TY - JOUR
T1 - Large-scale meta-analysis of cancer microarray data identifies common transcriptional profiles of neoplastic transformation and progression
AU - Rhodes, Daniel R.
AU - Yu, Jianjun
AU - Shanker, K.
AU - Deshpande, Nandan
AU - Varambally, Radhika
AU - Ghosh, Debashis
AU - Barrette, Terrence
AU - Pandey, Akhilesh
AU - Chinnaiyan, Arul M.
PY - 2004/6/22
Y1 - 2004/6/22
N2 - Many studies have used DNA microarrays to identify the gene expression signatures of human cancer, yet the critical features of these often unmanageably large signatures remain elusive. To address this, we developed a statistical method, comparative meta-profiling, which identifies and assesses the intersection of multiple gene expression signatures from a diverse collection of microarray data sets. We collected and analyzed 40 published cancer microarray data sets, comprising 38 million gene expression measurements from >3,700 cancer samples. From this, we characterized a common transcriptional profile that is universally activated in most cancer types relative to the normal tissues from which they arose, likely reflecting essential transcriptional features of neoplastic transformation. In addition, we characterized a transcriptional profile that is commonly activated in various types of undifferentiated cancer, suggesting common molecular mechanisms by which cancer cells progress and avoid differentiation. Finally, we validated these transcriptional profiles on independent data sets.
AB - Many studies have used DNA microarrays to identify the gene expression signatures of human cancer, yet the critical features of these often unmanageably large signatures remain elusive. To address this, we developed a statistical method, comparative meta-profiling, which identifies and assesses the intersection of multiple gene expression signatures from a diverse collection of microarray data sets. We collected and analyzed 40 published cancer microarray data sets, comprising 38 million gene expression measurements from >3,700 cancer samples. From this, we characterized a common transcriptional profile that is universally activated in most cancer types relative to the normal tissues from which they arose, likely reflecting essential transcriptional features of neoplastic transformation. In addition, we characterized a transcriptional profile that is commonly activated in various types of undifferentiated cancer, suggesting common molecular mechanisms by which cancer cells progress and avoid differentiation. Finally, we validated these transcriptional profiles on independent data sets.
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U2 - 10.1073/pnas.0401994101
DO - 10.1073/pnas.0401994101
M3 - Article
C2 - 15184677
AN - SCOPUS:3042694117
SN - 0027-8424
VL - 101
SP - 9309
EP - 9314
JO - Proceedings of the National Academy of Sciences of the United States of America
JF - Proceedings of the National Academy of Sciences of the United States of America
IS - 25
ER -