ArticleNucleic acids research2007
ECgene: an alternative splicing database update.
Article in Nucleic acids research, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed.
- Variant biomarker discovery using mass spectrometry-based proteogenomics.Frontiers in aging · 2023Review
- Comprehensive analysis of human protein N-termini enables assessment of various protein forms.Scientific reports · 2017Article
- Towards improved genome-scale metabolic network reconstructions: unification, transcript specificity and beyond.Briefings in bioinformatics · 2016Article
- A method for identifying discriminative isoform-specific peptides for clinical proteomics application.BMC genomics · 2016Article
- MiasDB: A Database of Molecular Interactions Associated with Alternative Splicing of Human Pre-mRNAs.PloS one · 2016Article
- Review: Alternative Splicing (AS) of Genes As An Approach for Generating Protein Complexity.Current genomics · 2013Article
- Alternative splicing in the regulation of cholesterol homeostasis.Current opinion in lipidology · 2013Review
- Systems-level analysis of proteolytic events in increased vascular permeability and complement activation in skin inflammation.Science signaling · 2013Article
- SASD: the Synthetic Alternative Splicing Database for identifying novel isoform from proteomics.BMC bioinformatics · 2013Article
- Alternative splicing for diseases, cancers, drugs, and databases.TheScientificWorldJournal · 2013Review
- Comparative proteomics reveals a significant bias toward alternative protein isoforms with conserved structure and function.Molecular biology and evolution · 2012Article
- A novel source for miR-21 expression through the alternative polyadenylation of VMP1 gene transcripts.Nucleic acids research · 2012Article
- Alternative splicing: a potential source of functional innovation in the eukaryotic genome.International journal of evolutionary biology · 2012Article
- PEPPI: a peptidomic database of human protein isoforms for proteomics experiments.BMC bioinformatics · 2010Article
- Genome-wide analysis of alternative splicing in cow: implications in bovine as a model for human diseases.BMC genomics · 2009Article
- Article
- Comprehensive splicing graph analysis of alternative splicing patterns in chicken, compared to human and mouse.BMC genomics · 2009Article
- Genomic landscape of developing male germ cells.Birth defects research. Part C, Embryo today : reviews · 2009Review
- The impact of microRNAs and alternative splicing in pharmacogenomics.The pharmacogenomics journal · 2009Article
- Splice-mediated Variants of Proteins (SpliVaP) - data and characterization of changes in signatures among protein isoforms due to alternative splicing.BMC genomics · 2008Article
Corrections and comments
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Authors and funding
10 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
ECgene (http://genome.ewha.ac.kr/ECgene) was developed to provide functional annotation for alternatively spliced genes. The applications encompass the genome-based transcript modeling for alternative splicing (AS), domain analysis with Gene Ontology (GO) annotation and expression analysis based on the EST and SAGE data. We have expanded the ECgene's AS modeling and EST clustering to nine organisms for which sufficient EST data are available in the GenBank. As for the human genome, we have also introduced several new applications to analyze differential expression. ECprofiler is an ontology-based candidate gene search system that allows users to select an arbitrary combination of gene expression pattern and GO functional categories. DEGEST is a database of differentially expressed genes and isoforms based on the EST information. Importantly, gene expression is analyzed at three distinctive levels-gene, isoform and exon levels. The user interfaces for functional and expression analyses have been substantially improved. ASviewer is a dedicated java application that visualizes the transcript structure and functional features of alternatively spliced variants. The SAGE part of the expression module provides many additional features including SNP, differential expression and alternative tag positions.
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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.