Search Results - "Mesirov, J. P."

Molecular Classification of Cancer: Class Discovery and Class Prediction by Gene Expression Monitoring by Golub, T. R., Slonim, D. K., Tamayo, P., Huard, C., Gaasenbeek, M., Mesirov, J. P., Coller, H., Loh, M. L., Downing, J. R., Caligiuri, M. A., Bloomfield, C. D., Lander, E. S.

“…Although cancer classification has improved over the past 30 years, there has been no general approach for identifying new cancer classes (class discovery) or…”
Get full text

Distinct physiological states of Plasmodium falciparum in malaria-infected patients by Mesirov, J. P, Regev, A, Daily, J. P, Scanfeld, D, Pochet, N, Le Roch, K, Plouffe, D, Kamal, M, Sarr, O, Mboup, S, Ndir, O, Wypij, D, Levasseur, K, Thomas, E, Tamayo, P, Dong, C, Zhou, Y, Lander, E. S, Ndiaye, D, Wirth, D, Winzeler, E. A

“…Infection with the malaria parasite Plasmodium falciparum leads to widely different clinical conditions in children, ranging from mild flu-like symptoms to…”
Get full text

Multiclass Cancer Diagnosis Using Tumor Gene Expression Signatures by Ramaswamy, Sridhar, Tamayo, Pablo, Rifkin, Ryan, Mukherjee, Sayan, Yeang, Chen-Hsiang, Angelo, Michael, Ladd, Christine, Reich, Michael, Latulippe, Eva, Mesirov, Jill P., Poggio, Tomaso, Gerald, William, Loda, Massimo, Lander, Eric S., Golub, Todd R.

“…The optimal treatment of patients with cancer depends on establishing accurate diagnoses by using a complex combination of clinical and histopathological data…”
Get full text

GeneCluster 2.0: an advanced toolset for bioarray analysis by Reich, M., Ohm, K., Angelo, M., Tamayo, P., Mesirov, J. P.

“…GeneCluster 2.0 is a software package for analyzing gene expression and other bioarray data, giving users a variety of methods to build and evaluate class…”
Get full text

Hybrid system for protein secondary structure prediction by Zhang, X, Mesirov, J P, Waltz, D L

“…We have developed a hybrid system to predict the secondary structures (alpha-helix, beta-sheet and coil) of proteins and achieved 66.4% accuracy, with…”
Get more information

ARACHNE: a whole-genome shotgun assembler by Batzoglou, Serafim, Jaffe, David B, Stanley, Ken, Butler, Jonathan, Gnerre, Sante, Mauceli, Evan, Berger, Bonnie, Mesirov, Jill P, Lander, Eric S

“…We describe a new computer system, called ARACHNE, for assembling genome sequence using paired-end whole-genome shotgun reads. ARACHNE has several key…”
Get full text

Chemosensitivity Prediction by Transcriptional Profiling by Staunton, Jane E., Slonim, Donna K., Coller, Hilary A., Tamayo, Pablo, Angelo, Michael J., Park, Johnny, Scherf, Uwe, Lee, Jae K., Reinhold, William O., Weinstein, John N., Mesirov, Jill P., Lander, Eric S., Golub, Todd R.

“…In an effort to develop a genomics-based approach to the prediction of drug response, we have developed an algorithm for classification of cell line…”
Get full text

Whole-genome sequence assembly for mammalian genomes: Arachne 2 by Jaffe, David B, Butler, Jonathan, Gnerre, Sante, Mauceli, Evan, Lindblad-Toh, Kerstin, Mesirov, Jill P, Zody, Michael C, Lander, Eric S

“…We previously described the whole-genome assembly program Arachne, presenting assemblies of simulated data for small to mid-sized genomes. Here we describe…”
Get full text

Human and mouse gene structure: comparative analysis and application to exon prediction by Batzoglou, S, Pachter, L, Mesirov, J P, Berger, B, Lander, E S

“…We describe a novel analytical approach to gene recognition based on cross-species comparison. We first undertook a comparison of orthologous genomic loci from…”
Get full text

