TY - GEN
T1 - Identifying genes associated with chemotherapy response in ovarian carcinomas based on DNA copy number and expression profiles
AU - Hsu, Fang Han
AU - Serpedin, Erchin
AU - Hsiao, Tzu Hung
AU - Bishop, Alexander J.R.
AU - Dougherty, Edward R.
AU - Chen, Yidong
PY - 2011
Y1 - 2011
N2 - DNA copy number alterations (CNAs) may change transcription profiles and are reported to be associated with chemotherapy response. Using a recently concluded ovarian cancer study derived from the Cancer Genome Atlas (TCGA) Research Network, we selected 98 ovarian cancer samples derived from patients who were only treated with Paclitaxel/Carboplatin after the surgery. A statistical testing procedure was proposed to examine the genes with CNAs and correlated changes in expression level, and their associated response to chemotherapy in progression-free survival. Among 12,042 genes under consideration, 112 genes with CNAs and correlated gene expression levels were found to be associated with progression-free survival (PFS) significantly. The region containing many selected genes, 1p35.1-1p34.2, is closely examined as a candidate segment where CNAs are significantly associated with chemotherapeutic response to Paclitaxel/Carboplatin. Biological processes and molecular functions associated with chemotherapy response were further proposed based on a gene ontology enrichment analysis.
AB - DNA copy number alterations (CNAs) may change transcription profiles and are reported to be associated with chemotherapy response. Using a recently concluded ovarian cancer study derived from the Cancer Genome Atlas (TCGA) Research Network, we selected 98 ovarian cancer samples derived from patients who were only treated with Paclitaxel/Carboplatin after the surgery. A statistical testing procedure was proposed to examine the genes with CNAs and correlated changes in expression level, and their associated response to chemotherapy in progression-free survival. Among 12,042 genes under consideration, 112 genes with CNAs and correlated gene expression levels were found to be associated with progression-free survival (PFS) significantly. The region containing many selected genes, 1p35.1-1p34.2, is closely examined as a candidate segment where CNAs are significantly associated with chemotherapeutic response to Paclitaxel/Carboplatin. Biological processes and molecular functions associated with chemotherapy response were further proposed based on a gene ontology enrichment analysis.
UR - https://www.scopus.com/pages/publications/84863649123
UR - https://www.scopus.com/pages/publications/84863649123#tab=citedBy
U2 - 10.1109/gensips.2011.6169438
DO - 10.1109/gensips.2011.6169438
M3 - Conference contribution
AN - SCOPUS:84863649123
SN - 9781467304900
T3 - Proceedings - IEEE International Workshop on Genomic Signal Processing and Statistics
SP - 46
EP - 49
BT - Proceedings 2011 IEEE International Workshop on Genomic Signal Processing and Statistics, GENSIPS'11
PB - IEEE Computer Society
T2 - 2011 IEEE International Workshop on Genomic Signal Processing and Statistics, GENSIPS'11
Y2 - 4 December 2011 through 6 December 2011
ER -