rows: 5005
rejected: 502
base_rejection_rate: 0.1003
rules:
  bp_any:
    flagged: 2814
    rejected: 414
    precision: 0.1471
    recall: 0.8247
    lift: 1.47
    examples_rejected:
    - ARATH/CYP71A12 GO:0006952 defense response [NAS PMID:31511315] MODIFY
    - DROME/Caf1-55 GO:0031507 heterochromatin formation [NAS PMID:35193659] MODIFY
    - DROME/aub GO:1900370 positive regulation of post-transcriptional gene silencing by RNA [IDA PMID:19959991] MARK_AS_OVER_ANNOTATED
    - DROME/cpa GO:0030989 dynein-driven meiotic oscillatory nuclear movement [NAS PMID:22726940] REMOVE
    - DROME/cpb GO:0030989 dynein-driven meiotic oscillatory nuclear movement [NAS PMID:22726940] REMOVE
  combo_bp_and_gene_not_named_in_full_text:
    flagged: 345
    rejected: 77
    precision: 0.2232
    recall: 0.1534
    lift: 2.23
    examples_rejected:
    - DROME/cpa GO:0030989 dynein-driven meiotic oscillatory nuclear movement [NAS PMID:22726940] REMOVE
    - DROME/cpb GO:0030989 dynein-driven meiotic oscillatory nuclear movement [NAS PMID:22726940] REMOVE
    - SCHPO/rfc3 GO:0006260 DNA replication [NAS PMID:20505337] MODIFY
    - human/AP1S2 GO:0060155 platelet dense granule organization [NAS PMID:23247405] MARK_AS_OVER_ANNOTATED
    - human/AP1S2 GO:1903232 melanosome assembly [NAS PMID:23247405] MARK_AS_OVER_ANNOTATED
  combo_bp_and_paper_cited_only_by_cp:
    flagged: 1317
    rejected: 199
    precision: 0.1511
    recall: 0.3964
    lift: 1.51
    examples_rejected:
    - DROME/Caf1-55 GO:0031507 heterochromatin formation [NAS PMID:35193659] MODIFY
    - DROME/cpa GO:0030989 dynein-driven meiotic oscillatory nuclear movement [NAS PMID:22726940] REMOVE
    - DROME/cpb GO:0030989 dynein-driven meiotic oscillatory nuclear movement [NAS PMID:22726940] REMOVE
    - ECOLI/fliI GO:0006935 chemotaxis [NAS PMID:31337100] MARK_AS_OVER_ANNOTATED
    - SCHPO/gaa1 GO:0016255 attachment of GPI anchor to protein [NAS PMID:15003443] REMOVE
  combo_bp_and_promiscuous_subunit:
    flagged: 960
    rejected: 182
    precision: 0.1896
    recall: 0.3625
    lift: 1.89
    examples_rejected:
    - DROME/Caf1-55 GO:0031507 heterochromatin formation [NAS PMID:35193659] MODIFY
    - DROME/kirre GO:1901739 regulation of myoblast fusion [NAS PMID:11684662] MODIFY
    - DROME/kirre GO:1901739 regulation of myoblast fusion [IDA PMID:11684662] MODIFY
    - DROME/rst GO:1901739 regulation of myoblast fusion [NAS PMID:11684662] MODIFY
    - DROME/rst GO:1901739 regulation of myoblast fusion [IDA PMID:11684662] MODIFY
  combo_bp_and_review_paper:
    flagged: 564
    rejected: 95
    precision: 0.1684
    recall: 0.1892
    lift: 1.68
    examples_rejected:
    - DROME/Caf1-55 GO:0031507 heterochromatin formation [NAS PMID:35193659] MODIFY
    - ECOLI/fliI GO:0006935 chemotaxis [NAS PMID:31337100] MARK_AS_OVER_ANNOTATED
    - human/ADRM1 GO:0071357 cellular response to type I interferon [NAS PMID:31380390] MARK_AS_OVER_ANNOTATED
    - human/AHCTF1 GO:0006913 nucleocytoplasmic transport [NAS PMID:27016207] MODIFY
    - human/AP1S2 GO:0060155 platelet dense granule organization [NAS PMID:23247405] MARK_AS_OVER_ANNOTATED
  combo_outcome_term_and_paper_cited_only_by_cp:
    flagged: 396
    rejected: 89
    precision: 0.2247
    recall: 0.1773
    lift: 2.24
