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NetAffx Annotation Release 20 Notes
July 2006

This table lists the Data sources used for NetAffx Annotation Release 20, including the Version number, if there is one, and the date of the release. Data sources that cover multiple species are listed first, followed by more species-specific sources.

Data source
Mol Type
Release Date
Version
Species
Description
Notes
GenBank mRNA, peptide 15-Apr-06 153 All full and partial mRNA records, CDS translations, and mRNA/peptide derived from organellar DNA. NR clustered (*)  
RefSeq mRNA, peptide 1-May-06 17 All mRNA records, CDS translations and mRNA/peptide derived from organellar DNA. NR clustered (*)  
UniProt protein 13-Jun-06 8.1 All UniProt 8.1 consists of Swiss-Prot 50.1 and TrEMBL 33.1  
Entrez Gene mRNA 8-Jun-06   All    
Ensembl mRNA, peptide Apr-06 38 Anopheles gambiae cDNA sequence include both non-hypothetical and ab initio transcripts and EST-based transcripts for most of these organisms. For D. melanogaster and S. cerevisiae, we use predicted transcripts from Ensembl and other annotated transcripts from Flybase and SGD, respectively
Bos taurus
Caenorhabditis elegans
Canis familiaris
Danio rerio
Drosophila melanogaster
Gallus gallus
Homo sapiens
Mus musculus
Rattus norvegicus
Saccharomyces cerevisiae
Xenopus tropicalis
UniGene mRNA 17-Sep-05 31 Anopheles gambiae    
21-May-06 53 Arabidopsis thaliana
2-May-06 77 Bos taurus
26-May-06 27 Caenorhabditis elegans
1-May-06 14 Canis familiaris
7-Sep-05 5 Citrus sinensis
10-Mar-06 90 Danio rerio
30-May-06 43 Drosophila melanogaster
12-Dec-05 29 Gallus gallus
14-Feb-05 22 Glycine max
7-May-06 191 Homo sapiens
4-May-06 44 Hordeum vulgare
2-Oct-05 24 Lycopersicon esculentum
9-Dec-05 4 Macaca mulatta
24-May-06 24 Medicago truncatula
27-Apr-06 153 Mus musculus
13-May-06 61 Oryza sativa
27-May-05 1 Populus balsamifera
1-Dec-05 8 Populus tremula x Populus tre muloides
29-Apr-06 152 Rattus norvegicus
25-Dec-04 6 Saccharum officinarum
10-Jan-06 24 Solanum tuberosum
4-May-06 39 Sus scrofa
9-Aug-05 44 Triticum aestivum
6-Apr-06 18 Vitis vinifera
23-Apr-06 67 Xenopus laevis
13-Oct-05 28 Xenopus tropicalis
11-May-06 54 Zea mays
UCSC DNA Feb-03 anoGam1 Anopheles gambiae Nuclear and mitochondrial genome assemblies  
May-05 bosTau2 Bos taurus
Mar-04 ce2 Caenorhabditis elegans
May-05 canFam2 Canis familiaris
Apr-04 dm2 Drosophila melanogaster
Feb-04 mm8 Mus musculus
Mar-06 galGal2 Gallus gallus
Jun-03 rn3 Rattus norvegicus
Oct-03 sacCer1 Saccharomyces cerevisiae
GenBank DNA, mitochondrial Oct-05   Arabidopsis thaliana Organellar genome sequence  
Nov-05   Oryza sativa
DNA, chloroplast Oct-05   Arabidopsis thaliana
Nov-05   Oryza sativa
Sanger DNA 4-Nov-04 Zv4 Danio rerio Nuclear genome assembly  
DNA 4-Jul-05   Schizosaccharomyces pombe Nuclear genome assembly
mRNA, peptide 17-May-06   Schizosaccharomyces pombe All ORF CDS
SGD mRNA, peptide 12-May-06   Saccharomyces cerevisiae All ORF CDS  
TIGR DNA 13-May-04   Arabidopsis thaliana Nuclear genome assembly  
mRNA 6-Oct-05   Medicago truncatula Predicted CDS sequences from IMGAG.  
DNA Dec-04 3 Oryza sativa Rice pseudomolecules - nuclear genome assembly  
mRNA 12-Jan-06 4 Oryza sativa Rice pseudomolecules - transcripts  
DNA 1-Aug-04 pfa1 Plasmodium falciparum Nuclear genome assembly  
mRNA 1-Aug-04 pfa1 Plasmodium falciparum cDNA sequences
BIS_RIS mRNA 1-Aug-04   Oryza sativa Fgene-based predictions (Syngenta)  
miRBase miRNA May-06 8.1 Homo sapiens Precursor miRNA stem-loop sequences Used only for exon arrays.
Mus musculus
Rattus norvegicus
JGI DNA Jun-04 1.0 Populus trichocarpa Nuclear genome assembly, 7.5x coverage  
mRNA 13-Feb-06 1.0 Populus trichocarpa Transcripts from predicted gene models
FlyBase mRNA, peptide 21-Feb-06 4.3 Drosophila melanogaster Genome sequence annotations  
PseudoCAP mRNA, peptide 12-May-05   Pseudomonas aeruginosa   Release date is the date downloaded

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