ArticleNucleic acids research2011
Verification of alternative splicing variants based on domain integrity, truncation length and intrinsic protein disorder.
Article in Nucleic acids research, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 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
28 citing papers in PubMed, 50 citations in OpenAlex.
- Characterization of alternative splicing during mammalian brain development reveals the extent of isoform diversity and potential effects on protein structural changes.Biology open · 2024Article
- Exonic splicing code and coordination of divalent metals in proteins.Nucleic acids research · 2024Article
- The Difference in Structural States between Canonical Proteins and Their Isoforms Established by Proteome-Wide Bioinformatics Analysis.Biomolecules · 2022Article
- Uncovering the impacts of alternative splicing on the proteome with current omics techniques.Wiley interdisciplinary reviews. RNA · 2022Review
- Assessing the functional relevance of splice isoforms.NAR genomics and bioinformatics · 2021Article
- Identification of prognostic alternative splicing signatures in uveal melanoma.International ophthalmology · 2021Article
- Intrinsic Disorder in Tetratricopeptide Repeat Proteins.International journal of molecular sciences · 2020Article
- Article
- Bayesian nonparametric discovery of isoforms and individual specific quantification.Nature communications · 2018Article
- Article
- Codon usage is less optimized in eukaryotic gene segments encoding intrinsically disordered regions than in those encoding structural domains.Nucleic acids research · 2016Article
- The contribution of intrinsically disordered regions to protein function, cellular complexity, and human disease.Biochemical Society transactions · 2016Review
- Identification and Characterization of a New Protein Isoform of Human 5-Lipoxygenase.PloS one · 2016Article
- Alternatively Spliced Homologous Exons Have Ancient Origins and Are Highly Expressed at the Protein Level.PLoS computational biology · 2015Article
- Diversity in TAF proteomics: consequences for cellular differentiation and migration.International journal of molecular sciences · 2014Review
- Physicochemical properties of cells and their effects on intrinsically disordered proteins (IDPs).Chemical reviews · 2014Review
- Classification of intrinsically disordered regions and proteins.Chemical reviews · 2014Review
- Drift and conservation of differential exon usage across tissues in primate species.Proceedings of the National Academy of Sciences of the United States of America · 2013Article
- Alternative splicing tends to avoid partial removals of protein-protein interaction sites.BMC genomics · 2013Article
- Distinct types of disorder in the human proteome: functional implications for alternative splicing.PLoS computational biology · 2013Article
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 at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
According to current estimations ∼95% of multi-exonic human protein-coding genes undergo alternative splicing (AS). However, for 4000 human proteins in PDB, only 14 human proteins have structures of at least two alternative isoforms. Surveying these structural isoforms revealed that the maximum insertion accommodated by an isoform of a fully ordered protein domain was 5 amino acids, other instances of domain changes involved intrinsic structural disorder. After collecting 505 minor isoforms of human proteins with evidence for their existence we analyzed their length, protein disorder and exposed hydrophobic surface. We found that strict rules govern the selection of alternative splice variants aimed to preserve the integrity of globular domains: alternative splice sites (i) tend to avoid globular domains or (ii) affect them only marginally or (iii) tend to coincide with a location where the exposed hydrophobic surface is minimal or (iv) the protein is disordered. We also observed an inverse correlation between the domain fraction lost and the full length of the minor isoform containing the domain, possibly indicating a buffering effect for the isoform protein counteracting the domain truncation effect. These observations provide the basis for a prediction method (currently under development) to predict the viability of splice variants.
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.