ArticleGenome biology2013
AVISPA: a web tool for the prediction and analysis of alternative splicing.
Article in Genome biology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed.
- Article
- Decoding exon inclusion in the human brain reveals more divergent splicing mechanisms in neurons than glia.Genome biology · 2026Article
- Artificial intelligence in drug development for delirium and Alzheimer's disease.Acta pharmaceutica Sinica. B · 2025Review
- The dual role of RNA-binding proteins: promotion of tumorigenesis, drug resistance, and emerging therapeutic targets.Acta biochimica et biophysica Sinica · 2025Article
- Splicing regulatory dynamics for precision analysis and treatment of heterogeneous leukemias.Science translational medicine · 2025Article
- Predicting exon criticality from protein sequence.Nucleic acids research · 2022Article
- Artificial intelligence and machine learning-aided drug discovery in central nervous system diseases: State-of-the-arts and future directions.Medicinal research reviews · 2021Review
- Review
- Enhanced Integrated Gradients: improving interpretability of deep learning models using splicing codes as a case study.Genome biology · 2020Article
- Epigenome-based splicing prediction using a recurrent neural network.PLoS computational biology · 2020Article
- Decoding a cancer-relevant splicing decision in the RON proto-oncogene using high-throughput mutagenesis.Nature communications · 2018Article
- Outlier detection for improved differential splicing quantification from RNA-Seq experiments with replicates.Bioinformatics (Oxford, England) · 2018Article
- The Expanding Landscape of Alternative Splicing Variation in Human Populations.American journal of human genetics · 2018Review
- Transcriptome analysis of hypoxic cancer cells uncovers intron retention in EIF2B5 as a mechanism to inhibit translation.PLoS biology · 2017Article
- Ancient antagonism between CELF and RBFOX families tunes mRNA splicing outcomes.Genome research · 2017Article
- Integrative deep models for alternative splicing.Bioinformatics (Oxford, England) · 2017Article
- A new view of transcriptome complexity and regulation through the lens of local splicing variations.eLife · 2016Article
- Convergence of Acquired Mutations and Alternative Splicing of CD19 Enables Resistance to CART-19 Immunotherapy.Cancer discovery · 2015Article
- Widespread JNK-dependent alternative splicing induces a positive feedback loop through CELF2-mediated regulation of MKK7 during T-cell activation.Genes & development · 2015Article
- Splicing predictions reliably classify different types of alternative splicing.RNA (New York, N.Y.) · 2015Article
Corrections and comments
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Authors and funding
7 authors.
Funding
Abstract
Transcriptome complexity and its relation to numerous diseases underpins the need to predict in silico splice variants and the regulatory elements that affect them. Building upon our recently described splicing code, we developed AVISPA, a Galaxy-based web tool for splicing prediction and analysis. Given an exon and its proximal sequence, the tool predicts whether the exon is alternatively spliced, displays tissue-dependent splicing patterns, and whether it has associated regulatory elements. We assess AVISPA's accuracy on an independent dataset of tissue-dependent exons, and illustrate how the tool can be applied to analyze a gene of interest. AVISPA is available at http://avispa.biociphers.org.
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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.