Use of keyword hierarchies to interpret gene expression patterns.
作者： D. R. Masys , J. B. Welsh , J. Lynn Fink , M. Gribskov , I. Klacansky
DOI: 10.1093/BIOINFORMATICS/17.4.319
关键词:
摘要: Motivation: High-density microarray technology permits the quantitative and simultaneous monitoring of thousands genes. The interpretation challenge is to extract relevant information from this large amount data. A growing variety statistical analysis approaches are available identify clusters genes that share common expression characteristics, but provide no regarding biological similarities within clusters. published literature provides a potential source assist in clustering results. Results: We describe data mining method uses indexing terms ('keywords') linked specific present view conceptual similarity cluster or group interest. takes advantage hierarchical nature Medical Subject Headings used index citations MEDLINE database, registry numbers applied enzymes.
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Olga Ermolaeva, Mohit Rastogi, Kim D. Pruitt, Gregory D. Schuler, Michael L. Bittner, Yidong Chen, Richard Simon, Paul Meltzer, Jeffrey M. Trent, Mark S. Boguski, Data management and analysis for gene expression arrays Nature Genetics. ,vol. 20, pp. 19- 23 ,(1998) , 10.1038/1670
Edward M. Marcotte, Matteo Pellegrini, Michael J. Thompson, Todd O. Yeates, David Eisenberg, A combined algorithm for genome-wide prediction of protein function Nature. ,vol. 402, pp. 83- 86 ,(1999) , 10.1038/47048
L. Tanabe, U. Scherf, L.H. Smith, J.K. Lee, L. Hunter, J.N. Weinstein, MedMiner: an Internet text-mining tool for biomedical information, with application to gene expression profiling. BioTechniques. ,vol. 27, pp. 1210- 1217 ,(1999) , 10.2144/99276BC03
Douglas T Ross, Uwe Scherf, Michael B Eisen, Charles M Perou, Christian Rees, Paul Spellman, Vishwanath Iyer, Stefanie S Jeffrey, Matt Van de Rijn, Mark Waltham, Alexander Pergamenschikov, JC Lee, Deval Lashkari, Dari Shalon, Timothy G Myers, John N Weinstein, David Botstein, Patrick O Brown, None, Systematic variation in gene expression patterns in human cancer cell lines. Nature Genetics. ,vol. 24, pp. 227- 235 ,(2000) , 10.1038/73432
M. Waldrop, Learning to drink from a fire hose Science. ,vol. 248, pp. 674- 675 ,(1990) , 10.1126/SCIENCE.2333516
T. R. Golub, D. K. Slonim, P. Tamayo, C. Huard, M. Gaasenbeek, J. P. Mesirov, H. Coller, M. L. Loh, J. R. Downing, M. A. Caligiuri, C. D. Bloomfield, E. S. Lander, Molecular classification of cancer: class discovery and class prediction by gene expression monitoring. Science. ,vol. 286, pp. 531- 537 ,(1999) , 10.1126/SCIENCE.286.5439.531
Hagit Shatkay, W. John Wilbur, Stephen Edwards, Mark Boguski, Genes, Themes, and Microarrays: Using Information Retrieval for Large-Scale Gene Analysis intelligent systems in molecular biology. ,vol. 8, pp. 317- 328 ,(2000)
Saeed Tavazoie, Jason D. Hughes, Michael J. Campbell, Raymond J. Cho, George M. Church, Systematic determination of genetic network architecture Nature Genetics. ,vol. 22, pp. 281- 285 ,(1999) , 10.1038/10343
P. Tamayo, D. Slonim, J. Mesirov, Q. Zhu, S. Kitareewan, E. Dmitrovsky, E. S. Lander, T. R. Golub, Interpreting patterns of gene expression with self-organizing maps: Methods and application to hematopoietic differentiation Proceedings of the National Academy of Sciences of the United States of America. ,vol. 96, pp. 2907- 2912 ,(1999) , 10.1073/PNAS.96.6.2907
Raymond J. Cho, Michael J. Campbell, Elizabeth A. Winzeler, Lars Steinmetz, Andrew Conway, Lisa Wodicka, Tyra G. Wolfsberg, Andrei E. Gabrielian, David Landsman, David J. Lockhart, Ronald W. Davis, A Genome-Wide Transcriptional Analysis of the Mitotic Cell Cycle Molecular Cell. ,vol. 2, pp. 65- 73 ,(1998) , 10.1016/S1097-2765(00)80114-8