A Bioinformatics-Based Alternative mRNA Splicing Code that May Explain Some Disease Mutations Is Conserved in Animals

von Qu, Wen, Cingolani, Pablo, Zeeberg, Barry R., Ruden, Douglas M.
Veröffentlicht in Front Genet (2017)

Gene Expression Profiles of the NCI-60 Human Tumor Cell Lines Define Molecular Interaction Networks Governing Cell Migration Processes

von Kohn, Kurt W., Zeeberg, Barry R., Reinhold, William C., Sunshine, Margot, Luna, Augustin, Pommier, Yves
Veröffentlicht 2012

SpliceMiner: a high-throughput database implementation of the NCBI Evidence Viewer for microarray splice variant analysis

von Kahn, Ari B, Ryan, Michael C, Liu, Hongfang, Zeeberg, Barry R, Jamison, D Curtis, Weinstein, John N
Veröffentlicht 2007

Concordance of Gene Expression and Functional Correlation Patterns across the NCI-60 Cell Lines and the Cancer Genome Atlas Glioblastoma Samples

von Zeeberg, Barry R., Kohn, Kurt W., Kahn, Ari, Larionov, Vladimir, Weinstein, John N., Reinhold, William, Pommier, Yves
Veröffentlicht 2012

Nonlinear gene cluster analysis with labeling for microarray gene expression data in organ development

von Ehler, Martin, Rajapakse, Vinodh N, Zeeberg, Barry R, Brooks, Brian P, Brown, Jacob, Czaja, Wojciech, Bonner, Robert F
Veröffentlicht 2011

Functional Categories Associated with Clusters of Genes That Are Co-Expressed across the NCI-60 Cancer Cell Lines

von Zeeberg, Barry R., Reinhold, William, Snajder, René, Thallinger, Gerhard G., Weinstein, John N., Kohn, Kurt W., Pommier, Yves
Veröffentlicht 2012

The EDGE Hypothesis: Epigenetically Directed Genetic Errors in Repeat-Containing Proteins (RCPs) Involved in Evolution, Neuroendocrine Signaling, and Cancer

von Ruden, Douglas M., Jamison, D. Curtis, Zeeberg, Barry R., Garfinkel, Mark D., Weinstein, John N., Rasouli, Parsa, Lu, Xiangyi
Veröffentlicht 2008

SpliceCenter: A suite of web-based bioinformatic applications for evaluating the impact of alternative splicing on RT-PCR, RNAi, microarray, and peptide-based studies

von Liu Hongfang, Cleland James A, Kahn Ari B, Caplen Natasha J, Zeeberg Barry R, Ryan Michael C, Weinstein John N
Veröffentlicht 2008-07-01

SpliceCenter: A suite of web-based bioinformatic applications for evaluating the impact of alternative splicing on RT-PCR, RNAi, microarray, and peptide-based studies

von Ryan, Michael C, Zeeberg, Barry R, Caplen, Natasha J, Cleland, James A, Kahn, Ari B, Liu, Hongfang, Weinstein, John N
Veröffentlicht 2008

Ontogenomic study of the relationship between number of gene splice variants and GO categorization

von Kahn, Ari B., Zeeberg, Barry R., Ryan, Michael C., Jamison, D. Curtis, Rockoff, David M., Pommier, Yves, Weinstein, John N.
Veröffentlicht 2010

Transcription poisoning by topoisomerase I is controlled by gene length, splice sites and miR-142-3p

von Solier, Stéphanie, Ryan, Michael C., Martin, Scott E., Varma, Sudhir, Kohn, Kurt W., Liu, Hongfang, Zeeberg, Barry R., Pommier, Yves
Veröffentlicht 2013

Mistaken Identifiers: Gene name errors can be introduced inadvertently when using Excel in bioinformatics

von Zeeberg, Barry R, Riss, Joseph, Kane, David W, Bussey, Kimberly J, Uchio, Edward, Linehan, W Marston, Barrett, J Carl, Weinstein, John N
Veröffentlicht 2004

Genome-wide analysis of novel splice variants induced by topoisomerase I poisoning shows preferential occurrence in genes encoding splicing factors

von Solier, Stéphanie, Barb, Jennifer, Zeeberg, Barry R., Varma, Sudhir, Ryan, Mike C, Kohn, Kurt W., Weinstein, John N., Munson, Peter J., Pommier, Yves
Veröffentlicht 2010

VennMaster: Area-proportional Euler diagrams for functional GO analysis of microarrays

von Kestler, Hans A, Müller, André, Kraus, Johann M, Buchholz, Malte, Gress, Thomas M, Liu, Hongfang, Kane, David W, Zeeberg, Barry R, Weinstein, John N
Veröffentlicht 2008

Development of Gene Ontology Tool for Biological Interpretation of Genomic and Proteomic Data

von Feng, Weimin, Wang, Geoffrey, Zeeberg, Barry R., Guo, Kejiao, Fojo, Anthony T., Kane, David W., Reinhold, William C., Lababidi, Samir, Weinstein, John N., Wang, May D.
Veröffentlicht 2003

The p53 Tumor Suppressor Network Is a Key Responder to Microenvironmental Components of Chronic Inflammatory Stress

von Staib, Frank, Robles, Ana I., Varticovski, Lyuba, Wang, Xin W., Zeeberg, Barry R., Sirotin, Michail, Zhurkin, Victor B., Hofseth, Lorne J., Hussain, S. Perwez, Weinstein, John N., Galle, Peter R., Harris, Curtis C.
Veröffentlicht 2005

RedundancyMiner: De-replication of redundant GO categories in microarray and proteomics analysis

von 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
Veröffentlicht 2011

GoMiner: a resource for biological interpretation of genomic and proteomic data

von 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
Veröffentlicht 2003

High-Throughput GoMiner, an 'industrial-strength' integrative gene ontology tool for interpretation of multiple-microarray experiments, with application to studies of Common Variab...

von 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
Veröffentlicht 2005

Sequencing and analysis of 10,967 full-length cDNA clones from Xenopus laevis and Xenopus tropicalis reveals post-tetraploidization transcriptome remodeling

von Morin, Ryan D., Chang, Elbert, Petrescu, Anca, Liao, Nancy, Griffith, Malachi, 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, 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.
Veröffentlicht 2006