ArticleRNA (New York, N.Y.)2004
Computational comparative analyses of alternative splicing regulation using full-length cDNA of various eukaryotes.
Article in RNA (New York, N.Y.), 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 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
34 citing papers in PubMed.
- Elevated intron retention implicates neuroinflammation in brains of individuals with alcohol use disorder.Brain communications · 2026Article
- Alternative splicing across the tree of life.eLife · 2025Article
- POINT technology illuminates the processing of polymerase-associated intact nascent transcripts.Molecular cell · 2021Article
- Disruption of exon-bridging interactions between the minor and major spliceosomes results in alternative splicing around minor introns.Nucleic acids research · 2021Article
- Dynamic changes in intron retention are tightly associated with regulation of splicing factors and proliferative activity during B-cell development.Nucleic acids research · 2020Article
- RegSNPs-intron: a computational framework for predicting pathogenic impact of intronic single nucleotide variants.Genome biology · 2019Article
- Activation of cryptic splice sites in three patients with chronic granulomatous disease.Molecular genetics & genomic medicine · 2019Article
- regSNPs-splicing: a tool for prioritizing synonymous single-nucleotide substitution.Human genetics · 2017Article
- Genome-wide analysis reveals SR protein cooperation and competition in regulated splicing.Molecular cell · 2013Article
- U2AF65 adapts to diverse pre-mRNA splice sites through conformational selection of specific and promiscuous RNA recognition motifs.Nucleic acids research · 2013Article
- Widespread recognition of 5' splice sites by noncanonical base-pairing to U1 snRNA involving bulged nucleotides.Genes & development · 2012Article
- Regulation of alternative splicing by the core spliceosomal machinery.Genes & development · 2011Article
- Large introns in relation to alternative splicing and gene evolution: a case study of Drosophila bruno-3.BMC genetics · 2009Article
- In silico analysis of phosphoproteome data suggests a rich-get-richer process of phosphosite accumulation over evolution.Molecular & cellular proteomics : MCP · 2009Article
- COMIT: identification of noncoding motifs under selection in coding sequences.Genome biology · 2009Article
- Article
- Fast splice site detection using information content and feature reduction.BMC bioinformatics · 2008Article
- Solution conformation and thermodynamic characteristics of RNA binding by the splicing factor U2AF65.The Journal of biological chemistry · 2008Article
- Where do introns come from?PLoS biology · 2008Article
- Prediction of alternatively skipped exons and splicing enhancers from exon junction arrays.BMC genomics · 2008Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We previously reported a computational approach to infer alternative splicing patterns from Mus musculus full-length cDNA clones and microarray data. Although we predicted a large number of unreported splice variants, the general mechanisms regulating alternative splicing were yet unknown. In the present study, we compared alternative exons and constitutive exons in terms of splice-site strength and frequency of potential regulatory sequences. These regulatory features were further compared among five different species: Homo sapiens, M. musculus, Arabidopsis thaliana, Oryza sativa, and Drosophila melanogaster. Solid statistical validations of our comparative analyses indicated that alternative exons have (1) weaker splice sites and (2) more potential regulatory sequences than constitutive exons. Based on our observations, we propose a combinatorial model of alternative splicing mechanisms, which suggests that alternative exons contain weak splice sites regulated alternatively by potential regulatory sequences on the exons.
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.