Affinage retrieval recall (n=91 scored)
Generated by retrieval_recall.py — do not edit by hand.
- Affinage PMIDs returned: 1344
- PMIDs cited by finished reviews: 1626 (of which 908 were already supplied by GOA)
- References the reviews had to find: 718
- ... supplied by Affinage: 371 (pooled novel-reference recall = 52%)
- Fraction of Affinage's returned refs the reviews used: 39%
Trust gates across scored genes: {'False': 4, 'True': 29, 'absent': 58}
Reports returning zero PMIDs (6): AADACL2, AADACL3, AADACL4, ACP7, ACTL10, ACTR8
Genes where Affinage supplied none of the novel references (7): AADACL2, AADACL3, AADACL4, ACP7, ACTL10, ACTR1B, ACTR8
Does recall depend on how well-studied the gene is?
Covers the 90 of 91 scored genes with at least one novel reference; a gene whose references were all GOA-supplied has no recall to measure and is excluded.
| curation depth | genes | novel refs | supplied | recall |
|---|---|---|---|---|
| dark (0-2 GOA refs) | 25 | 167 | 87 | 52% |
| medium (3-9) | 41 | 436 | 220 | 50% |
| well-studied (10+) | 24 | 115 | 64 | 56% |
| gene | gates | aff | review | GOA | novel | hits | novel recall | used |
|---|---|---|---|---|---|---|---|---|
| AADACL2 | absent | 0 | 6 | 0 | 6 | 0 | 0% | n/a |
| AADACL3 | absent | 0 | 3 | 0 | 3 | 0 | 0% | n/a |
| AADACL4 | absent | 0 | 4 | 0 | 4 | 0 | 0% | n/a |
| ACP7 | absent | 0 | 1 | 0 | 1 | 0 | 0% | n/a |
| ACTL10 | True | 0 | 2 | 0 | 2 | 0 | 0% | n/a |
| ACTR1B | absent | 4 | 21 | 8 | 13 | 0 | 0% | 25% |
| ACTR8 | absent | 0 | 27 | 12 | 15 | 0 | 0% | n/a |
| AGFG1 | True | 2 | 20 | 6 | 14 | 1 | 7% | 100% |
| ACTR1A | absent | 2 | 23 | 7 | 16 | 2 | 12% | 100% |
| ADCK5 | True | 5 | 9 | 3 | 6 | 1 | 17% | 20% |
| ADAMTSL3 | False | 5 | 31 | 3 | 28 | 5 | 18% | 100% |
| ACTR5 | absent | 2 | 24 | 14 | 10 | 2 | 20% | 100% |
| ADNP | True | 28 | 33 | 8 | 25 | 5 | 20% | 18% |
| ACTR10 | absent | 3 | 16 | 2 | 14 | 3 | 21% | 100% |
| ACAP3 | absent | 5 | 20 | 2 | 18 | 4 | 22% | 80% |
| ACTA1 | True | 11 | 23 | 14 | 9 | 2 | 22% | 27% |
| ADIRF | True | 2 | 12 | 4 | 8 | 2 | 25% | 100% |
| ACTL7B | absent | 5 | 9 | 2 | 7 | 2 | 29% | 60% |
| FANCB | absent | 8 | 11 | 4 | 7 | 2 | 29% | 25% |
| ACAN | absent | 14 | 9 | 6 | 3 | 1 | 33% | 7% |
| ADPRS | True | 17 | 29 | 20 | 9 | 3 | 33% | 59% |
| ACTA2 | True | 20 | 32 | 9 | 23 | 8 | 35% | 40% |
| ACTG2 | True | 13 | 17 | 3 | 14 | 5 | 36% | 38% |
| ADCK2 | True | 5 | 15 | 4 | 11 | 4 | 36% | 100% |
| AGFG2 | True | 4 | 12 | 1 | 11 | 4 | 36% | 100% |
| ADGRA2 | True | 10 | 23 | 8 | 15 | 6 | 40% | 100% |
| ADCK1 | True | 5 | 12 | 3 | 9 | 4 | 44% | 100% |
| AAMDC | absent | 2 | 7 | 3 | 4 | 2 | 50% | 100% |
| ACBD3 | absent | 34 | 16 | 12 | 4 | 2 | 50% | 29% |
| ADIPOQ | True | 19 | 37 | 27 | 10 | 5 | 50% | 42% |
| FANCL | absent | 22 | 14 | 12 | 2 | 1 | 50% | 18% |
| RAD51 | absent | 45 | 100 | 98 | 2 | 1 | 50% | 9% |
| ADGRA3 | True | 12 | 20 | 3 | 17 | 9 | 53% | 75% |
| ACTRT2 | True | 5 | 10 | 1 | 9 | 5 | 56% | 100% |
| BRCA1 | absent | 22 | 112 | 105 | 7 | 4 | 57% | 41% |
