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

Por Qu, Wen, Cingolani, Pablo, Zeeberg, Barry R., Ruden, Douglas M.
Publicado no Front Genet (2017)

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

Por Kohn, Kurt W., Zeeberg, Barry R., Reinhold, William C., Sunshine, Margot, Luna, Augustin, Pommier, Yves
Publicado em 2012

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

Por Kahn, Ari B, Ryan, Michael C, Liu, Hongfang, Zeeberg, Barry R, Jamison, D Curtis, Weinstein, John N
Publicado em 2007

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

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

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

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

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

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

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

Por Ruden, Douglas M., Jamison, D. Curtis, Zeeberg, Barry R., Garfinkel, Mark D., Weinstein, John N., Rasouli, Parsa, Lu, Xiangyi
Publicado em 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

Por Liu Hongfang, Cleland James A, Kahn Ari B, Caplen Natasha J, Zeeberg Barry R, Ryan Michael C, Weinstein John N
Publicado em 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

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

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

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

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

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

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

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

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

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

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

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

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

Por 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.
Publicado em 2003

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

Por 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.
Publicado em 2005

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

Por 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
Publicado em 2011

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

Por 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
Publicado em 2003

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

Por 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
Publicado em 2005

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

Por 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.
Publicado em 2006