pgaudet
commented
4 months ago Major changes:
BY ORGANISM Human: + 82870
- +18760 IDA
- +60678 IPI >> many new IntAct& ComplexPortal
- -9848 gene products
- Are these to isoforms?
- 1466 "-PRO" in col 17
- 45,000 have '-' (ie, isoforms or UniProt "chains")
- New RNAs that are now not being converted to 'gene product':
- pre_miRNA: +3257
- lncRNA: +22082
- rRNA: -6965
AmiGO versus AmiGO-staging:
- 707156 human annotations in AmiGO
- 769603 human annotations in AmiGO-staging
- diff is 62,447; not 82,870 as shown in the stats
Source files
- 2024-06-17 release:
- source: 705016 lines (note that this includes headers but they are the same)
- GOC-produced file: 707209 lines
- 2024-07-14 snapshot:
- source: 767735 lines
- GOC-produced file: 769659 lines
So, I am not sure why the stats are inconsistent. But the data in the files looks right relative to the upstream. In conclusion, Human data looks OK
Mouse : + 67644
- +4768 IDA >> AmiGO versus staging: UniProt + ~ 1000 new mouse IDAs. But there is not 4700 new IDAs
- +3595 IPI >> many new IntAct& ComplexPortal
- +37703 ISO >> pipeline moved to GOC
- -13447 IEA
Mouse IEAs: AmiGO: 69359
- EC 1115
- InterPro 17944
- UniProtKB-KW 50300
- (all assigned_by MGI)
Staging: 55912
- Ensembl 26172
- UniProt 20516
- InterPro 5180
- GOC 2851
- RHEA 1193
Much better!
Drosophila: + 4427
- 1542 IDA
- 2500 IMP
-
145 IGI
BY GROUP MGI : -138973 / 179719 | -77.33% HPA** : + 14103 / 24306 | 58.02%
stats are here: https://docs.google.com/spreadsheets/d/1kTSYUTrgDXpXlXJpekG3ifRCbjjIqinnI3vH3DgU_BU/edit?gid=0#gid=0