    examples_rejected:
    - human/ABRAXAS1 GO:0006282 regulation of DNA repair [NAS PMID:20656689] MODIFY
    - human/ABRAXAS2 GO:0034516 response to vitamin B6 [NAS PMID:31142841] MODIFY
    - human/ADRM1 GO:0071357 cellular response to type I interferon [NAS PMID:31380390] MARK_AS_OVER_ANNOTATED
    - human/AHNAK GO:1905686 positive regulation of plasma membrane repair [NAS PMID:22940583] MARK_AS_OVER_ANNOTATED
    - human/ATXN7 GO:0006282 regulation of DNA repair [NAS PMID:11406595] MARK_AS_OVER_ANNOTATED
  combo_outcome_term_and_promiscuous_subunit:
    flagged: 396
    rejected: 116
    precision: 0.2929
    recall: 0.2311
    lift: 2.92
    examples_rejected:
    - DROME/kirre GO:1901739 regulation of myoblast fusion [NAS PMID:11684662] MODIFY
    - DROME/kirre GO:1901739 regulation of myoblast fusion [IDA PMID:11684662] MODIFY
    - DROME/rst GO:1901739 regulation of myoblast fusion [NAS PMID:11684662] MODIFY
    - DROME/rst GO:1901739 regulation of myoblast fusion [IDA PMID:11684662] MODIFY
    - human/ADRM1 GO:0006979 response to oxidative stress [NAS PMID:35858375] MARK_AS_OVER_ANNOTATED
  combo_outcome_term_and_review_paper:
    flagged: 119
    rejected: 25
    precision: 0.2101
    recall: 0.0498
    lift: 2.09
    examples_rejected:
    - human/ADRM1 GO:0071357 cellular response to type I interferon [NAS PMID:31380390] MARK_AS_OVER_ANNOTATED
    - human/BCL10 GO:0043122 regulation of canonical NF-kappaB signal transduction [NAS PMID:30467369] MODIFY
    - human/CDC20 GO:0007346 regulation of mitotic cell cycle [NAS PMID:15678131] MODIFY
    - human/CDC20 GO:0051445 regulation of meiotic cell cycle [NAS PMID:15678131] MODIFY
    - human/DYNC1H1 GO:0032388 positive regulation of intracellular transport [NAS PMID:33957056] MODIFY
  combo_outcome_term_and_uncorroborated:
    flagged: 827
    rejected: 193
    precision: 0.2334
    recall: 0.3845
    lift: 2.33
    examples_rejected:
    - DROME/aub GO:1900370 positive regulation of post-transcriptional gene silencing by RNA [IDA PMID:19959991] MARK_AS_OVER_ANNOTATED
    - DROME/fu GO:0000122 negative regulation of transcription by RNA polymerase II [NAS PMID:9244297] MARK_AS_OVER_ANNOTATED
    - DROME/kirre GO:1901739 regulation of myoblast fusion [NAS PMID:11684662] MODIFY
    - DROME/kirre GO:1901739 regulation of myoblast fusion [IDA PMID:11684662] MODIFY
    - DROME/rst GO:1901739 regulation of myoblast fusion [NAS PMID:11684662] MODIFY
  combo_regulation_and_uncorroborated:
    flagged: 720
    rejected: 164
    precision: 0.2278
    recall: 0.3267
    lift: 2.27
    examples_rejected:
    - DROME/aub GO:1900370 positive regulation of post-transcriptional gene silencing by RNA [IDA PMID:19959991] MARK_AS_OVER_ANNOTATED
    - DROME/fu GO:0000122 negative regulation of transcription by RNA polymerase II [NAS PMID:9244297] MARK_AS_OVER_ANNOTATED
    - DROME/kirre GO:1901739 regulation of myoblast fusion [NAS PMID:11684662] MODIFY
    - DROME/kirre GO:1901739 regulation of myoblast fusion [IDA PMID:11684662] MODIFY
    - DROME/rst GO:1901739 regulation of myoblast fusion [NAS PMID:11684662] MODIFY
  conflicts_with_NOT_annotation:
    flagged: 4
    rejected: 0
    precision: 0.0
    recall: 0.0
    lift: 0.0
    examples_rejected: []
  developmental_term:
    flagged: 88
