ArticleNucleic acids research2003
Discovery of novel splice forms and functional analysis of cancer-specific alternative splicing in human expressed sequences.
Article in Nucleic acids research, 2003. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 86 papers.
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Who cites it
86 citing papers in PubMed, 183 citations in OpenAlex.
- Bend it like BIN1: how a membrane-curving adaptor protein shapes cardiac physiology.American journal of physiology. Heart and circulatory physiology · 2025Review
- RNA-binding proteins potentially regulate the alternative splicing of apoptotic genes during knee osteoarthritis progression.BMC genomics · 2024Article
- SUVA: splicing site usage variation analysis from RNA-seq data reveals highly conserved complex splicing biomarkers in liver cancer.RNA biology · 2021Article
- A bioinformatic analysis identifies circadian expression of splicing factors and time-dependent alternative splicing events in the HD-MY-Z cell line.Scientific reports · 2019Article
- Temporal Splicing Switches in Elements of the TNF-Pathway Identified by Computational Analysis of Transcriptome Data for Human Cell Lines.International journal of molecular sciences · 2019Article
- A comprehensive characterization ofGenome research · 2018Article
- Tumor-associated intronic editing ofThe Journal of biological chemistry · 2018Article
- Indoleamine 2,3-Dioxygenase and Its Therapeutic Inhibition in Cancer.International review of cell and molecular biology · 2018Review
- "Dicing and Splicing" Sphingosine Kinase and Relevance to Cancer.International journal of molecular sciences · 2017Review
- Alternative splicing and the evolution of phenotypic novelty.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2017Review
- Coupling between alternative polyadenylation and alternative splicing is limited to terminal introns.RNA biology · 2016Article
- iTRAQ-based quantitative proteomic analysis of esophageal squamous cell carcinoma.Tumour biology : the journal of the International Society for Oncodevelopmental Biology and Medicine · 2016Article
- Intron retention is a widespread mechanism of tumor-suppressor inactivation.Nature genetics · 2015Article
- Isolation and characterization of novel RECK tumor suppressor gene splice variants.Oncotarget · 2015Article
- Splicing predictions reliably classify different types of alternative splicing.RNA (New York, N.Y.) · 2015Article
- Review
- Full-length single-cell RNA-seq applied to a viral human cancer: applications to HPV expression and splicing analysis in HeLa S3 cells.GigaScience · 2015Article
- Lineage-specific splicing of a brain-enriched alternative exon promotes glioblastoma progression.The Journal of clinical investigation · 2014Article
- In silico to in vivo splicing analysis using splicing code models.Methods (San Diego, Calif.) · 2014Article
- RRP1B is a metastasis modifier that regulates the expression of alternative mRNA isoforms through interactions with SRSF1.Oncogene · 2014Article
26 more citing papers are in PubMed but not listed here.
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
Abstract
We report here a genome-wide analysis of alternative splicing in 2 million human expressed sequence tags (ESTs), to identify splice forms that are up-regulated in tumors relative to normal tissues. We found strong evidence (P < 0.01) of cancer-specific splice variants in 316 human genes. In total, 78% of the cancer-specific splice forms we detected are confirmed by human-curated mRNA sequences, indicating that our results are not due to random mis-splicing in tumors; 73% of the genes showed the same cancer-specific splicing changes in tissue-matched tumor versus normal datasets, indicating that the vast majority of these changes are associated with tumorigenesis, not tissue specificity. We have confirmed our EST results in an independent set of experimental data provided by human-curated mRNAs (P-value 10(-5.7)). Moreover, the majority of the genes we detected have functions associated with cancer (P-value 0.0007), suggesting that their altered splicing may play a functional role in cancer. Analysis of the types of cancer-specific splicing shifts suggests that many of these shifts act by disrupting a tumor suppressor function. Sur prisingly, our data show that for a large number (190 in this study) of cancer-associated genes cloned originally from tumors, there exists a previously uncharacterized splice form of the gene that appears to be predominant in normal tissue.
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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.