Paper Info
Title
Association network modeling from microarray data around fermentation stress response gene NSF1 (YPL230W) using significantly co-expressed gene set
Abstract
NSF1 is one of the newly discovered fermentation stress response proteins that play a crucial role in the adaptation of the yeast Saccharomyces cerevisiae to fermentation stress conditions. Using time course microarray gene expression profiles of Saccharomyces cerevisiae (DBY7286) grown in YPD media, we identified and mapped genes significantly correlated to the NSF1 expression, hence producing a framework of analysis conditioned on the NSF1 gene function. From the analysis, we developed a novel approach using clustering on the correlated variable that constructed a core set of co-expressed genes. The result is an inter-associated gene network conditioned on the expressed NSF1 gene. The complete-link clustering algorithm grouped the NSF1 associated genes into functional clusters with a high degree correspondence to known metabolic pathways. Co-expressed genes to formed distinct functional chromosomal neighborhoods.
Year
DOI
Venue
2010
10.1109/BIBMW.2010.5703769
Bioinformatics and Biomedicine Workshops
Keywords
DocType
ISSN
bioinformatics,biological techniques,fermentation,genetics,microorganisms,molecular biophysics,pattern clustering,nsf1 (ypl230w) gene,nsf1 expression,nsf1 gene function,saccharomyces cerevisiae (dby7286),ypd media,association network modeling,coexpressed gene set,complete link clustering algorithm,fermentation stress conditions,fermentation stress response gene,functional chromosomal neighborhoods,interassociated gene network,microarray data,time course microarray gene expression profiles,yeast,nsf1,clustering,diauxic shift,microarrays,stress,correlation,proteins,gene expression
Conference
2163-6966
ISBN
Citations 
PageRank 
978-1-4244-8304-4
0
0.34
References 
Authors
2
3
Name
Order
Citations
PageRank
Bessonov, K.100.34
Chiu, D.K.Y.2293.30
van der Merwe, G.300.34