Estimating dataset size requirements for classifying DNA microarray data by Mukherjee, Sayan, Tamayo, Pablo, Rogers, Simon, Rifkin, Ryan, Engle, Anna, Campbell, Colin, Golub, Todd R, Mesirov, Jill P

“…A statistical methodology for estimating dataset size requirements for classifying microarray data using learning curves is introduced. The goal is to use…”
Get more information

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration by Thorvaldsdóttir, Helga, Robinson, James T, Mesirov, Jill P

“…Data visualization is an essential component of genomic data analysis. However, the size and diversity of the data sets produced by today's sequencing and…”
Get full text

Targeted tumor-penetrating siRNA nanocomplexes for credentialing the ovarian cancer oncogene ID4 by Ren, Yin, Cheung, Hiu Wing, von Maltzhan, Geoffrey, Agrawal, Amit, Cowley, Glenn S, Weir, Barbara A, Boehm, Jesse S, Tamayo, Pablo, Karst, Alison M, Liu, Joyce F, Hirsch, Michelle S, Mesirov, Jill P, Drapkin, Ronny, Root, David E, Lo, Justin, Fogal, Valentina, Ruoslahti, Erkki, Hahn, William C, Bhatia, Sangeeta N

“…The comprehensive characterization of a large number of cancer genomes will eventually lead to a compendium of genetic alterations in specific cancers…”
Get more information

Characterizing genomic alterations in cancer by complementary functional associations by Kim, Jong Wook, Botvinnik, Olga B, Abudayyeh, Omar, Birger, Chet, Rosenbluh, Joseph, Shrestha, Yashaswi, Abazeed, Mohamed E, Hammerman, Peter S, DiCara, Daniel, Konieczkowski, David J, Johannessen, Cory M, Liberzon, Arthur, Alizad-Rahvar, Amir Reza, Alexe, Gabriela, Aguirre, Andrew, Ghandi, Mahmoud, Greulich, Heidi, Vazquez, Francisca, Weir, Barbara A, Van Allen, Eliezer M, Tsherniak, Aviad, Shao, Diane D, Zack, Travis I, Noble, Michael, Getz, Gad, Beroukhim, Rameen, Garraway, Levi A, Ardakani, Masoud, Romualdi, Chiara, Sales, Gabriele, Barbie, David A, Boehm, Jesse S, Hahn, William C, Mesirov, Jill P, Tamayo, Pablo

“…Complementary genomic features associated with pathway activation, gene dependency and drug sensitivity are uncovered using REVEALER. Systematic efforts to…”
Get full text

ATARiS: computational quantification of gene suppression phenotypes from multisample RNAi screens by Shao, Diane D, Tsherniak, Aviad, Gopal, Shuba, Weir, Barbara A, Tamayo, Pablo, Stransky, Nicolas, Schumacher, Steven E, Zack, Travis I, Beroukhim, Rameen, Garraway, Levi A, Margolin, Adam A, Root, David E, Hahn, William C, Mesirov, Jill P

“…Genome-scale RNAi libraries enable the systematic interrogation of gene function. However, the interpretation of RNAi screens is complicated by the observation…”
Get full text

