ArticleNucleic acids research2006
Large-scale identification and characterization of alternative splicing variants of human gene transcripts using 56,419 completely sequenced and manually annotated full-length cDNAs.
Article in Nucleic acids research, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed, 49 citations in OpenAlex.
- Article
- Eliosin-an alternative product from the HmPKD1 locus is a component of endoplasmic reticulum mitochondria membrane contact sites.PloS one · 2025Article
- Bulk and single-cell alternative splicing analyses reveal roles of TRA2B in myogenic differentiation.Cell proliferation · 2024Article
- Transcriptional and reverse transcriptional regulation of host genes by human endogenous retroviruses in cancers.Frontiers in microbiology · 2022Review
- High-throughput RNA sequencing reveals structural differences of orthologous brain-expressed genes between western lowland gorillas and humans.The Journal of comparative neurology · 2016Article
- Alternative splicing acting as a bridge in evolution.Stem cell investigation · 2015Article
- Human tRNA synthetase catalytic nulls with diverse functions.Science (New York, N.Y.) · 2014Article
- Comprehensive analysis of alternative splicing in Digitalis purpurea by strand-specific RNA-Seq.PloS one · 2014Article
- 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
- Widespread establishment and regulatory impact of Alu exons in human genes.Proceedings of the National Academy of Sciences of the United States of America · 2011Article
- A comprehensive survey of human polymorphisms at conserved splice dinucleotides and its evolutionary relationship with alternative splicing.BMC evolutionary biology · 2010Article
- SplicerAV: a tool for mining microarray expression data for changes in RNA processing.BMC bioinformatics · 2010Article
- Projection of gene-protein networks to the functional space of the proteome and its application to analysis of organism complexity.BMC genomics · 2010Article
- Structural implication of splicing stochastics.Nucleic acids research · 2009Article
- Stochastic noise in splicing machinery.Nucleic acids research · 2009Article
- Article
- VarySysDB: a human genetic polymorphism database based on all H-InvDB transcripts.Nucleic acids research · 2009Article
- A global view of cancer-specific transcript variants by subtractive transcriptome-wide analysis.PloS one · 2009Article
- Low conservation and species-specific evolution of alternative splicing in humans and mice: comparative genomics analysis using well-annotated full-length cDNAs.Nucleic acids research · 2008Article
- Splice-mediated Variants of Proteins (SpliVaP) - data and characterization of changes in signatures among protein isoforms due to alternative splicing.BMC genomics · 2008Article
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Authors and funding
22 authors at 11 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We report the first genome-wide identification and characterization of alternative splicing in human gene transcripts based on analysis of the full-length cDNAs. Applying both manual and computational analyses for 56,419 completely sequenced and precisely annotated full-length cDNAs selected for the H-Invitational human transcriptome annotation meetings, we identified 6877 alternative splicing genes with 18 297 different alternative splicing variants. A total of 37,670 exons were involved in these alternative splicing events. The encoded protein sequences were affected in 6005 of the 6877 genes. Notably, alternative splicing affected protein motifs in 3015 genes, subcellular localizations in 2982 genes and transmembrane domains in 1348 genes. We also identified interesting patterns of alternative splicing, in which two distinct genes seemed to be bridged, nested or having overlapping protein coding sequences (CDSs) of different reading frames (multiple CDS). In these cases, completely unrelated proteins are encoded by a single locus. Genome-wide annotations of alternative splicing, relying on full-length cDNAs, should lay firm groundwork for exploring in detail the diversification of protein function, which is mediated by the fast expanding universe of alternative splicing variants.
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