Table 1.
Summary of approaches to gene group compilation, annotation and expert review.
| Gene group | Sub-group | Source |
|---|---|---|
| Autophagy-related* | Mapped from literature 17 | |
| Chaperone and heat shock proteins | GO/UniProt annotation supplemented by human chaperon/HSP list from Dr. Susan Lindquist lab | |
| Cytoskeletal | Interactive Fly, UniProt and publication 6, reviewed by Dr. Norbert Perrimon | |
| Glycoproteins | GlycoFly database 9 | |
| GPCRs* | GO annotation, in collaboration with Dr. Mathias Beller | |
| Kinases* | Non-protein Kinase | Nomenclature/GO/domain annotation supplemented with human KP list 23 and publications 22 7, reviewed by Dr. Richelle Sopko |
| Protein Kinase | ||
| Phosphatases* | Non-protein Phosphatase | |
| Protein Phosphatase | ||
| Major signaling pathways | Imd pathway | flyReactome, reviewed by Dr. Herve Agaisse |
| Toll pathway | flyReactome, reviewed by Dr. Herve Agaisse | |
| Planar Cell Polarity pathway | flyReactome, reviewed by Dr. Jeff Axelrod | |
| Circadian Clock pathway | flyReactome, reviewed by Dr. Phillip Karpowicz | |
| EGFR and PVR RTK signaling pathway | Manually assembled by Dr. Norbert Perrimon | |
| FGFR signaling pathway | ||
| HEDGEHOG signaling pathway | ||
| HIPPO signaling pathway | ||
| INSULIN signaling pathway | ||
| JAK/STAT signaling pathway | ||
| NOTCH signaling pathway | ||
| TGF beta signaling pathway | ||
| TNF alpha signaling pathway | ||
| WNT signaling pathway | ||
| Nuclear hormone receptor | SignaLink 24, reviewed by Dr. Henry Krause | |
| Metabolic | Enzyme | KEGG,UniProt and mapped from publication 25 |
| Other | ||
| Mitochondrial | GO/UniProt/Mito databases 26,27 and publications 18,19,20,28) | |
| Nuclear-encoded oxidative phosphorylation | MitoComp2 database 29 | |
| Peroxisomal | Publication 30, UniProt/GO | |
| Proteasome | GO annotation, reviewed by Dr. Jonathan Zirin | |
| Receptors | GO/UniProt/GPCR/mapped from Human Receptome 31 | |
| Ribosome | GO annotation, reviewed by Dr. Ralph Neumuller | |
| RNA-binding* | GO/UniProt/InterPro, in collaboration with Dr. Bing Ye | |
| Secreted proteins | UniProt annotation, reviewed by Dr. Norbert Perrimon | |
| Serine proteases | UniProt annotation, reviewed by Dr. Norbert Perrimon | |
| Spliceosome | GO/UniProt/Publication 32 | |
| Transcription factors, related proteins and other DNA-binding proteins* | DNA-binding with transcription factor activity | GO/domain annotation and FlyTF.org 10 |
| Co-factor | ||
| Chromatin regulation | ||
| Maybe TF | ||
| Trans-membrane proteins* | DRSC in collaboration with NYU supplemented by TMHMM prediction 33 | |
| Transporters | ATP-Dependent | TransporterDB 11 |
| Ion Channels | ||
| Secondary Transporter | ||
| Unclassified | ||
| Ubiquitin-related* | DRSC in collaboration with NYU |
* Indicates availability of a corresponding DRSC RNAi library for cell-based screens.