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Publications

Below is a selected list of recent relevant publications.

 

Subclass Mapping: Identifying Common Subtypes in Independent Disease Data Sets
Yujin Hoshida, Jean-Philippe Brunet, Pablo Tamayo, Todd R. Golub, Jill P. Mesirov
PLoS ONE 2(11): e1195, 2007
(November 21, 2007)

Technical Comment on Sjoblom et al.
Getz, G, Mesirov JP, Hofling H, Tibshirani R, Golub TR, Meyerson ML, Lander ES
Science Vol. 317. no. 5844, p. 1500/DOI: 10.1126/science.1138764
(September 14, 2007)

Portraits of breast cancer progression
Alexe G, Dalgin G, Scanfeld D, Tamayo P, Mesirov JP, Delisi C, Levine A, Ganesan S, Bhanot G
BMC Bioinformatics 2007, 8:291doi:10.1186/1471-2105-8-291
(August 6, 2007)

Metagene Projection for cross platform, cross species characterization of global transcriptional states
Tamayo P, Scanfeld D, Ebert B, Gillette M, Roberts C, Mesirov JP
Proc. Natl. Acad. Sci. USA, 104: 5959-5964
(March 27, 2007)

Comparative Gene Marker Selection Suite
Joshua Gould, Gad Getz, Stefano Monti, Michael Reich, Jill P. Mesirov
Bioinformatics, doi:10.1093/bioinformatics/btl196

Identification of distinct molecular phenotypes in acute megakaryoblastic leukemia by gene expression profiling
Jean-Pierre Bourquina, Aravind Subramanian, Claudia Langebraked, Dirk Reinhardt, Olivier Bernard, Paola Ballerini, André Baruchel, Hélène Cavé, Nicole Dastugue, Henrik Hasle, Gertjan L. Kaspers, Michel Lessard, Lucienne Michaux, Paresh Vyas, Elisabeth van Wering, Christian M. Zwaan, Todd R. Golub, and Stuart H. Orkin
PNAS, vol. 103, no. 9, 3339-3344 (February 21, 2006)

A method for high-throughput gene expression signature analysis
David Peck , Emily D Crawford , Kenneth N Ross , Kimberly Stegmaier , Todd R Golub, and Justin Lamb
Genome Biology, 7:R61, doi:10.1186/gb-2006-7-7-r61 (2006)

GenePattern 2.0
Michael Reich, Ted Liefeld, Joshua Gould, Jim Lerner, Pablo Tamayo & Jill P Mesirov
Nat. Genet. 38 no. 5: pp500-501 doi:10.1038/ng0506-500 (2006)

Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles
Subramanian, A., Tamayo, P., Mootha, V. K., Mukherjee, S., Ebert, B. L., Gillette, M. A., Paulovich, A., Pomeroy, S. L., Golub, T. R., Lander, E. S. & Mesirov, J. P. (2005) Proc. Natl. Acad. Sci. USA 102, 15545-15550

Molecular profiling of diffuse large B-cell lymphoma identifies robust subtypes including one characterized by host inflammatory response
Monti, S., Savage, K. J., Kutok, J. L., Feuerhake, F., Kurtin, P., Mihm, M., Wu, B., Pasqualucci, L., Neuberg, D., Aguiar, R. C., et al. (2004)
Blood, 1 March 2005, Vol. 105, No. 5, pp. 1851-1861

GeneCruiser: a web service for the annotation of microarray data
Ted Liefeld, Michael Reich, Josh Gould, Peili Zhang, Pablo Tamayo, and Jill P. Mesirov
Bioinformatics, doi:10.1093/bioinformatics/bti587

Globally distributed object identification for biological knowledgebases
Clark T., Martin S., Liefeld T.
Briefings in Bioinformatics 5.1:59-70

The Connectivity Map: Using Gene-Expression Signatures to Connect Small Molecules, Genes, and Disease
Justin Lamb, Emily D. Crawford, David Peck, Joshua W. Modell, Irene C. Blat, Matthew J. Wrobel, Jim Lerner, Jean-Philippe Brunet, Aravind Subramanian, Kenneth N. Ross, Michael Reich, Haley Hieronymus, Guo Wei, Scott A. Armstrong, Stephen J. Haggarty, Paul A. Clemons, Ru Wei, Steven A. Carr, Eric S. Lander, and Todd R. Golub.
Science 313: 1929-1935