NetAffx: Affymetrix probesets and annotations
Top Cited Papers
Open Access
- 1 January 2003
- journal article
- research article
- Published by Oxford University Press (OUP) in Nucleic Acids Research
- Vol. 31 (1) , 82-86
- https://doi.org/10.1093/nar/gkg121
Abstract
NetAffx ( http://www.affymetrix.com ) details and annotates probesets on Affymetrix GeneChip microarrays. These annotations include (i) static information specific to the probeset composition; (ii) sequence annotations extracted from public databases; and (iii) protein sequence-level annotations derived from public domain programs, as well as libraries of hidden Markov models (HMMs) developed at Affymetrix. For each probeset, NetAffx lists the probe sequences, and the consensus sequence interrogated by the probes; for the larger chip sets, interactive maps display this sequence data in genomic context. Sequence annotations include Gene Ontology (GO) terms and depiction of GO graph relationships; predicted protein domains and motifs; orthologous sequences; links to relevant pathways; and links to public databases including UniGene, LocusLink, SWISS-PROT and OMIM.Keywords
This publication has 14 references indexed in Scilit:
- GenMAPP, a new tool for viewing and analyzing microarray data on biological pathwaysNature Genetics, 2002
- The Pfam Protein Families DatabaseNucleic Acids Research, 2002
- Database resources of the National Center for Biotechnology Information: 2002 updateNucleic Acids Research, 2002
- Evolution of bioinorganic motifs in P450-containing systemsBiochemical Society Transactions, 2001
- Predicting transmembrane protein topology with a hidden markov model: application to complete genomes11Edited by F. CohenJournal of Molecular Biology, 2001
- RefSeq and LocusLink: NCBI gene-centered resourcesNucleic Acids Research, 2001
- Increased coverage of protein families with the Blocks Database serversNucleic Acids Research, 2000
- Iterated profile searches with PSI-BLAST—a tool for discovery in protein databasesTrends in Biochemical Sciences, 1998
- [2] Protein kinase catalytic domain sequence database: Identification of conserved features of primary structure and classification of family membersPublished by Elsevier ,1991
- Basic local alignment search toolJournal of Molecular Biology, 1990