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author = "Zeeberg, Barry R"
1 2 3 > >>

Found 21 documents, displaying page 1 of 3

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

Author(s) : Ryan Michael C , Zeeberg Barry R , Caplen Natasha J , Cleland James A , Kahn Ari B , Liu Hongfang , Weinstein John N
Description :

Abstract

Background

Over 60% of protein-coding genes in vertebrates express mRNAs that undergo alternative splicing. The resulting collection of transcript isoforms poses significant challenges for contemporary biological assays. For example, RT-PCR validation of gene expression mic...

Repository : DOAJ-Articles
Language(s) : English

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

Author(s) : Ehler Martin , Rajapakse Vinodh N , Zeeberg Barry R , Brooks Brian P , Brown Jacob , Czaja Wojciech , Bonner Robert F
Description :

Abstract

Background

The gene networks underlying closure of the optic fissure during vertebrate eye development are not well-understood. We use a novel clustering method based on nonlinear dimension reduction with data labeling to analyze microarray data from laser capture microdiss...

Repository : DOAJ-Articles
Language(s) : English

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

Author(s) : Kahn Ari B , Ryan Michael C , Liu Hongfang , Zeeberg Barry R , Jamison D Curtis , Weinstein John N
Description :

Abstract

Background

There are many fewer genes in the human genome than there are expressed transcripts. Alternative splicing is the reason. Alternatively spliced transcripts are often specific to tissue type, developmental stage, environmental condition, or disease state. Accurate ...

Repository : DOAJ-Articles
Language(s) : English

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

Author(s) : Ryan, Michael C , Zeeberg, Barry R , Caplen, Natasha J , Cleland, James A , Kahn, Ari B , Liu, Hongfang , Weinstein, John N
Description :
Repository : Europe PubMed Central
Language(s) : English

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

Author(s) : Kahn, Ari B , Ryan, Michael C , Liu, Hongfang , Zeeberg, Barry R , Jamison, D Curtis , Weinstein, John N
Description :
Repository : Europe PubMed Central
Language(s) : English

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

Author(s) : Ehler, Martin , Rajapakse, Vinodh N , Zeeberg, Barry R , Brooks, Brian P , Brown, Jacob , Czaja, Wojciech , Bonner, Robert F
Description :
Repository : Europe PubMed Central
Language(s) : English

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

Author(s) : Kohn, Kurt W. , Zeeberg, Barry R. , Reinhold, William C. , Sunshine, Margot , Luna, Augustin , Pommier, Yves
Description : Although there is extensive information on gene expression and molecular interactions in various cell types, integrating those data in a functionally coherent manner remains challenging. This study explores the premise that genes whose expression at the mRNA level is correlated over diverse cell lin...
Repository : Europe PubMed Central
Language(s) : English

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

Author(s) : Zeeberg, Barry R. , Kohn, Kurt W. , Kahn, Ari , Larionov, Vladimir , Weinstein, John N. , Reinhold, William , Pommier, Yves
Description :
Repository : Europe PubMed Central
Language(s) : English

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

Author(s) : Zeeberg Barry R , Riss Joseph , Kane David W , Bussey Kimberly J , Uchio Edward , Linehan W Marston , Barrett J Carl , Weinstein John N
Description :

Abstract

Background

When processing microarray data sets, we recently noticed that some gene names were being changed inadvertently to non-gene names.

Results

A little detective work traced the problem to default date format conversions and floating-point format conver...

Repository : DOAJ-Articles
Language(s) : English

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

Author(s) : Kestler Hans A , Müller André , Kraus Johann M , Buchholz Malte , Gress Thomas M , Liu Hongfang , Kane David W , Zeeberg Barry R
Description :

Abstract

Background

Microarray experiments generate vast amounts of data. The functional context of differentially expressed genes can be assessed by querying the Gene Ontology (GO) database via GoMiner. Directed acyclic graph representations, which are used to depict GO categories ...

Repository : DOAJ-Articles
Language(s) : English
1 2 3 > >>

Found 21 documents, displaying page 1 of 3