ArticleNucleic acids research2015
APPRIS WebServer and WebServices.
Article in Nucleic acids research, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
- Transposable elements contribute to tissue-specific gene regulation in humans.Genes & genomics · 2024Article
- SpliceProt 2.0: A Sequence Repository of Human, Mouse, and Rat Proteoforms.International journal of molecular sciences · 2024Article
- Pan-cancer surveys indicate cell cycle-related roles of primate-specific genes in tumors and embryonic cerebrum.Genome biology · 2022Article
- APPRIS: selecting functionally important isoforms.Nucleic acids research · 2022Article
- Few SINEs of life: Alu elements have little evidence for biological relevance despite elevated translation.NAR genomics and bioinformatics · 2020Article
- Exploring the functional impact of alternative splicing on human protein isoforms using available annotation sources.Briefings in bioinformatics · 2019Review
- GenTree, an integrated resource for analyzing the evolution and function of primate-specific coding genes.Genome research · 2019Article
- Isoform-level gene expression patterns in single-cell RNA-sequencing data.Bioinformatics (Oxford, England) · 2018Article
- APPRIS 2017: principal isoforms for multiple gene sets.Nucleic acids research · 2018Article
- Framework and resource for more than 11,000 gene-transcript-protein-reaction associations in human metabolism.Proceedings of the National Academy of Sciences of the United States of America · 2017Article
- Differential molecular regulation of processing and membrane expression of Type-I BMP receptors: implications for signaling.Cellular and molecular life sciences : CMLS · 2017Article
- Identification of protein features encoded by alternative exons using Exon Ontology.Genome research · 2017Article
- Conservation of coevolving protein interfaces bridges prokaryote-eukaryote homologies in the twilight zone.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- ProtAnnot: an App for Integrated Genome Browser to display how alternative splicing and transcription affect proteins.Bioinformatics (Oxford, England) · 2016Article
- Different evolutionary patterns of SNPs between domains and unassigned regions in human protein-coding sequences.Molecular genetics and genomics : MGG · 2016Article
- Ensembl 2016.Nucleic acids research · 2016Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
This paper introduces the APPRIS WebServer (http://appris.bioinfo.cnio.es) and WebServices (http://apprisws.bioinfo.cnio.es). Both the web servers and the web services are based around the APPRIS Database, a database that presently houses annotations of splice isoforms for five different vertebrate genomes. The APPRIS WebServer and WebServices provide access to the computational methods implemented in the APPRIS Database, while the APPRIS WebServices also allows retrieval of the annotations. The APPRIS WebServer and WebServices annotate splice isoforms with protein structural and functional features, and with data from cross-species alignments. In addition they can use the annotations of structure, function and conservation to select a single reference isoform for each protein-coding gene (the principal protein isoform). APPRIS principal isoforms have been shown to agree overwhelmingly with the main protein isoform detected in proteomics experiments. The APPRIS WebServer allows for the annotation of splice isoforms for individual genes, and provides a range of visual representations and tools to allow researchers to identify the likely effect of splicing events. The APPRIS WebServices permit users to generate annotations automatically in high throughput mode and to interrogate the annotations in the APPRIS Database. The APPRIS WebServices have been implemented using REST architecture to be flexible, modular and automatic.
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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.