TY - GEN
T1 - Inferring the transcriptional modules using penalized matrix decomposition
AU - Zheng, Chun Hou
AU - Zhang, Lei
AU - Ng, Vincent To Yee
AU - Shiu, Chi Keung Simon
AU - Wang, Shu Lin
PY - 2010/9/6
Y1 - 2010/9/6
N2 - This paper proposes to use the penalized matrix decomposition (PMD) to discover the transcriptional modules from microarray data. With the sparsity constraint on the decomposition factors, metagenes can be extracted from the gene expression data and they can well capture the intrinsic patterns of genes with the similar functions. Meanwhile, the PMD factors of each gene are good indicators of the cluster it belongs to. Compared with traditional methods, our method can cluster genes of the similar functions but without similar expression profiles. It can also assign a gene into different modules.
AB - This paper proposes to use the penalized matrix decomposition (PMD) to discover the transcriptional modules from microarray data. With the sparsity constraint on the decomposition factors, metagenes can be extracted from the gene expression data and they can well capture the intrinsic patterns of genes with the similar functions. Meanwhile, the PMD factors of each gene are good indicators of the cluster it belongs to. Compared with traditional methods, our method can cluster genes of the similar functions but without similar expression profiles. It can also assign a gene into different modules.
KW - Clustering
KW - Gene expression data
KW - Penalized matrix decomposition
KW - Transcriptional module
UR - http://www.scopus.com/inward/record.url?scp=77956151733&partnerID=8YFLogxK
U2 - 10.1007/978-3-642-14932-0_5
DO - 10.1007/978-3-642-14932-0_5
M3 - Conference article published in proceeding or book
SN - 3642149316
SN - 9783642149313
T3 - Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
SP - 35
EP - 41
BT - Advanced Intelligent Computing Theories and Applications
T2 - 6th International Conference on Intelligent Computing, ICIC 2010
Y2 - 18 August 2010 through 21 August 2010
ER -