    rejected: 17
    precision: 0.1932
    recall: 0.0339
    lift: 1.93
    examples_rejected:
    - human/CUL1 GO:0014033 neural crest cell differentiation [NAS PMID:30190310] MARK_AS_OVER_ANNOTATED
    - human/CUL1 GO:0060173 limb development [NAS PMID:10471509] MARK_AS_OVER_ANNOTATED
    - human/PDZD7 GO:0060113 inner ear receptor cell differentiation [NAS PMID:25406310] MODIFY
    - human/PSMA1 GO:0043374 CD8-positive, alpha-beta T cell differentiation [NAS PMID:33019542] MARK_AS_OVER_ANNOTATED
    - human/PSMA1 GO:0045063 T-helper 1 cell differentiation [NAS PMID:30104634] MARK_AS_OVER_ANNOTATED
  gene_not_named_in_abstract_or_short_text:
    flagged: 2049
    rejected: 183
    precision: 0.0893
    recall: 0.3645
    lift: 0.89
    examples_rejected:
    - DROME/fu GO:0000122 negative regulation of transcription by RNA polymerase II [NAS PMID:9244297] MARK_AS_OVER_ANNOTATED
    - DROME/kirre GO:1901739 regulation of myoblast fusion [NAS PMID:11684662] MODIFY
    - DROME/kirre GO:1901739 regulation of myoblast fusion [IDA PMID:11684662] MODIFY
    - DROME/rst GO:1901739 regulation of myoblast fusion [NAS PMID:11684662] MODIFY
    - DROME/rst GO:1901739 regulation of myoblast fusion [IDA PMID:11684662] MODIFY
  gene_not_named_in_cached_text:
    flagged: 2621
    rejected: 271
    precision: 0.1034
    recall: 0.5398
    lift: 1.03
    examples_rejected:
    - DROME/cpa GO:0030989 dynein-driven meiotic oscillatory nuclear movement [NAS PMID:22726940] REMOVE
    - DROME/cpb GO:0030989 dynein-driven meiotic oscillatory nuclear movement [NAS PMID:22726940] REMOVE
    - DROME/fu GO:0000122 negative regulation of transcription by RNA polymerase II [NAS PMID:9244297] MARK_AS_OVER_ANNOTATED
    - DROME/kirre GO:1901739 regulation of myoblast fusion [NAS PMID:11684662] MODIFY
    - DROME/kirre GO:1901739 regulation of myoblast fusion [IDA PMID:11684662] MODIFY
  gene_not_named_in_full_text:
    flagged: 572
    rejected: 88
    precision: 0.1538
    recall: 0.1753
    lift: 1.53
    examples_rejected:
    - DROME/cpa GO:0030989 dynein-driven meiotic oscillatory nuclear movement [NAS PMID:22726940] REMOVE
    - DROME/cpb GO:0030989 dynein-driven meiotic oscillatory nuclear movement [NAS PMID:22726940] REMOVE
    - SCHPO/rfc3 GO:0006260 DNA replication [NAS PMID:20505337] MODIFY
    - human/AP1S2 GO:0060155 platelet dense granule organization [NAS PMID:23247405] MARK_AS_OVER_ANNOTATED
    - human/AP1S2 GO:1903232 melanosome assembly [NAS PMID:23247405] MARK_AS_OVER_ANNOTATED
  negative_regulation_term:
    flagged: 120
    rejected: 18
    precision: 0.15
    recall: 0.0359
    lift: 1.5
    examples_rejected:
    - DROME/fu GO:0000122 negative regulation of transcription by RNA polymerase II [NAS PMID:9244297] MARK_AS_OVER_ANNOTATED
    - human/BAK1 GO:0090201 negative regulation of release of cytochrome c from mitochondria [IDA PMID:15901672] REMOVE
    - human/BAK1 GO:1901029 negative regulation of mitochondrial outer membrane permeabilization involved in apoptotic signaling pathway [IDA PMID:15901672] REMOVE
    - human/DFFB GO:1902511 negative regulation of apoptotic DNA fragmentation [IDA PMID:11371636] REMOVE
    - human/KRAS GO:0043069 negative regulation of programmed cell death [NAS PMID:39788953] MARK_AS_OVER_ANNOTATED
