Welcome, Guest

NetAffx Annotation Release 25 Notes
March 2008

Release notes for NetAffx Release #25, March 2008

This table lists the Data sources used for NetAffx Annotation Release 25, 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-Dec-07 163 All full and partial mRNA records, CDS translations, and mRNA/peptide derived from organellar DNA. NR clustered (*)  
RefSeq mRNA, peptide 04-Nov-07 26 All mRNA records, CDS translations and mRNA/peptide derived from organellar DNA. NR clustered (*)  
UniProt protein 04-Dec-07 12.6 All Protein sequence data from both Swiss-Prot 54.6 and TrEMBL 37.6  
Entrez Gene mRNA 11-Jan-08   All Gene information database derived from RefSeq, model organism databases, and other NCBI databases Release date is the date downloaded
dbSNP DNA 23-Oct-07 128 Homo sapiens SNP annotations  
HapMap DNA 31-Jan-08 23 Homo sapiens SNP genotypes  
DGV DNA 21-Nov-07 3 Homo sapiens CNV annotations Database of Genomic Variants
Ensembl mRNA, peptide Dec-07 48 Anopheles gambiae cDNA, ncRNA, and peptide sequence including non-hypothetical, ab initio and EST-based transcripts 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
DNA Oct-07 47 (AgamP3) Anopheles gambiae Nuclear genome assembly Excluded unassembled contigs.
UniGene mRNA 09-Dec-07 38 Anopheles gambiae EST-based non-redundant gene-oriented clusters  
07-Dec-07 62 Arabidopsis thaliana
10-Dec-07 88 Bos taurus
02-Dec-07 37 Caenorhabditis elegans
01-Aug-07 20 Canis familiaris
03-Aug-07 3 Citrus sinensis
08-Nov-07 107 Danio rerio
07-Dec-07 54 Drosophila melanogaster
07-Dec-07 37 Gallus gallus
08-Nov-07 31 Glycine max
17-Nov-07 208 Homo sapiens
03-Dec-07 51 Hordeum vulgare
23-Feb-07 27 Lycopersicon esculentum
01-Dec-07 10 Macaca mulatta
27-Nov-07 29 Medicago truncatula
28-Oct-07 167 Mus musculus
08-Nov-07 71 Oryza sativa
27-May-05 1 Populus balsamifera
31-Jan-07 12 Populus tremula x Populus tremuloides
23-May-07 5 Populus trichocarpa
10-Dec-07 168 Rattus norvegicus
27-Oct-07 12 Saccharum officinarum
19-Nov-07 30 Solanum tuberosum
07-Dec-07 31 Sus scrofa
19-Nov-07 50 Triticum aestivum
19-Nov-07 6 Vitis vinifera
07-Dec-07 81 Xenopus laevis
01-Dec-07 39 Xenopus tropicalis
01-Dec-07 66 Zea mays
UCSC DNA Aug-06 bosTau3 Bos taurus Nuclear and mitochondrial genome assemblies  
Jan-07 ce4 Caenorhabditis elegans
May-05 canFam2 Canis familiaris
Jul-07 danRer5 Danio rerio
Mar-06 hg18 Homo sapiens
Jul-07 mm9 Mus musculus
May-06 galGal3 Gallus gallus
Jan-06 rheMac2 Macaca mulatta
Nov-04 rn4 Rattus norvegicus
Oct-03 sacCer1 Saccharomyces cerevisiae
RefSeq Mitochondrial DNA, RNA, peptide Oct-05 Arabidopsis thaliana Organellar genome assembly Gene, CDS, and peptide sequences were extracted from the RefSeq genome records.
Nov-05 Oryza sativa
Chloroplast DNA, RNA, peptide Oct-05 Arabidopsis thaliana
Nov-05 Oryza sativa
Sanger DNA 4-Jul-05   Schizosaccharomyces pombe Nuclear genome assembly  
mRNA, peptide 17-May-06   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 24-Jan-07 5 Oryza sativa Rice pseudomolecules - nuclear genome assembly  
mRNA, peptide 24-Jan-07 5 Oryza sativa Rice pseudomolecules - transcripts  
DNA 1-Aug-04 pfa1 Plasmodium falciparum Nuclear genome assembly  
mRNA 1-Aug-04 pfa1 Plasmodium falciparum cDNA sequences  
BGI_RIS mRNA 1-Aug-04   Oryza sativa Fgene-based predictions (Syngenta)  
miRBase miRNA Sep-06 9.0 Homo sapiens Precursor miRNA stem-loop sequences Used only for annotating exon arrays.
Mus musculus
Rattus norvegicus
JGI DNA Jun-04 1.0 Populus trichocarpa Nuclear genome assembly, 7.5x coverage  
mRNA 13-Sep-06 1.1 Populus trichocarpa Transcripts from predicted gene models
BDGP DNA 29-Mar-06 5 Drosophila melanogaster Nuclear genome assembly Same assembly used by UCSC dm3. Equivalent to FlyBase 5.3
FlyBase Mitochondrial DNA, RNA, peptide 08-Dec-06 5.1 Drosophila melanogaster Mitochondrial genome assembly  
all RNA, peptide Genome sequence annotations
PseudoCAP mRNA, peptide 12-Jul-06   Pseudomonas aeruginosa Pseudomonas community annotation project Release date is the date downloaded

Back to Top >