DocumentCode :
3200441
Title :
A novel statistical approach to identify co-regulatory gene modules
Author :
Xi Chen ; Jianhua Xuan ; Xu Shi ; Shajahan-Haq, Ayesha N. ; Hilakivi-Clarke, Leena ; Clarke, Roger
Author_Institution :
Dept. of Electr. & Comput. Eng., Virginia Polytech. Inst. & State Univ., Arlington, VA, USA
fYear :
2013
fDate :
18-21 Dec. 2013
Firstpage :
16
Lastpage :
18
Abstract :
ChlP-chip experiments are performed to determine binding sites for transcription factors (TFs). Conventional TF-gene regulation is generated based on p-value cutoff of the binding sites as well as their distance to nearest genes. Taking into account that binding sites of one ChlP-chip experiment should follow the same specific location distribution, we proposed a statistical model using both location and significance information to weigh target genes. With multiple ChlP-chip experiments and gene expression data, we identified co-regulatory and differentially expressed gene modules with a joint clustering and Metropolis sampling approach. We demonstrated the efficiency of our method on a ChlP-chip data set with 38 breast cancer related TFs.
Keywords :
bioinformatics; cancer; genetics; genomics; lab-on-a-chip; medical computing; statistical analysis; ChlP-chip data set; Metropolis sampling approach; binding sites; breast cancer; co-regulatory gene module identification; conventional TF-gene regulation; gene expression data; location information; multiple ChlP-chip experiment; p-value cutoff; significance information; specific location distribution; statistical approach; statistical model; target genes; transcription factor; Bioinformatics; Biological information theory; Breast cancer; Educational institutions; Erbium; Gene expression; Probes; ChlP-chip; Co-regulatory modules; Gene expression; Metropolis sampling;
fLanguage :
English
Publisher :
ieee
Conference_Titel :
Bioinformatics and Biomedicine (BIBM), 2013 IEEE International Conference on
Conference_Location :
Shanghai
Type :
conf
DOI :
10.1109/BIBM.2013.6732746
Filename :
6732746
Link To Document :
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