GeneAnnot: interfacing GeneCards with high-throughput gene expression compendia.
The interpretation of microarray expression results often includes extensive efforts to identify and annotate the gene representatives immobilised on the arrays. In this paper we describe the usage of our automatic GeneAnnot system, which links between Affymetrix arrays and the rich human gene annotations available in GeneCards. We explain GeneCards search options and results display; elaborate on the presentation of expression information in GeneCards, including both our whole-genome GeneNote project and external expression resources; describe the various parameters and displays used by GeneAnnot to assess the annotation quality and probeset specificity; and show how to search GeneAnnot and GeneNote websites directly.
Chalifa-Caspi
Vered
V
Bioinformatics Support Unit, Life Sciences Dept., Ben-Gurion University of the Negev, Beer-Sheva, Israel. veredcc@bgumail.bgu.ac.il
Shmueli
Orit
O
Benjamin-Rodrig
Hila
H
Rosen
Naomi
N
Shmoish
Michael
M
Yanai
Itai
I
Ophir
Ron
R
Kats
Pavel
P
Safran
Marilyn
M
Lancet
Doron
D
D003627:Data Interpretation, Statistical; D020411:Oligonucleotide Array Sequence Analysis; D012984:Software