A computational approach to measuring coherence of gene expression in pathways

Genomics

Volumn 84, Issue 1, 2004, Pages 211-217

  Yang, Howard H ^a   Hu, Ying ^a   Buetow, Kenneth H ^a   Lee, Maxwell P ^a  

^a NATIONAL CANCER INSTITUTE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

COMPLEMENTARY DNA;

ARTICLE; CELL TYPE; COLON CANCER; CORRELATION COEFFICIENT; DATA ANALYSIS; DATA BASE; DNA MICROARRAY; GENE CONTROL; GENE EXPRESSION; GENE IDENTIFICATION; GENETIC ANALYSIS; GENOME; HUMAN; HYPOTHESIS; LIVER CANCER; MATHEMATICAL COMPUTING; OXIDATIVE PHOSPHORYLATION; PRIORITY JOURNAL; PROTEIN SYNTHESIS; STATISTICAL SIGNIFICANCE; TUMOR CELL;

DATABASES, GENETIC; GENE EXPRESSION; GENE EXPRESSION PROFILING; HUMANS; METABOLISM; NEOPLASMS; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; STATISTICS;

EUKARYOTA;

EID: 2942594101     PISSN: 08887543     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.ygeno.2004.01.007     Document Type: Article

References (12)

1. Alizadeh A.A., Eisen M.B., Davis R.E., Ma C., Lossos I.S., Rosenwald A., Boldrick J.C., Sabet H., Tran T., Yu X., Powell J.I., Yang L., Marti G.E., Moore T., Hudson J. Jr., Lu L., Lewis D.B., Tibshirani R., Sherlock G., Chan W.C., Greiner T.C., Weisenburger D.D., Armitage J.O., Warnke R., Staudt L.M. Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling. Nature. 403:2000;503-511
2. Eisen M.B., Spellman P.T., Brown P.O., Botstein D. Cluster analysis and display of genome-wide expression patterns. Proc. Natl. Acad. Sci. USA. 95:1998;14863-14868
3. Soukas A., Cohen P., Socci N.D., Friedman J.M. Leptin-specific patterns of gene expression in white adipose tissue. Genes Dev. 14:2000;963-980
4. Tamayo P., Slonim D., Mesirov J., Zhu Q., Kitareewan S., Dmitrovsky E., Lander E.S., Golub T.R. Interpreting patterns of gene expression with self-organizing maps: methods and application to hematopoietic differentiation. Proc. Natl. Acad. Sci. USA. 96:1999;2907-2912
5. Brown M.P., Grundy W.N., Lin D., Cristianini N., Sugnet C.W., Furey T.S., Ares M. Jr., Haussler D. Knowledge-based analysis of microarray gene expression data by using support vector machines. Proc. Natl. Acad. Sci. USA. 97:2000;262-267
6. Khan J., Wei J.S., Ringner M., Saal L.H., Ladanyi M., Westermann F., Berthold F., Schwab M., Antonescu C.R., Peterson C., Meltzer P.S. Classification and diagnostic prediction of cancers using gene expression profiling and artificial neural networks. Nat. Med. 7:2001;673-679
7. DeRisi J.L., Iyer V.R., Brown P.O. Exploring the metabolic and genetic control of gene expression on a genomic scale. Science. 278:1997;680-686
8. Cho R.J., Campbell M.J., Winzeler E.A., Steinmetz L., Conway A., Wodicka L., Wolfsberg T.G., Gabrielian A.E., Landsman D., Lockhart D.J., Davis R.W. A genome-wide transcriptional analysis of the mitotic cell cycle. Mol. Cell. 2:1998;65-73
9. Graeber T.G., Eisenberg D. Bioinformatic identification of potential autocrine signaling loops in cancers from gene expression profiles. Nat. Genet. 29:2001;295-300
10. Alon U., Barkai N., Notterman D.A., Gish K., Ybarra S., Mack D., Levine A.J. Broad patterns of gene expression revealed by clustering analysis of tumor and normal colon tissues probed by oligonucleotide arrays. Proc. Natl. Acad. Sci. USA. 96:1999;6745-6750
11. Notterman D.A., Alon U., Sierk A.J., Levine A.J. Transcriptional gene expression profiles of colorectal adenoma, adenocarcinoma, and normal tissue examined by oligonucleotide arrays. Cancer Res. 61:2001;3124-3130
12. Chen X., Cheung S.T., So S., Fan S.T., Barry C., Higgins J., Lai K.M., Ji J., Dudoit S., Ng I.O., Van De R.M., Botstein D., Brown P.O. Gene expression patterns in human liver cancers. Mol. Biol. Cell. 13:2002;1929-1939