TITLE

Gene Expression and Isoform Variation Analysis using Affymetrix Exon Arrays

PUB. DATE
January 2008
SOURCE
BMC Genomics;2008 Supplement 2, Vol. 9, p529
SOURCE TYPE
Academic Journal
DOC. TYPE
Article
ABSTRACT
No abstract available.
ACCESSION #
43775133

 

Related Articles

  • Correction. Bemmo, Amandine; Benovoy, David; Kwan, Tony; Gaffney, Daniel J.; Jensen, Roderick V.; Majewski, Jacek // BMC Genomics;2009, Vol. 10, Special section p1 

    Correction to Bemmo A, Benovoy D, Kwan T, Gaffney DJ, Jensen RV, Majewski J: Gene expression and isoform variation analysis using Affymetrix Exon Arrays. BMC Genomics 2008, 9: 529.

  • Comparison of Affymetrix Gene Array with the Exon Array shows potential application for detection of transcript isoform variation. Ha, Kevin C. H.; Coulombe-Huntington, Jasmin; Majewski, Jacek // BMC Genomics;2009, Vol. 10, p519 

    Background: The emergence of isoform-sensitive microarrays has helped fuel in-depth studies of the human transcriptome. The Affymetrix GeneChip Human Exon 1.0 ST Array (Exon Array) has been previously shown to be effective in profiling gene expression at the isoform level. More recently, the...

  • puma 3.0: improved uncertainty propagation methods for gene and transcript expression analysis. Xuejun Liu; Zhenzhu Gao; Li Zhang; Rattray, Magnus // BMC Bioinformatics;2013, Vol. 14 Issue 1, p1 

    Background: Microarrays have been a popular tool for gene expression profiling at genome-scale for over a decade due to the low cost, short turn-around time, excellent quantitative accuracy and ease of data generation. The Bioconductor package puma incorporates a suite of analysis methods for...

  • Implementation of exon arrays: alternative splicing during T-cell proliferation as determined by whole genome analysis. Whistler, Toni; Cheng-Feng Chiang; Lonergan, William; Hollier, Mark; Unger, Elizabeth R. // BMC Genomics;2010, Vol. 11, p496 

    Background: The contribution of alternative splicing and isoform expression to cellular response is emerging as an area of considerable interest, and the newly developed exon arrays allow for systematic study of these processes. We use this pilot study to report on the feasibility of exon array...

  • Identification of common genetic variants that account for transcript isoform variation between human populations. Wei Zhang; Shiwei Duan; Bleibel, Wasim K.; Wisel, Steven A.; Huang, R. Stephanie; Xiaolin Wu; Lijun He; Clark, Tyson A.; Chen, Tina X.; Schweitzer, Anthony C.; Blume, John E.; Dolan, M. Eileen; Cox, Nancy J. // Human Genetics;Feb2009, Vol. 125 Issue 1, p81 

    In addition to the differences between populations in transcriptional and translational regulation of genes, alternative pre-mRNA splicing (AS) is also likely to play an important role in regulating gene expression and generating variation in mRNA and protein isoforms. Recently, the genetic...

  • Genome-Wide Analysis of Differentially Expressed Genes and Splicing Isoforms in Clear Cell Renal Cell Carcinoma. Valletti, Alessio; Gigante, Margherita; Palumbo, Orazio; Carella, Massimo; Divella, Chiara; Sbisà, Elisabetta; Tullo, Apollonia; Picardi, Ernesto; D’Erchia, Anna Maria; Battaglia, Michele; Gesualdo, Loreto; Pesole, Graziano; Ranieri, Elena // PLoS ONE;Oct2013, Vol. 8 Issue 10, p1 

    Clear cell renal cell carcinoma (ccRCC) is the most common malignant renal epithelial tumor and also the most deadly. To identify molecular changes occurring in ccRCC, in the present study we performed a genome wide analysis of its entire complement of mRNAs. Gene and exon-level analyses were...

  • Improvements to previous algorithms to predict gene structure and isoform concentrations using Affymetrix Exon arrays. Anton, Miguel A.; Aramburu, Ander; Rubio, Angel // BMC Bioinformatics;2010, Vol. 11, p578 

    Background: Exon arrays provide a way to measure the expression of different isoforms of genes in an organism. Most of the procedures to deal with these arrays are focused on gene expression or on exon expression. Although the only biological analytes that can be properly assigned a...

  • MADS+: discovery of differential splicing events from Affymetrix exon junction array data. Shihao Shen; Warzecha, Claude C.; Carstens, Russ P.; Yi Xing // Bioinformatics;Jan2010, Vol. 26 Issue 2, p268 

    Motivation: The Affymetrix Human Exon Junction Array is a newly designed high-density exon-sensitive microarray for global analysis of alternative splicing. Contrary to the Affymetrix exon 1.0 array, which only contains four probes per exon and no probes for exon–exon junctions, this new...

  • Exon array data analysis using Affymetrix power tools and R statistical software. Lockstone, Helen E. // Briefings in Bioinformatics;Nov2011, Vol. 12 Issue 6, p634 

    The use of microarray technology to measure gene expression on a genome-wide scale has been well established for more than a decade. Methods to process and analyse the vast quantity of expression data generated by a typical microarray experiment are similarly well-established. The Affymetrix...

  • GAExplorer: Genomic and Transcriptomic Explorer; mapping expression probes to gene loci, transcripts, exons and ncRNAs. Risueño, Alberto; Fontanillo, Celia; Dinger, Marcel E.; De Las Rivas, Javier // BMC Bioinformatics;2010, Vol. 11, p221 

    Background: Genome-wide expression studies have developed exponentially in recent years as a result of extensive use of microarray technology. However, expression signals are typically calculated using the assignment of "probesets" to genes, without addressing the problem of "gene" definition or...

Share

Read the Article

Courtesy of THE LIBRARY OF VIRGINIA

Sorry, but this item is not currently available from your library.

Try another library?
Sign out of this library

Other Topics