Large-scale integration of cancer microarray data identifies a robust common cancer signature.

Large-scale integration of cancer microarray data identifies a robust common cancer signature. Research Abstract Details 

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Large-scale integration of cancer microarray data identifies a robust common cancer signature. Abstract Text:

Lei Xu,Donald Geman,Raimond L Winslow,

BACKGROUND: There is a continuing need to develop molecular diagnostic tools which complement histopathologic examination to increase the accuracy of cancer diagnosis. DNA microarrays provide a means for measuring gene expression signatures which can then be used as components of genomic-based diagnostic tests to determine the presence of cancer. RESULTS: In this study, we collect and integrate ~1500 microarray gene expression profiles from 26 published cancer data sets across 21 major human cancer types. We then apply a statistical method, referred to as the Top-Scoring Pair of Groups (TSPG) classifier, and a repeated random sampling strategy to the integrated training data sets and identify a common cancer signature consisting of 46 genes. These 46 genes are naturally divided into two distinct groups; those in one group are typically expressed less than those in the other group for cancer tissues. Given a new expression profile, the classifier discriminates cancer from normal tissues by ranking the expression values of the 46 genes in the cancer signature and comparing the average ranks of the two groups. This signature is then validated by applying this decision rule to independent test data. CONCLUSION: By combining the TSPG method and repeated random sampling, a robust common cancer signature has been identified from large-scale microarray data integration. Upon further validation, this signature may be useful as a robust and objective diagnostic test for cancer.

Large-scale integration of cancer microarray data identifies a robust common cancer signature. Publishing Authors By Initials

L Xu,D Geman,RL Winslow,

For similar biological factors: biological markers: tumor markers, biological research abstracts see: biological factors: biological markers: tumor markers, biological research

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Large-scale integration of cancer microarray data identifies a robust common cancer signature. Journal Published:

PUBLICATION TYPE: Research Support, N.I.H., Extr

Journal: BMC bioinformatics

VOLUME: 8

Page Numbers: 275

Journal Abbreviation: BMC Bioinformatics

ISSN: 1471-2105

DAY: 30

MONTH: 07

YEAR: 2007

Large-scale integration of cancer microarray data identifies a robust common cancer signature. Information

Number of References:

LANGUAGE: eng

NlmUniqueID: 100965194

Large-scale integration of cancer microarray data identifies a robust common cancer signature. Keywords Mesh Terms:

KEYWORDS: Tumor Markers, Biological

MESH TERMS: analysis

Chemical & Substance for Abstract: Large-scale integration of cancer microarray data identifies a robust common cancer signature. Information

Substance Name: Tumor Markers, Biological

Registry Number: 0

Grant and Affiliation Information for Large-scale integration of cancer microarray data identifies a robust common cancer signature.

AFFILIATION: The Institute for Computational Medicine and Center for Cardiovascular Bioinformatics and Modeling, Johns Hopkins University, Baltimore, MD 21218, USA. leixu@jhu.edu

Country: England

AGENCY: United States NHLBI

GRANT: R01-HL72488

ACRONYM: HL

MEDLINETA: BMC Bioinformatics

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