Initial sequencing and analysis of the human genome by Lander, E S, Linton, L M, Birren, B, Nusbaum, C, Zody, M C, Baldwin, J, Devon, K, Dewar, K, Doyle, M, FitzHugh, W, Funke, R, Gage, D, Harris, K, Heaford, A, Howland, J, Kann, L, Lehoczky, J, LeVine, R, McEwan, P, McKernan, K, Meldrim, J, Mesirov, J P, Miranda, C, Morris, W, Naylor, J, Raymond, C, Rosetti, M, Santos, R, Sheridan, A, Sougnez, C, Stange-Thomann, Y, Stojanovic, N, Subramanian, A, Wyman, D, Rogers, J, Sulston, J, Ainscough, R, Beck, S, Bentley, D, Burton, J, Clee, C, Carter, N, Coulson, A, Deadman, R, Deloukas, P, Dunham, A, Dunham, I, Durbin, R, French, L, Grafham, D, Gregory, S, Hubbard, T, Humphray, S, Hunt, A, Jones, M, Lloyd, C, McMurray, A, Matthews, L, Mercer, S, Milne, S, Mullikin, J C, Mungall, A, Plumb, R, Ross, M, Shownkeen, R, Sims, S, Waterston, R H, Wilson, R K, Hillier, L W, McPherson, J D, Marra, M A, Mardis, E R, Fulton, L A, Chinwalla, A T, Pepin, K H, Gish, W R, Chissoe, S L, Wendl, M C, Delehaunty, K D, Miner, T L, Delehaunty, A, Kramer, J B, Cook, L L, Fulton, R S, Johnson, D L, Minx, P J, Clifton, S W, Hawkins, T, Branscomb, E, Predki, P, Richardson, P, Wenning, S, Slezak, T, Doggett, N, Cheng, J F, Olsen, A, Lucas, S, Elkin, C, Uberbacher, E, Frazier, M

“…The human genome holds an extraordinary trove of information about human development, physiology, medicine and evolution. Here we report the results of an…”
Get full text

An RNA profile identifies two subsets of multiple sclerosis patients differing in disease activity by Ottoboni, Linda, Keenan, Brendan T, Tamayo, Pablo, Kuchroo, Manik, Mesirov, Jill P, Buckle, Guy J, Khoury, Samia J, Hafler, David A, Weiner, Howard L, De Jager, Philip L

“…The multiple sclerosis (MS) patient population is highly heterogeneous in terms of disease course and treatment response. We used a transcriptional profile…”
Get more information

GenePattern 2.0 by Reich, Michael, Liefeld, Ted, Gould, Joshua, Lerner, Jim, Tamayo, Pablo, Mesirov, Jill P

Get full text

Proteomics, Post-translational Modifications, and Integrative Analyses Reveal Molecular Heterogeneity within Medulloblastoma Subgroups by Archer, Tenley C., Ehrenberger, Tobias, Mundt, Filip, Gold, Maxwell P., Krug, Karsten, Mah, Clarence K., Mahoney, Elizabeth L., Daniel, Colin J., LeNail, Alexander, Ramamoorthy, Divya, Mertins, Philipp, Mani, D.R., Zhang, Hailei, Gillette, Michael A., Clauser, Karl, Noble, Michael, Tang, Lauren C., Pierre-François, Jessica, Silterra, Jacob, Jensen, James, Tamayo, Pablo, Korshunov, Andrey, Pfister, Stefan M., Kool, Marcel, Northcott, Paul A., Sears, Rosalie C., Lipton, Jonathan O., Carr, Steven A., Mesirov, Jill P., Pomeroy, Scott L., Fraenkel, Ernest

“…There is a pressing need to identify therapeutic targets in tumors with low mutation rates such as the malignant pediatric brain tumor medulloblastoma. To…”
Get full text

MicroSCALE screening reveals genetic modifiers of therapeutic response in melanoma by Wood, Kris C, Konieczkowski, David J, Johannessen, Cory M, Boehm, Jesse S, Tamayo, Pablo, Botvinnik, Olga B, Mesirov, Jill P, Hahn, William C, Root, David E, Garraway, Levi A, Sabatini, David M

“…Cell microarrays are a promising tool for performing large-scale functional genomic screening in mammalian cells at reasonable cost, but owing to technical…”
Get more information

Gene Set Enrichment Analysis: A Knowledge-Based Approach for Interpreting Genome-Wide Expression Profiles by Subramanian, Aravind, Tamayo, Pablo, Mootha, Vamsi K., Mukherjee, Sayan, Benjamin L. Ebert, Michael A. Gillette, Amanda Paulovich, Pomeroy, Scott L., Golub, Todd R., Lander, Eric S., Mesirov, Jill P.

“…Although genomewide RNA expression analysis has become a routine tool in biomedical research, extracting biological insight from such information remains a…”
Get full text