Table 3.
Statistics of feature databases reviewed in this paper
| Database | Statistics | Website | Latest update |
|---|---|---|---|
| GenBank release 246.0 [112] | Gene sequence data: 233 642 893 | www.ncbi.nlm.nih.gov/genbank/ | 15 October 2021 |
| Unitprot release 2021_03 [113] | Protein sequence data: 219 740 215 | https://www.uniprot.org/ | 2 June 2021 |
| GO release 2021-10-26 [114] | 43 832 GO terms 7 827 176 annotations | http://geneontology.org/ | 26 October 2021 |
| KEGG Release 100.0 [115] | Pathway maps: seven categories, 548 maps | http://www.kegg.jp/ | 1 October 2021 |
| MSigDB V7.4 [116] | Pathway comembership | http://www.broadinstitute.org/msigdb | April 2021 |
| CTD [117] | Gene-pathway annotations: 135 789 | http://ctdbase.org/ | 5 October 2021 |
| LINCS Data Portal 3.0 [118] | 978 landmark genes under different perturbations | https://lincsproject.org/LINCS/ | June 2021 |
| PhyloGene [119] | http://genetics.mgh.harvard.edu/phylogene/ | 2015 | |
| CORUM 3.0 [120] | Mammalian protein complexes: 4274 | http://mips.helmholtz-muenchen.de/corum/ | 9 March 2018 |
| STRING 11.5 [121] | PPIs: more than 20 billion | https://string-db.org/ | 12 August 2021 |
| HPRD release 9 [122] | PPIs: 41 327 | http://www.hprd.org/ | 13 April 2010 |
| HIPPIE v2.0 [123] | Confidence scored and annotated PPIs: over 270 000 | http://cbdm.uni-mainz.de/hippie/ | 14 February 2019 |
Note: UniProt, The Universal Protein Resource; GO, Gene Ontology; KEGG, Kyoto Encyclopedia of Genes and Genomes; MsigDB, The Molecular Signatures Database; CTD, The Comparative Toxicogenomics Database; CORUM, The comprehensive resource of mammalian protein complexes; STRING, Search Tool for the Retrieval of Interacting Genes/Proteins database; HPRD, Human Protein Reference Database; HIPPIE, Human Integrated Protein–Protein Interaction reference; PPI, Protein–protein interaction.