  paper_also_cited_by_other_groups_in_goa:
    flagged: 2854
    rejected: 272
    precision: 0.0953
    recall: 0.5418
    lift: 0.95
    examples_rejected:
    - ARATH/CYP71A12 GO:0006952 defense response [NAS PMID:31511315] MODIFY
    - DROME/aub GO:1900370 positive regulation of post-transcriptional gene silencing by RNA [IDA PMID:19959991] MARK_AS_OVER_ANNOTATED
    - DROME/fu GO:0000122 negative regulation of transcription by RNA polymerase II [NAS PMID:9244297] MARK_AS_OVER_ANNOTATED
    - DROME/kirre GO:1901739 regulation of myoblast fusion [NAS PMID:11684662] MODIFY
    - DROME/kirre GO:1901739 regulation of myoblast fusion [IDA PMID:11684662] MODIFY
  paper_cited_only_by_cp_in_all_goa:
    flagged: 2121
    rejected: 229
    precision: 0.108
    recall: 0.4562
    lift: 1.08
    examples_rejected:
    - DROME/Caf1-55 GO:0031507 heterochromatin formation [NAS PMID:35193659] MODIFY
    - DROME/Dph1 GO:1902494 catalytic complex [NAS PMID:30877278] MODIFY
    - DROME/Dph2 GO:1902494 catalytic complex [NAS PMID:30877278] MODIFY
    - DROME/cpa GO:0030989 dynein-driven meiotic oscillatory nuclear movement [NAS PMID:22726940] REMOVE
    - DROME/cpb GO:0030989 dynein-driven meiotic oscillatory nuclear movement [NAS PMID:22726940] REMOVE
  paper_is_review:
    flagged: 812
    rejected: 105
    precision: 0.1293
    recall: 0.2092
    lift: 1.29
    examples_rejected:
    - DROME/Caf1-55 GO:0031507 heterochromatin formation [NAS PMID:35193659] MODIFY
    - ECOLI/fliI GO:0006935 chemotaxis [NAS PMID:31337100] MARK_AS_OVER_ANNOTATED
    - ECOLI/fliI GO:0009288 bacterial-type flagellum [NAS PMID:31337100] MODIFY
    - human/ADRM1 GO:0071357 cellular response to type I interferon [NAS PMID:31380390] MARK_AS_OVER_ANNOTATED
    - human/AHCTF1 GO:0006913 nucleocytoplasmic transport [NAS PMID:27016207] MODIFY
  paper_is_review_and_cited_only_by_cp:
    flagged: 787
    rejected: 96
    precision: 0.122
    recall: 0.1912
    lift: 1.22
    examples_rejected:
    - DROME/Caf1-55 GO:0031507 heterochromatin formation [NAS PMID:35193659] MODIFY
    - ECOLI/fliI GO:0006935 chemotaxis [NAS PMID:31337100] MARK_AS_OVER_ANNOTATED
    - ECOLI/fliI GO:0009288 bacterial-type flagellum [NAS PMID:31337100] MODIFY
    - human/ADRM1 GO:0071357 cellular response to type I interferon [NAS PMID:31380390] MARK_AS_OVER_ANNOTATED
    - human/AHCTF1 GO:0006913 nucleocytoplasmic transport [NAS PMID:27016207] MODIFY
  paper_not_used_by_other_group_for_gene:
    flagged: 3208
    rejected: 382
    precision: 0.1191
    recall: 0.761
    lift: 1.19
    examples_rejected:
    - DROME/Caf1-55 GO:0031507 heterochromatin formation [NAS PMID:35193659] MODIFY
    - DROME/Dph1 GO:1902494 catalytic complex [NAS PMID:30877278] MODIFY
    - DROME/Dph2 GO:1902494 catalytic complex [NAS PMID:30877278] MODIFY
    - DROME/cpa GO:0030989 dynein-driven meiotic oscillatory nuclear movement [NAS PMID:22726940] REMOVE
    - DROME/cpb GO:0030989 dynein-driven meiotic oscillatory nuclear movement [NAS PMID:22726940] REMOVE
  positive_regulation_term:
    flagged: 213
    rejected: 47
    precision: 0.2207
    recall: 0.0936
    lift: 2.2
    examples_rejected:
    - DROME/aub GO:1900370 positive regulation of post-transcriptional gene silencing by RNA [IDA PMID:19959991] MARK_AS_OVER_ANNOTATED
