Gene expression correlations in human cancer cell lines define molecular interaction networks for epithelial phenotype
Kohn, Kurt W, Zeeberg, Barry M, Reinhold, William C, Pommier, Yves
Published in PloS one (18.06.2014)
Published in PloS one (18.06.2014)
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VennMaster: area-proportional Euler diagrams for functional GO analysis of microarrays
Kestler, Hans A, Müller, André, Kraus, Johann M, Buchholz, Malte, Gress, Thomas M, Liu, Hongfang, Kane, David W, Zeeberg, Barry R, Weinstein, John N
Published in BMC bioinformatics (29.01.2008)
Published in BMC bioinformatics (29.01.2008)
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High-Throughput GoMiner, an 'industrial-strength' integrative gene ontology tool for interpretation of multiple-microarray experiments, with application to studies of Common Variable Immune Deficiency (CVID)
Zeeberg, Barry R, Qin, Haiying, Narasimhan, Sudarshan, Sunshine, Margot, Cao, Hong, Kane, David W, Reimers, Mark, Stephens, Robert M, Bryant, David, Burt, Stanley K, Elnekave, Eldad, Hari, Danielle M, Wynn, Thomas A, Cunningham-Rundles, Charlotte, Stewart, Donn M, Nelson, David, Weinstein, John N
Published in BMC bioinformatics (05.07.2005)
Published in BMC bioinformatics (05.07.2005)
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Transcription Poisoning by Topoisomerase I Is Controlled by Gene Length, Splice Sites, and miR-142-3p
SOLIER, Stéphanie, RYAN, Michael C, MARTIN, Scott E, VARMA, Sudhir, KOHN, Kurt W, HONGFANG LIU, ZEEBERG, Barry R, POMMIER, Yves
Published in Cancer research (Chicago, Ill.) (01.08.2013)
Published in Cancer research (Chicago, Ill.) (01.08.2013)
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Gene expression profiles of the NCI-60 human tumor cell lines define molecular interaction networks governing cell migration processes
Kohn, Kurt W, Zeeberg, Barry R, Reinhold, William C, Sunshine, Margot, Luna, Augustin, Pommier, Yves
Published in PloS one (03.05.2012)
Published in PloS one (03.05.2012)
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Concordance of gene expression and functional correlation patterns across the NCI-60 cell lines and the Cancer Genome Atlas glioblastoma samples
Zeeberg, Barry R, Kohn, Kurt W, Kahn, Ari, Larionov, Vladimir, Weinstein, John N, Reinhold, William, Pommier, Yves
Published in PloS one (26.07.2012)
Published in PloS one (26.07.2012)
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Genome-wide Analysis of Novel Splice Variants Induced by Topoisomerase I Poisoning Shows Preferential Occurrence in Genes Encoding Splicing Factors
SOLIER, Stéphanie, BARB, Jennifer, ZEEBERG, Barry R, VARMA, Sudhir, RYAN, Mike C, KOHN, Kurt W, WEINSTEIN, John N, MUNSON, Peter J, POMMIER, Yves
Published in Cancer research (Chicago, Ill.) (15.10.2010)
Published in Cancer research (Chicago, Ill.) (15.10.2010)
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Functional categories associated with clusters of genes that are co-expressed across the NCI-60 cancer cell lines
Zeeberg, Barry R, Reinhold, William, Snajder, René, Thallinger, Gerhard G, Weinstein, John N, Kohn, Kurt W, Pommier, Yves
Published in PloS one (24.01.2012)
Published in PloS one (24.01.2012)
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GoMiner: a resource for biological interpretation of genomic and proteomic data
Zeeberg, Barry R, Feng, Weimin, Wang, Geoffrey, Wang, May D, Fojo, Anthony T, Sunshine, Margot, Narasimhan, Sudarshan, Kane, David W, Reinhold, William C, Lababidi, Samir, Bussey, Kimberly J, Riss, Joseph, Barrett, J Carl, Weinstein, John N
Published in Genome biology (01.01.2003)
Published in Genome biology (01.01.2003)
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SpliceCenter: a suite of web-based bioinformatic applications for evaluating the impact of alternative splicing on RT-PCR, RNAi, microarray, and peptide-based studies
Ryan, Michael C, Zeeberg, Barry R, Caplen, Natasha J, Cleland, James A, Kahn, Ari B, Liu, Hongfang, Weinstein, John N
Published in BMC bioinformatics (18.07.2008)
Published in BMC bioinformatics (18.07.2008)
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RedundancyMiner: De-replication of redundant GO categories in microarray and proteomics analysis
Zeeberg, Barry R, Liu, Hongfang, Kahn, Ari B, Ehler, Martin, Rajapakse, Vinodh N, Bonner, Robert F, Brown, Jacob D, Brooks, Brian P, Larionov, Vladimir L, Reinhold, William, Weinstein, John N, Pommier, Yves G
Published in BMC bioinformatics (10.02.2011)
Published in BMC bioinformatics (10.02.2011)
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Mistaken identifiers: gene name errors can be introduced inadvertently when using Excel in bioinformatics
Zeeberg, Barry R, Riss, Joseph, Kane, David W, Bussey, Kimberly J, Uchio, Edward, Linehan, W Marston, Barrett, J Carl, Weinstein, John N
Published in BMC bioinformatics (23.06.2004)
Published in BMC bioinformatics (23.06.2004)
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AffyProbeMiner: a web resource for computing or retrieving accurately redefined Affymetrix probe sets
Liu, Hongfang, Zeeberg, Barry R., Qu, Gang, Koru, A. Gunes, Ferrucci, Alessandro, Kahn, Ari, Ryan, Michael C., Nuhanovic, Antej, Munson, Peter J., Reinhold, William C., Kane, David W., Weinstein, John N.
