citations.py over 4467 review files.
Of the defect-flagged citations, 233 came from GOA (they appear as an annotation's original_reference_id, so the fix belongs to the assigning group) and 52 were added by a reviewer here.
Counts
| Flag | Gene-level rows | Distinct citations |
|---|---|---|
| WRONG_IDENTIFIER | 28 | 21 |
| MISCITED | 257 | 215 |
| DISPUTED | 75 | - |
| LOW_QUALITY | 99 | - |
Citations poisoning more than one gene (7)
A single bad citation reused across paralogs or complex partners. One upstream
correction clears every listed gene.
| Citation | Genes |
|---|---|
PMID:23209302 |
human/ACOX1, human/NDUFA8, human/SLC25A3 |
PMID:10970790 |
human/ELOVL1, human/ELOVL2, human/ELOVL3 |
PMID:25732826 |
human/NAA10, human/NAA40 |
PMID:39329031 |
human/NPLOC4, human/UFD1 |
PMID:23264731 |
human/SERP1, human/SRPRB |
PMID:17469741 |
human/UPF1, human/UPF2 |
PMID:19037698 |
yeast/TIM10, yeast/TIM9 |
Contamination spread (7)
Citations flagged WRONG_IDENTIFIER in at least one review that are still cited
without a flag elsewhere. These are unreviewed instances of a known-bad citation
and are the highest-value triage targets.
| Citation | Flagged in | Unflagged uses |
|---|---|---|
PMID:23209302 |
human/ACOX1, human/NDUFA8, human/SLC25A3 | human/KRAS, human/NDUFA4, human/NDUFA9, human/NRAS, mouse/Kras |
PMID:34521819 |
human/STAT2 | human/JAK1, human/STAT1 |
PMID:10970790 |
human/ELOVL1, human/ELOVL2, human/ELOVL3 | human/ELOVL5 |
PMID:25732826 |
human/NAA10, human/NAA40 | human/NAA30 |
PMID:39329031 |
human/NPLOC4, human/UFD1 | human/VCP |
PMID:8078902 |
yeast/COX17 | human/COX10 |
PMID:23267104 |
yeast/TIM10 | yeast/LSM1 |
All WRONG_IDENTIFIER citations (21)
| Citation | Genes | Note |
|---|---|---|
PMID:23209302 |
human/ACOX1, human/NDUFA8, human/SLC25A3 | Full text read; this paper concerns KIF14/Radil/Rap1a signaling in breast cancer and does not mention NDUFA8 or mitochondrial Complex I. It is the citation behi |
PMID:34521819 |
human/STAT2 | Verified via NCBI eutils esummary that PMID:34521819 returns "cannot get document summary" - the identifier does not resolve to any PubMed record and is most li |
PMID:10970790 |
human/ELOVL1, human/ELOVL2, human/ELOVL3 | Describes cloning of "HELO1", a 299-aa human PUFA elongase converting C18->C20 PUFA (gamma-linolenic->dihomo-gamma-linolenic, stearidonic->eicosatetraenoic, alp |
PMID:25732826 |
human/NAA10, human/NAA40 | This PMID resolves to the Aksnes et al. Naa60 study (a different N-terminal acetyltransferase, NAA60); it does not specifically characterize NAA10. Title correc |
PMID:39329031 |
human/NPLOC4, human/UFD1 | PMID:39329031 is a clinical study of intellectual disability in Morocco and does not concern the VCP-NPL4-UFD1 complex. It is mis-attached to ComplexPortal comp |
PMID:8078902 |
yeast/COX17 | PubMed-verified: the record is the COX10 (heme A:farnesyltransferase) cloning paper, not a COX17 study. It sources both the GO:0018343 protein farnesylation row |
PMID:23267104 |
yeast/TIM10 | Full-text inspection found an E. coli-only interaction study with no yeast, Tim10, or Tim12 mention; it cannot support the TIM10-TIM12 IPI row. |
PMID:23264731 |
human/SERP1, human/SRPRB | Full text (now cached, full_text_available) is entirely about MTR120/KIAA1383 and never mentions or assays SRPRB (no occurrence of SRPRB / SR-beta / SRP recepto |
PMID:17469741 |
human/UPF1, human/UPF2 | Cited as a UPF1 protein binding (IPI) source but the resolved title is a melanoma serum-marker study unrelated to UPF1; appears to be an incorrect identifier in |
PMID:19037698 |
yeast/TIM10, yeast/TIM9 | The cached full text is an unrelated colorectal-surgery article. The GO term is independently correct for TIM10, but this identifier cannot support it and may b |
PMID:18673369 |
DICDI/gbpC | This PMID is a Legionella pneumophila SidC effector study with no relation to GbpC or cGMP binding. It is cited in GOA as the reference for GbpC cGMP binding (I |
PMID:10973066 |
DROME/insc | Cited (TAS) for insc sensory organ development, but this is a review of cardiac/heart development in zebrafish and Drosophila; the abstract does not mention ins |
PMID:9700395 |
SCHPO/sel0 | This PMID resolves to a 1998 Australian Veterinary Journal editorial ("Education and research: where are we going?", Niethe G) that has no connection to SelO, A |
PMID:12464675 |
human/ADPRH | A gene-symbol collision, not a finding about this gene. The "ARH1" of this paper is the autosomal recessive hypercholesterolaemia adaptor protein LDLRAP1, which |
PMID:14504288 |
human/BRIP1 | This paper concerns the UNRELATED bZIP/BTB transcription factor BACH1 (BTB and CNC homology 1; UniProt O14867), a transcriptional repressor of heme oxygenase-1, |
PMID:8081953 |
human/GMPS | Cited by the MGI GO:0003921 (GMP synthase activity) IDA annotation, but this PMID resolves to a rat glomerular mesangial-cell growth paper (Harendza et al. 1993 |
PMID:22586271 |
human/HADHA | Full text available and confirms this paper is entirely about Them5/Acot15 with no mention of HADHA. The GO:0052816 (long-chain fatty acyl-CoA hydrolase) IDA on |
PMID:15364918 |
human/KDSR | This PMID is a study of IP3R1 lateral diffusion in neurons and does not concern KDSR, yet it is cited as the MGI IDA source for three KDSR annotations (ER local |
PMID:37602378 |
human/LOXL1 | PubMed and the full cached article were checked. PMID:37602378 is exclusively a HELZ2 RNA-helicase/exoribonuclease paper and contains no LOXL1 evidence. This is |
PMID:599155 |
human/NT5C1A | PMID:599155 (Waku & Nakazawa 1977, J Biochem) is an Ehrlich-ascites acyltransferase paper unrelated to NT5C1A. It is a transcription error in GOA for PMID:75991 |
PMID:11863358 |
human/SIAH1 | The cited paper (APOBEC RNA-editing enzymes) has no relation to SIAH1 - the cached abstract contains zero mention of SIAH1/seven-in-absentia. The zinc ion bindi |