Paper Info
Title
ProbeLynx: a tool for updating the association of microarray probes to genes.
Abstract
As genome sequence data and gene prediction improve, probes developed for a given microarray experiment should be continuously re-evaluated for their specificity for given genes. ProbeLynx(www.pathogenomics.ca/probelynx) is a new web service which uses current genomic sequence information to re-examine microarray probe specificity and provide annotation updates relevant to determining which gene(s) and transcript(s) are associated with a given probe. Probe sequences (either oligonucleotide- or cDNA-based) are uploaded in FASTA format and the results returned as a tab-delimited flat file for insertion into a spreadsheet application or database management system for further analysis. ProbeLynx has been initially developed to focus on arrays derived from human, mouse, chicken and bovine genomes, but may be expanded to handle other genomic datasets. ProbeLynx offers microarray users the important ability to continuously assess the potential of a probe to cross-hybridize to paralogous genes and the suitability of a given probe to investigate a transcript of interest. By also including the latest gene function annotation information in the output, ProbeLynx provides the critical first step in updating microarray data annotation.
Year
DOI
Venue
2004
10.1093/nar/gkh452
NUCLEIC ACIDS RESEARCH
Keywords
Field
DocType
genome sequence,microarray data,gene expression profiling,database management system,dna probes,nucleic,genomics,internet,gene prediction,chickens
Hybridization probe,Annotation,Biology,Gene prediction,Microarray analysis techniques,FASTA format,Gene chip analysis,Genetics,Microarray databases,Molecular biology,Gene expression profiling
Journal
Volume
Issue
ISSN
32
SUPnan
0305-1048
Citations 
PageRank 
References 
3
0.68
6
Authors
6
Name
Order
Citations
PageRank
Fiona M. Roche1603.40
Karsten Hokamp2526.25
Michael Acab3443.20
Lorne A. Babiuk4201.87
Robert E. W. Hancock517114.71
Fiona S. L. Brinkman655539.60