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NetAffx Annotation Release 36 Notes
July, 2016

This table lists the Data sources used for NetAffx Annotation Release 36, including the date of release and version number, if available. Data sources that cover multiple species are listed first, followed by species-specific sources.

Data source Mol Type Release Date Version Species Description Notes
Entrez Gene mRNA 2014-07-10 v66 All Gene information database derived from RefSeq, model organism databases, and other NCBI databases
Ensembl mRNA, peptide 2014-08-19 UMD3.1 Bos taurus cDNA, ncRNA, and peptide sequence including non-hypothetical, ab initio and EST-based transcripts
2013-07-23 GRCh37 Homo sapiens
2014-08-19 GRCm38 Mus musculus
UCSC DNA 2009-08-25 bosTau6 Bos taurus Nuclear and mitochondrial genome assemblies
2011-05-06 galGal4 Gallus gallus
2009-02-00 hg19 Homo sapiens
2011-12-00 mm10 Mus musculus
dbSNP DNA 2013-07-23 138 Bos taurus SNP annotations
2013-05-30 Gallus gallus
2012-06-26 137 Homo sapiens
Mus musculus
DGV DNA 2010-03-00 9 Homo sapiens CNV annotations Database of Genomic Variants
HapMap 3 DNA 2010-05-00 Draft 1 Homo sapiens SNP genotypes
Data source Mol Type Release Date Version Species Description Notes
GenBank mRNA, peptide 2015-10-15 v210 All full and partial mRNA records, CDS translations, and mRNA/peptide derived from organellar DNA. NR clustered (*)
RefSeq mRNA, peptide 2015-06-23 v73 All mRNA records, CDS translations and mRNA/peptide derived from organellar DNA. NR clustered (*)
UniProt protein 2015-11-01 2015_11 All Protein sequence data from both Swiss-Prot and TrEMBL
Entrez Gene mRNA 2015-06-23 v73 All Gene information database derived from RefSeq, model organism databases, and other NCBI databases
Ensembl mRNA, peptide 2015-11-18 AgamP4.29 Anopheles gambiae cDNA, ncRNA, and peptide sequence including non-hypothetical, ab initio and EST-based transcripts
TAIR10.29 Arabidopsis thaliana
UMD3.1 Bos taurus
WBcel235.29 Caenorhabditis elegans
CanFam3.1 Canis familiaris
GRCz10 Danio rerio
BDGP6.29 Drosophila melanogaster
Galgal4 Gallus gallus
V1.0.29 Glycine max
GRCh38 Homo sapiens
MMUL_1 Macaca mulatta
GRCm38 Mus musculus
JGI2.0.29 Populus trichocarpa
Rnor_6.0 Rattus norvegicus
R64-1-1.29 Saccharomyces cerevisiae
Sscrofa10.2 Sus scrofa
IGGP_12x.29 Vitis vinifera
JGI_4.2 Xenopus tropicalis
AGPv3.29 Zea mays
UniGene mRNA 2013-02-28 44 Anopheles gambiae EST-based non-redundant gene-oriented clusters
2012-06-14 74 Arabidopsis thaliana
2012-06-19 101 Bos taurus
2012-08-25 52 Caenorhabditis elegans
2010-05-03 24 Canis familiaris
2012-10-20 15 Citrus sinensis
2012-06-19 126 Danio rerio
2013-09-30 75 Drosophila melanogaster
2012-08-18 46 Gallus gallus
2012-02-26 42 Glycine max
2013-04-28 14 Gossypium hirsutum
2013-03-09 236 Homo sapiens
2011-06-17 59 Hordeum vulgare
2012-08-05 18 Macaca mulatta
2013-01-20 38 Medicago truncatula
2013-01-25 194 Mus musculus
2012-06-05 86 Oryza sativa
2011-11-10 11 Populus trichocarpa
2013-03-23 195 Rattus norvegicus
2011-04-04 15 Saccharum officinarum
2012-06-19 42 Sus scrofa
2013-04-27 63 Triticum aestivum
15 Vitis vinifera
2013-02-16 94 Xenopus laevis
2013-02-23 52 Xenopus tropicalis
2013-01-05 84 Zea mays
UCSC DNA 2009-08-25 bosTau6 Bos taurus Nuclear and mitochondrial genome assemblies
2008-05-00 ce6 Caenorhabditis elegans
2005-05-00 canFam2 Canis familiaris
2010-07-01 danRer7 Danio rerio
2011-05-06 galGal4 Gallus gallus
2009-02-00 hg19 Homo sapiens
2006-01-00 rheMac2 Macaca mulatta
2011-12-00 mm10 Mus musculus
2012-03-00 rn5 Rattus norvegicus
2003-10-00 sacCer1 Saccharomyces cerevisiae
2009-11-00 susScr2 Sus scrofa
BGI_RIS mRNA, peptide 2004-08-01 Oryza sativa Fgene-based predictions (Syngenta)
broad-lincrna RNA 2012-05-01 Homo sapiens Broad lincRNA catalog
broad-tucp RNA 2012-05-01 Homo sapiens Broad transcripts of uncertain coding potential (TUCP) catalog
FlyBase all RNA, peptide 2012-07-16 5.46 Drosophila melanogaster Genome sequence annotations
DNA 2012-05-11 5.45 Nuclear genome assembly
JGI DNA, mitochondrial, chloroplast, 2010-11-00 1.09 Glycine max Nuclear and organellar genome assemblies and transcripts from predicted gene models based on this genome Glycine_max_Williams_82 8x Release
DNA 2010-01-00 v2 Populus trichocarpa
mRNA, peptide 2010-01-01 2 Transcripts and proteins from predicted gene models
lncRNAdb RNA 2012-05-01 Homo sapiens Long Non-Coding RNA Database
Mus musculus
Rattus norvegicus
Medicago Consortium DNA 2010-06-08 mt3 Medicago truncatula Nuclear genome assemblies
miRBase miRNA 2013-06-01 20 All Precursor miRNA stem-loop sequences
Pasteur Institute mRNA, peptide 2004-07-09 SLR 16.1 Bacillus subtilis
PseudoCAP mRNA, peptide 2006-07-12 Pseudomonas aeruginosa Pseudomonas community annotation project Release date is the date downloaded
RAP mRNA, peptide 2007-05-15 2 Oryza sativa Rice Annotation Project annotations
RefSeq (bacterial) DNA, RNA, peptide 2006-05-00 Bacillus subtilis
2006-06-00 Escherichia coli Strains: MG1655, EDL933, CFT073, EcoRIMD CDS and peptides extracted from the RefSeq genome assembly record.
2006-05-00 Staphylococcus aureus Strains: N315, MU50, COL
RGAP DNA, mitochondrial, chloroplast, 2011-07-31 7.0 Oryza sativa Rice pseudomolecules and genome annotation
Sanger DNA 2005-07-04 Schizosaccharomyces pombe Nuclear genome assembly
TAIR DNA, mitochondrial, chloroplast 2010-11-29 TAIR10 Arabidopsis thaliana Nuclear and organellar genome assemblies
mRNA Genome transcript annotations based on the current TAIR assembly
TIGR mRNA 2005-10-06 Medicago truncatula Predicted CDS sequences from IMGAG
DNA, mRNA 2004-08-01 pfa1 Plasmodium falciparum Nuclear genome assembly and cDNA sequences
mRNA 2006-06-05 2 Triticum aestivum TIGR Plant Transcript Assemblies