    - SCHPO/poz1 GO:0032206 positive regulation of telomere maintenance [NAS PMID:18535244] MODIFY
    - human/AHNAK GO:1905686 positive regulation of plasma membrane repair [NAS PMID:22940583] MARK_AS_OVER_ANNOTATED
    - human/BAK1 GO:0090200 positive regulation of release of cytochrome c from mitochondria [NAS PMID:32929280] MODIFY
    - human/CD4 GO:0050729 positive regulation of inflammatory response [NAS PMID:9422780] REMOVE
  promiscuous_subunit_ge5_cp_refs:
    flagged: 1493
    rejected: 205
    precision: 0.1373
    recall: 0.4084
    lift: 1.37
    examples_rejected:
    - DROME/Caf1-55 GO:0031507 heterochromatin formation [NAS PMID:35193659] MODIFY
    - DROME/kirre GO:1901739 regulation of myoblast fusion [NAS PMID:11684662] MODIFY
    - DROME/kirre GO:1901739 regulation of myoblast fusion [IDA PMID:11684662] MODIFY
    - DROME/rst GO:1901739 regulation of myoblast fusion [NAS PMID:11684662] MODIFY
    - DROME/rst GO:1901739 regulation of myoblast fusion [IDA PMID:11684662] MODIFY
  regulation_term:
    flagged: 751
    rejected: 164
    precision: 0.2184
    recall: 0.3267
    lift: 2.18
    examples_rejected:
    - DROME/aub GO:1900370 positive regulation of post-transcriptional gene silencing by RNA [IDA PMID:19959991] MARK_AS_OVER_ANNOTATED
    - DROME/fu GO:0000122 negative regulation of transcription by RNA polymerase II [NAS PMID:9244297] MARK_AS_OVER_ANNOTATED
    - DROME/kirre GO:1901739 regulation of myoblast fusion [NAS PMID:11684662] MODIFY
    - DROME/kirre GO:1901739 regulation of myoblast fusion [IDA PMID:11684662] MODIFY
    - DROME/rst GO:1901739 regulation of myoblast fusion [NAS PMID:11684662] MODIFY
  response_to_term:
    flagged: 85
    rejected: 20
    precision: 0.2353
    recall: 0.0398
    lift: 2.35
    examples_rejected:
    - human/ABRAXAS2 GO:0034516 response to vitamin B6 [NAS PMID:31142841] MODIFY
    - human/ADRM1 GO:0006979 response to oxidative stress [NAS PMID:35858375] MARK_AS_OVER_ANNOTATED
    - human/ADRM1 GO:0071357 cellular response to type I interferon [NAS PMID:31380390] MARK_AS_OVER_ANNOTATED
    - human/BABAM1 GO:0034516 response to vitamin B6 [NAS PMID:31142841] MARK_AS_OVER_ANNOTATED
    - human/BABAM2 GO:0034516 response to vitamin B6 [NAS PMID:31142841] MARK_AS_OVER_ANNOTATED
  same_paper_other_terms_only_by_other_group:
    flagged: 1352
    rejected: 118
    precision: 0.0873
    recall: 0.2351
    lift: 0.87
    examples_rejected:
    - ARATH/CYP71A12 GO:0006952 defense response [NAS PMID:31511315] MODIFY
    - DROME/aub GO:1900370 positive regulation of post-transcriptional gene silencing by RNA [IDA PMID:19959991] MARK_AS_OVER_ANNOTATED
    - DROME/fu GO:0000122 negative regulation of transcription by RNA polymerase II [NAS PMID:9244297] MARK_AS_OVER_ANNOTATED
    - ECOLI/SecG GO:0016020 membrane [IDA PMID:8253068] MODIFY
    - ECOLI/SecG GO:0016020 membrane [NAS PMID:8253068] MODIFY
  same_paper_same_term_by_other_group:
    flagged: 445
    rejected: 2
    precision: 0.0045
    recall: 0.004
    lift: 0.04
    examples_rejected:
    - human/CCDC47 GO:0045048 protein insertion into ER membrane [IDA PMID:32814900] MODIFY
    - human/CHMP6 GO:0039702 viral budding via host ESCRT complex [IDA PMID:24878737] MARK_AS_OVER_ANNOTATED