This page lists all data sources loaded along with the date the data was downloaded and related publication. NOTE: All external links open in a new window.
| Data Category | Organism | Data | Source | PubMed | Note |
|---|---|---|---|---|---|
Genes |
Drosophila | Genome annotation for D. melanogaster (R6.34), D. ananassae (R1.06), D. erecta (R1.05), D. grimshawi (R1.05), D. mojavensis (R1.04), D. persimilis (R1.3), D. pseudoobscura (R3.04), D. sechellia (R1.3), D. simulans (R2.02), D. virilis (R1.07), D. willistoni (R1.05) and D. yakuba (R1.05). | Flybase - Version FB2020_03 | Gramates et al - PubMed: 27799470 | #1 |
Homology |
Drosophila | Orthologues and paralogues between the 12 Drosophila genomes. | Flybase - Version FB2020_03 | Gramates et al - PubMed: 27799470 | |
|
D. melanogaster D. rerio C. elegans M. musculus R. norvegicus H. sapiens S. cerevisiae |
Orthologue and paralogue relationships between these organisms | Treefam - release 9.0 | Ruan et al - PubMed: 18056084 | ||
|
D. melanogaster D. rerio C. elegans M. musculus R. norvegicus H. sapiens S. cerevisiae |
Orthologue and paralogue relationships between these organisms | Panther - August 2020 - version 15.0 | Mi et al - PubMed: 27899595 | ||
|
Drosophila C. elegans H. sapiens M. musculus R. norvegicus S. cerevisiae |
Orthologue and paralogue relationships between these organisms | Homologene - August 2020 | Agarwala et al - PubMed: 26615191 | ||
Proteins |
Drosophila C. elegans H. sapiens M. musculus R. norvegicus S. cerevisiae |
Protein annotation | UniProt - Release 2020_03 | UniProt Consortium - PubMed: 27899622 | |
|
D. melanogaster A. gambiae C. elegans |
Protein family and domain assignments to proteins | InterPro - Version 88; August 2020 | Finn et al - PubMed: 27899635 | ||
Interactions |
Drosophila C. elegans S. cerevisiae |
Molecular interaction datasets | IntAct - Version 4.2.15; August 2020 | Orchard et al - PubMed:24234451 | |
|
D. melanogaster S. cerevisiae |
Interactions from the BioGRID | BioGRID - 3.5.188; August 2020" | Chatr-Aryamontri et al - PubMed:27980099 | ||
| D. melanogaster | miRNA target predictions from miRBase | miRBase - Version 5 | Enright et al - PubMed:14709173 | ||
Gene Ontology |
D. melanogaster | GO annotations | Gene Ontology Site - August 2020 | Gene Ontology Consortium - PubMed:10802651 | |
| D. melanogaster | InterPro domains to GO annotations | InterPro (from Gene Ontology Site) - August 2020 | Gene Ontology Consortium - PubMed:10802651, Mulder et al - PubMed: 17202162 | ||
Expression |
D. melanogaster | Microarray-based gene expression data for the life cycle of D. melanogaster | ArrayExpress - Experiment E-FLYC-6 | Arbeitman et al - PubMed: 12351791 | |
| D. melanogaster | Affymetrix microarray-based atlas of gene expression in larval and adult tissues | FlyAtlas - 13th June 2011 | Chintapalli et al - PubMed: 17534367 | ||
| D. melanogaster | Expression patterns of mRNAs at the subcellular level during early embryogenesis | Fly-FISH - 22nd July 2013 | Lecuyer et al - PubMed: 17923096 | ||
| D. melanogaster | Expression patterns of mRNAs during embryogenesis | BDGP - Release 3.0 June 2018 | Tomancak et al - PubMed:17645804 | ||
| D. melanogaster | Genome-wide RNA_seq Expression Data: raw data produced by modENCODE analysed by FlyBase | Flybase - Version FB2020_03 | Gelbart and Emmert - 2010FlyBase Report | ||
Regulation |
D. melanogaster | Transcriptional cis-regulatory modules (CRMs) | REDfly - version 7.1.1; August 2020 | Gallo et al - PubMed: 20965965 | |
| D. melanogaster | Transcription factor binding sites | REDfly - version 7.1.1; August 2020 | Bergman et al - PubMed: 20965965 | ||
| D. melanogaster | Enhancers | FlyBase - Version FB2020_03 | Gramates et al - PubMed: 27799470 | ||
Phenotypes |
D. melanogaster | Alleles and phenotypes | FlyBase - Version FB2020_03 | Gramates et al - PubMed: 27799470 | |
| D. melanogaster | High-throughput cell-based RNAi screens | GenomeRNAi - Version 17.0 | Schmidt et al - PubMed: 23193271 | ||
Pathways |
D. melanogaster |
Curated pathway information and the genes involved in them | KEGG - Release 58, 31 May 2011 | Kanehisa et al - PubMed: 16381885 | |
| D. melanogaster |
Pathway information and the genes involved in them, inferred through orthologues from Human curated pathways | Reactome - version 73; June 2020 | Fabregat et al - PubMed: 29145629 | ||
Diseases |
D. melanogaster | Human disease data set | OMIM - August 2020 | Amberger et al - PubMed: 18842627 | |
Resources |
D. melanogaster | Artificial deletions | FlyBase - Version FB2020_03 | Ryder et al - PubMed: 15238529 | |
| D. melanogaster | Insertions | Flybase - Version FB2020_03 | Gramates et al - PubMed: 27799470 | ||
| D. melanogaster | Probe sets from the Affymetrix GeneChip Drosophila Genome 1.0 Array | Ensembl - Release 50 | |||
| D. melanogaster | Probe sets from the Affymetrix GeneChip Drosophila Genome 2.0 Array | Ensembl - Release 50 | |||
| D. melanogaster | INDAC Microarray oligo set - Version 1.0 | International Drosophila Array Consortium | |||
Publications |
Drosophila | Gene versus publications | Flybase - Version FB2020_03 | Gramates et al - PubMed: 27799470 | |
|
Drosophila C. elegans |
Gene versus publications | NCBI - August 2020 |