Published in Bioinformatics (15.09.2007)
Published in Bioinformatics (15.09.2007)
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The p53 tumor suppressor network is a key responder to microenvironmental components of chronic inflammatory stress
STAIB, Frank, ROBLES, Ana I, GALLE, Peter R, HARRIS, Curtis C, VARTICOVSKI, Lyuba, WANG, Xin W, ZEEBERG, Barry R, SIROTIN, Michail, ZHURKIN, Victor B, HOFSETH, Lorne J, HUSSAIN, S. Perwez, WEINSTEIN, John N
Published in Cancer research (Chicago, Ill.) (15.11.2005)
Published in Cancer research (Chicago, Ill.) (15.11.2005)
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Nova regulates brain-specific splicing to shape the synapse
Darnell, Robert B, Ule, Jernej, Ule, Alja, Spencer, Joanna, Williams, Alan, Hu, Jing-Shan, Cline, Melissa, Wang, Hui, Clark, Tyson, Fraser, Claire, Ruggiu, Matteo, Zeeberg, Barry R, Kane, David, Weinstein, John N, Blume, John
Published in Nature genetics (01.08.2005)
Published in Nature genetics (01.08.2005)
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Analysis of ATP-Binding Cassette Transporter Expression in Drug-Selected Cell Lines by a Microarray Dedicated to Multidrug Resistance
Annereau, Jean-Philippe, Szakács, Gergely, Tucker, Charles J, Arciello, Angela, Cardarelli, Carol, Collins, Jennifer, Grissom, Sherry, Zeeberg, Barry R, Reinhold, William, Weinstein, John N, Pommier, Yves, Paules, Richard S, Gottesman, Michael M
Published in Molecular pharmacology (01.12.2004)
Published in Molecular pharmacology (01.12.2004)
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Sequencing and analysis of 10,967 full-length cDNA clones from Xenopus laevis and Xenopus tropicalis reveals post-tetraploidization transcriptome remodeling
Morin, Ryan D, Chang, Elbert, Petrescu, Anca, Liao, Nancy, Griffith, Malachi, Chow, William, Kirkpatrick, Robert, Butterfield, Yaron S, Young, Alice C, Stott, Jeffrey, Barber, Sarah, Babakaiff, Ryan, Dickson, Mark C, Matsuo, Corey, Wong, David, Yang, George S, Smailus, Duane E, Wetherby, Keith D, Kwong, Peggy N, Grimwood, Jane, Brinkley, 3rd, Charles P, Brown-John, Mabel, Reddix-Dugue, Natalie D, Mayo, Michael, Schmutz, Jeremy, Beland, Jaclyn, Park, Morgan, Gibson, Susan, Olson, Teika, Bouffard, Gerard G, Tsai, Miranda, Featherstone, Ruth, Chand, Steve, Siddiqui, Asim S, Jang, Wonhee, Lee, Ed, Klein, Steven L, Blakesley, Robert W, Zeeberg, Barry R, Narasimhan, Sudarshan, Weinstein, John N, Pennacchio, Christa Prange, Myers, Richard M, Green, Eric D, Wagner, Lukas, Gerhard, Daniela S, Marra, Marco A, Jones, Steven J M, Holt, Robert A
Published in Genome Research (01.06.2006)
Published in Genome Research (01.06.2006)
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