| AFF4 | True | 26 | 40 | 8 | 32 | 19 | 59% | 77% |
| A1BG | absent | 6 | 12 | 7 | 5 | 3 | 60% | 50% |
| ACTL7A | absent | 13 | 17 | 7 | 10 | 6 | 60% | 69% |
| ACTRT3 | True | 3 | 6 | 1 | 5 | 3 | 60% | 100% |
| ADNP2 | True | 6 | 16 | 6 | 10 | 6 | 60% | 100% |
| ADPRHL1 | True | 6 | 10 | 0 | 10 | 6 | 60% | 100% |
| AEBP2 | True | 22 | 19 | 4 | 15 | 9 | 60% | 50% |
| ATXN3 | absent | 24 | 23 | 18 | 5 | 3 | 60% | 12% |
| ACAP1 | absent | 10 | 18 | 5 | 13 | 8 | 62% | 80% |
| AFF3 | True | 15 | 25 | 3 | 22 | 14 | 64% | 100% |
| ABRACL | absent | 8 | 6 | 0 | 6 | 4 | 67% | 50% |
| ACRV1 | absent | 13 | 14 | 2 | 12 | 8 | 67% | 69% |
| ACTMAP | True | 3 | 4 | 1 | 3 | 2 | 67% | 100% |
| ADISSP | False | 5 | 7 | 1 | 6 | 4 | 67% | 100% |
| ADPRH | False | 14 | 18 | 5 | 13 | 9 | 69% | 79% |
| AFF1 | True | 23 | 20 | 7 | 13 | 9 | 69% | 39% |
| ADAMTSL1 | True | 10 | 11 | 0 | 11 | 8 | 73% | 80% |
| ADGB | True | 9 | 12 | 0 | 12 | 9 | 75% | 100% |
| C5orf46 | True | 3 | 8 | 4 | 4 | 3 | 75% | 100% |
| FANCC | absent | 34 | 16 | 12 | 4 | 3 | 75% | 12% |
| ABI3BP | absent | 12 | 19 | 5 | 14 | 11 | 79% | 92% |
| ACTL8 | absent | 8 | 13 | 3 | 10 | 8 | 80% | 100% |
| ABR | absent | 15 | 18 | 4 | 14 | 12 | 86% | 93% |
| ACAP2 | absent | 7 | 13 | 5 | 8 | 7 | 88% | 100% |
| ACRBP | absent | 12 | 9 | 1 | 8 | 7 | 88% | 58% |
| ADGRA1 | True | 11 | 13 | 5 | 8 | 7 | 88% | 82% |
| ABRA | absent | 12 | 11 | 1 | 10 | 9 | 90% | 75% |
| A2ML1 | absent | 8 | 4 | 2 | 2 | 2 | 100% | 25% |
| AAGAB | absent | 10 | 14 | 7 | 7 | 7 | 100% | 70% |
| AAMP | absent | 10 | 13 | 7 | 6 | 6 | 100% | 60% |
| AAR2 | absent | 10 | 6 | 5 | 1 | 1 | 100% | 20% |
| AARD | absent | 2 | 3 | 1 | 2 | 2 | 100% | 100% |
| AASDH | absent | 1 | 1 | 0 | 1 | 1 | 100% | 100% |
| ABHD14A | absent | 3 | 2 | 0 | 2 | 2 | 100% | 67% |
| ABHD18 | absent | 2 | 3 | 1 | 2 | 2 | 100% | 100% |
| ABHD8 | absent | 2 | 4 | 3 | 1 | 1 | 100% | 100% |
| ADAMTSL5 | False | 7 | 5 | 3 | 2 | 2 | 100% | 43% |
| ADTRP | True | 12 | 6 | 4 | 2 | 2 | 100% | 42% |
| BRCA2 | absent | 27 | 61 | 58 | 3 | 3 | 100% | 22% |
| BRIP1 | absent | 40 | 27 | 26 | 1 | 1 | 100% | 15% |
| ERCC4 | absent | 41 | 29 | 28 | 1 | 1 | 100% | 17% |
| FANCA | absent | 29 | 25 | 23 | 2 | 2 | 100% | 21% |
| FANCD2 | absent | 60 | 22 | 16 | 6 | 6 | 100% | 18% |
| FANCE | absent | 10 | 14 | 8 | 6 | 6 | 100% | 60% |
| FANCF | absent | 9 | 10 | 7 | 3 | 3 | 100% | 44% |
| FANCG | absent | 30 | 26 | 24 | 2 | 2 | 100% | 23% |
| FANCI | absent | 43 | 12 | 9 | 3 | 3 | 100% | 14% |
| FANCM | absent | 41 | 14 | 11 | 3 | 3 | 100% | 15% |
| MAD2L2 | absent | 47 | 28 | 26 | 2 | 2 | 100% | 26% |
| PALB2 | absent | 35 | 26 | 25 | 1 | 1 | 100% | 17% |
| RAD51C | absent | 42 | 30 | 25 | 5 | 5 | 100% | 31% |
| RFWD3 | absent | 17 | 14 | 12 | 2 | 2 | 100% | 59% |
| SLX4 | absent | 57 | 18 | 13 | 5 | 5 | 100% | 18% |
| UBE2T | absent | 37 | 9 | 8 | 1 | 1 | 100% | 16% |
| XRCC2 | absent | 29 | 29 | 24 | 5 | 5 | 100% | 31% |
| ABCB10 | absent | 22 | 13 | 13 | 0 | 0 | n/a | 23% |