ArticleGenome biology2009
Probe-level estimation improves the detection of differential splicing in Affymetrix exon array studies.
Article in Genome biology, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers, 1 of them a synthesis that pooled it.
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Who cites it
19 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Enhanced information output from shotgun proteomics data by protein quantification and peptide quality control (PQPQ).Molecular & cellular proteomics : MCP · 2011Pooled it
- Convergent Evidence That ZNF804A Is a Regulator of Pre-messenger RNA Processing and Gene Expression.Schizophrenia bulletin · 2019Article
- Alternative transcription of a shorter, non-anti-angiogenic thrombospondin-2 variant in cancer-associated blood vessels.Oncogene · 2018Article
- A random effects model for the identification of differential splicing (REIDS) using exon and HTA arrays.BMC bioinformatics · 2017Article
- Algorithms for differential splicing detection using exon arrays: a comparative assessment.BMC genomics · 2015Article
- Identification of differential splicing genes in gliomas using exon expression profiling.Molecular medicine reports · 2015Article
- Reproducible probe-level analysis of the Affymetrix Exon 1.0 ST array with R/Bioconductor.Briefings in bioinformatics · 2014Article
- A note on an exon-based strategy to identify differentially expressed genes in RNA-seq experiments.PloS one · 2014Article
- Gene expression signatures of coronary heart disease.Arteriosclerosis, thrombosis, and vascular biology · 2013Article
- Detecting splicing variants in idiopathic pulmonary fibrosis from non-differentially expressed genes.PloS one · 2013Article
- SplicerEX: a tool for the automated detection and classification of mRNA changes from conventional and splice-sensitive microarray expression data.RNA (New York, N.Y.) · 2012Article
- Exon level transcriptomic profiling of HIV-1-infected CD4(+) T cells reveals virus-induced genes and host environment favorable for viral replication.PLoS pathogens · 2012Article
- Microarray analysis of LTR retrotransposon silencing identifies Hdac1 as a regulator of retrotransposon expression in mouse embryonic stem cells.PLoS computational biology · 2012Article
- Comprehensive exon array data processing method for quantitative analysis of alternative spliced variants.Nucleic acids research · 2011Article
- Identification of Tat-SF1 cellular targets by exon array analysis reveals dual roles in transcription and splicing.RNA (New York, N.Y.) · 2011Article
- The dietary isothiocyanate sulforaphane modulates gene expression and alternative gene splicing in a PTEN null preclinical murine model of prostate cancer.Molecular cancer · 2010Article
- SplicerAV: a tool for mining microarray expression data for changes in RNA processing.BMC bioinformatics · 2010Article
- MADS+: discovery of differential splicing events from Affymetrix exon junction array data.Bioinformatics (Oxford, England) · 2010Article
- Probe-level analysis of expression microarrays characterizes isoform-specific degradation during mouse oocyte maturation.PloS one · 2009Article
Corrections and comments
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The recent advent of exon microarrays has made it possible to reveal differences in alternative splicing events on a global scale. We introduce a novel statistical procedure that takes full advantage of the probe-level information on Affymetrix exon arrays when detecting differential splicing between sample groups. In comparison to existing ranking methods, the procedure shows superior reproducibility and accuracy in distinguishing true biological findings from background noise in high agreement with experimental validations.
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