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 (R6.41) | Flybase - Version FB2021_04 | Gramates et al - PubMed: 27799470 | #1 |
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 - December 2020 - version 16.0 | Mi et al - PubMed: 27899595 | ||
Drosophila C. elegans H. sapiens M. musculus R. norvegicus S. cerevisiae |
Orthologue and paralogue relationships between these organisms | Homologene - September 2021 | Agarwala et al - PubMed: 26615191 | ||
Proteins |
Drosophila C. elegans H. sapiens M. musculus R. norvegicus S. cerevisiae |
Protein annotation | UniProt - Release 2021_03 | UniProt Consortium - PubMed: 27899622 | |
D. melanogaster A. gambiae C. elegans |
Protein family and domain assignments to proteins | InterPro - Version 86; June 2021 | Finn et al - PubMed: 27899635 | ||
Interactions |
Drosophila C. elegans S. cerevisiae |
Molecular interaction datasets | IntAct - Version 4.2.17; May 2021 | Orchard et al - PubMed:24234451 | |
D. melanogaster S. cerevisiae |
Interactions from the BioGRID | BioGRID - 4.4.201; September 2021" | 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 - September 2021 | Gene Ontology Consortium - PubMed:10802651 | |
D. melanogaster | InterPro domains to GO annotations | InterPro (from Gene Ontology Site) - September 2021 | 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 December 2020 | Tomancak et al - PubMed:17645804 | ||
D. melanogaster | Genome-wide RNA_seq Expression Data: raw data produced by modENCODE analysed by FlyBase | Flybase - Version FB2021_04 | Gelbart and Emmert - 2010FlyBase Report | ||
Regulation |
D. melanogaster | Transcriptional cis-regulatory modules (CRMs) | REDfly - version 9.5.1; September 2021 | Gallo et al - PubMed: 20965965 | |
D. melanogaster | Transcription factor binding sites | REDfly - version 9.5.1; September 2021 | Bergman et al - PubMed: 20965965 | ||
D. melanogaster | Enhancers | FlyBase - Version FB2021_04 | Gramates et al - PubMed: 27799470 | ||
Phenotypes |
D. melanogaster | Alleles and phenotypes | FlyBase - Version FB2021_04 | 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 77; June 2021 | Fabregat et al - PubMed: 29145629 | ||
Diseases |
D. melanogaster | Human disease data set | OMIM - September 2021 | Amberger et al - PubMed: 18842627 | |
Resources |
D. melanogaster | Artificial deletions | FlyBase - Version FB2021_04 | Ryder et al - PubMed: 15238529 | |
D. melanogaster | Insertions | Flybase - Version FB2021_04 | 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 FB2021_04 | Gramates et al - PubMed: 27799470 | |
Drosophila C. elegans |
Gene versus publications | NCBI - September 2021 |