title: NetAffx: Affymetrix probesets and annotations.
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.
authors.affiliation: Department of Bioinformatics, Affymetrix, Inc, 6550 Vallejo Street, Suite 100, Emeryville, CA 94608, USA. guoying_liu@affymetrix.com
authors.forename: Guoying
authors.initials: G
authors.lastname: Liu
authors.forename: Ann E
authors.initials: AE
authors.lastname: Loraine
authors.forename: Ron
authors.initials: R
authors.lastname: Shigeta
authors.forename: Melissa
authors.initials: M
authors.lastname: Cline
authors.forename: Jill
authors.initials: J
authors.lastname: Cheng
authors.forename: Venu
authors.initials: V
authors.lastname: Valmeekam
authors.forename: Shaw
authors.initials: S
authors.lastname: Sun
authors.forename: David
authors.initials: D
authors.lastname: Kulp
authors.forename: Michael A
authors.initials: MA
authors.lastname: Siani-Rose
mesh_terms: D000818:Animals; D016384:Consensus Sequence; D030541:Databases, Genetic; D020869:Gene Expression Profiling; D016247:Information Storage and Retrieval; D008390:Markov Chains; D020411:Oligonucleotide Array Sequence Analysis; D011506:Proteins / Q000737:chemistry; D020539:Sequence Analysis, Protein; D012984:Software
chemical_list: D011506:Proteins