ArticleGenome biology2007
An annotation infrastructure for the analysis and interpretation of Affymetrix exon array data.
Article in Genome biology, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
30 citing papers in PubMed.
- Regional differences in subcutaneous adipose tissue gene expression.Obesity (Silver Spring, Md.) · 2012Trial
- Gene Regulatory Network Perturbation by Genetic and Epigenetic Variation.Trends in biochemical sciences · 2018Review
- Article
- Discovery and validation of novel expression signature for postcystectomy recurrence in high-risk bladder cancer.Journal of the National Cancer Institute · 2014Article
- Pregnancy complicated by obesity induces global transcript expression alterations in visceral and subcutaneous fat.Molecular genetics and genomics : MGG · 2014Article
- Analysis of long non-coding RNA expression profiles in gastric cancer.World journal of gastroenterology · 2013Article
- Induction of p16(INK4a) is the major barrier to proliferation when Epstein-Barr virus (EBV) transforms primary B cells into lymphoblastoid cell lines.PLoS pathogens · 2013Article
- Article
- Exon array data analysis using Affymetrix power tools and R statistical software.Briefings in bioinformatics · 2011Article
- rnaSeqMap: a Bioconductor package for RNA sequencing data exploration.BMC bioinformatics · 2011Article
- Support vector machines-based identification of alternative splicing in Arabidopsis thaliana from whole-genome tiling arrays.BMC bioinformatics · 2011Article
- mRNA degradation controls differentiation state-dependent differences in transcript and splice variant abundance.Nucleic acids research · 2011Article
- Exon array analysis using re-defined probe sets results in reliable identification of alternatively spliced genes in non-small cell lung cancer.BMC genomics · 2010Article
- A B2 SINE insertion in the Comt1 gene (Comt1(B2i)) results in an overexpressing, behavior modifying allele present in classical inbred mouse strains.Genes, brain, and behavior · 2010Article
- The comparison of different pre- and post-analysis filters for determination of exon-level alternative splicing events using Affymetrix arrays.Journal of biomolecular techniques : JBT · 2010Article
- An integrated mass-spectrometry pipeline identifies novel protein coding-regions in the human genome.PloS one · 2010Article
- R and Bioconductor solutions for alternative splicing detection.Human genomics · 2009Article
- Genome-wide analysis of immune activation in human T and B cells reveals distinct classes of alternatively spliced genes.PloS one · 2009Article
- Comparison of Affymetrix Gene Array with the Exon Array shows potential application for detection of transcript isoform variation.BMC genomics · 2009Article
- Exon array analysis of head and neck cancers identifies a hypoxia related splice variant of LAMA3 associated with a poor prognosis.PLoS computational biology · 2009Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Affymetrix exon arrays contain probesets intended to target every known and predicted exon in the entire genome, posing significant challenges for high-throughput genome-wide data analysis. X:MAP http://xmap.picr.man.ac.uk, an annotation database, and exonmap http://www.bioconductor.org/packages/2.0/bioc/html/exonmap.html, a BioConductor/R package, are designed to support fine-grained analysis of exon array data. The system supports the application of standard statistical techniques, prior to the use of genome scale annotation to provide gene-, transcript- and exon-level summaries and visualization tools.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.