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Data

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 (R6.13), D. ananassae (R1.05), D. erecta (R1.05), D. grimshawi (R1.3), D. mojavensis (R1.04), D. persimilis (R1.3), D. pseudoobscura (R3.04), D. sechellia (R1.3), D. simulans (R2.02), D. virilis (R1.06), D. willistoni (R1.05) and D. yakuba (R1.05). Flybase - Version FB2016_05 Crosby et al - PubMed: 17099233 #1

Homology

Drosophila Orthologues and paralogues between the 12 Drosophila genomes. Flybase - Version FB2016_05 Crosby et al - PubMed: 17099233  

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 - version 10.0 Mi et al - PubMed: 23193289  

Proteins

Drosophila

C. elegans

H. sapiens

M. musculus

R. norvegicus

S. cerevisiae

Protein annotation UniProt - Release 2016_10 UniProt Consortium - PubMed: 17142230  

D. melanogaster

A. gambiae

C. elegans

Protein family and domain assignments to proteins InterProNovember 2016 Mulder et al - PubMed: 17202162  

Interactions

Drosophila

C. elegans

S. cerevisiae

High-throughput yeast 2-hybrid protein interaction datasets IntActRelease 201 - October 2016 Kerrien et al - PubMed:17145710  

D. melanogaster

C. elegans

S. cerevisiae

Interactions from the BioGRID BioGRID - Version 3.4.142 Stark et al - PubMed:16381927  
D. melanogaster miRNA target predictions from miRBase miRBase - Version 5 Enright et al - PubMed:14709173  

Gene Ontology

D. melanogaster GO annotations Gene Ontology Site - November 2016 Gene Ontology Consortium - PubMed:10802651  
D. melanogaster InterPro domains to GO annotations InterPro (from Gene Ontology Site) - November 2016 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 - 16th October 2007 Lecuyer et al - PubMed: 17923096  
D. melanogaster Expression patterns of mRNAs during embryogenesis BDGP - Release 3.0 June 2014 Tomancak et al - PubMed:17645804  
D. melanogaster Genome-wide RNA_seq Expression Data: raw data produced by modENCODE analysed by FlyBase Flybase - Version FB2016_05 Gelbart and Emmert - 2010FlyBase Report  
A. gambiae Microarray-based gene expression data for the life cycle of A. gambiae ArrayExpress - Experiment E-TABM-186 Koutsos et al - PubMed: 17563388  

Regulation

D. melanogaster Transcriptional cis-regulatory modules (CRMs) REDfly - 22 July 2016 Gallo et al - PubMed: 16303794  
D. melanogaster Transcription factor binding sites REDfly - 22 July 2016 Bergman et al - PubMed: 15572468  
D. melanogaster Enhancers FlyBase - Version FB2016_05 Crosby et al - PubMed: 17099233  

Phenotypes

D. melanogaster Alleles and phenotypes FlyBase - Version FB2016_05 Crosby et al - PubMed: 17099233  
D. melanogaster High-throughput cell-based RNAi screens GenomeRNAi - Version 14.0 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 58    
D. melanogaster Curated pathway information and the genes involved in them FlyReactome - Version 3.0    

Diseases

D. melanogaster Human disease data set OMIM - November 2016 Amberger et al - PubMed: 18842627  

Resources

D. melanogaster DrosDel artificial deletions FlyBase - Version FB2016_05 Ryder et al - PubMed: 15238529  
D. melanogaster Insertions (including DrosDel and Exelixis) Flybase - Version FB2016_05 Crosby et al - PubMed: 17099233  
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 FB2016_05 McQuilton et al - PubMed: 22127867  

Drosophila

C. elegans

Gene versus publications NCBI - November 2016