NetAffx: Affymetrix probesets and annotations
Authors: Liu, Guoying; Loraine, Ann E.; Shigeta, Ron; Cline, Melissa; Cheng, Jill; Valmeekam, Venu; Sun, Shaw; Kulp, David; Siani-Rose, Michael A.
Source: Nucleic Acids Research, Volume 31, Number 1, 01 January 2003 , pp. 82-86(5)
Publisher: Oxford University Press
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.
Document Type: Research Article
Affiliations: *To whom correspondence should be addressed., Email: firstname.lastname@example.org
Publication date: 01 January 2003
- Nucleic Acids Research (NAR) is a fully Open Access journal, providing rapid publication of leading edge research into the nucleic acids under the following categories: chemistry, computational biology, genomics, molecular biology, nucleic acid enzymes, RNA and structural biology. There is a Survey and Summary section, and methods papers are published
in NAR Methods Online. Each year the first issue is devoted to biological databases, and a later issue to relevant web-based software resources.