A bioinformatics resource for alternative splice events and transcripts for human, mouse, and rat
Tutorial and training materials by OpenHelix
| Learn to use the Alternative Splicing and Transcript Diversity (ASTD) database, a bioinformatics resource for alternative splice events and transcripts for the human, mouse, and rat systems. Become familiar with the gene searches and the comprehensive gene report pages that contain information on transcripts, promoters, polyadenylation sites, splicing events and microRNA targets. ASTD also provides several tools useful in analyzing introns, predicting exons, examining ORF and ATF context and identifying binding sites for splicing factors. ASTD provides the user with a straightforward workbench that allows for easy access to their vast tools and the data within. | Advertisement:
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You'll learn:
- to perform Basic and Advanced searches
- to navigate gene and transcript report pages
- to predict intron/exon boundaries and likely regulatory protein binding sites
- to search manually curated data regarding alternate splicing
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| Recent BioMed Central research articles citing this resourceSasson Albert et al., Food security for Africa: an urgent global challenge. Agriculture Food Security (2012) doi:10.1186/2048-7010-1-2 Sandercock AG Peter et al., The International Stroke Trial database. Trials (2012) doi:10.1186/1745-6215-13-24 Thenoz Morgan et al., HTLV-1 modulates alternative splicing in CD4+ T cells in vivo 15th International Conference on Human Retroviruses: HTLV and Related Viruses 15th International Conference on Human Retroviruses: HTLV and Related Viruses. Retrovirology (2011) doi:10.1186/1742-4690-8-S1-A168 Le Béchec Antony et al., MIR@NT@N: a framework integrating transcription factors, microRNAs and their targets to identify sub-network motifs in a meta-regulation network model. BMC Bioinformatics (2011) doi:10.1186/1471-2105-12-67 Lou Shao-Ke et al., Detection of splicing events and multiread locations from RNA-seq data based on a geometric-tail (GT) distribution of intron length Selected articles from the IEEE International Conference on Bioinformatics and Biomedicine 2010 IEEE International Conference on Bioinformatics and Biomedicine 2010. BMC Bioinformatics (2011) doi:10.1186/1471-2105-12-S5-S2 |
More about the resource:
The ASTD combines the information generated by the Alternate Transcript Diversity (ATD) project and the Alternative Splicing Database (ASD) into one comprehensive source. The information contained within ASTD combines reported alternate splicing events manually curated from the literature and computer-generated transcripts created by comparison of expressed sequence tag databases and genomic sequences. The database is maintained by the ASTD team at the European Bioinformatics Institute (EBI), an outstation of the European Molecular Biology Laboratory (EMBL) and by members of EURASNET.
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