ArticleDatabase : the journal of biological databases and curation2013
DBATE: database of alternative transcripts expression.
Article in Database : the journal of biological databases and curation, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
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Who cites it
7 citing papers in PubMed.
- New Drug Development and Clinical Trial Design by Applying Genomic Information Management.Pharmaceutics · 2022Review
- CuAS: a database of annotated transcripts generated by alternative splicing in cucumbers.BMC plant biology · 2020Article
- Temporal dynamics in meta longitudinal RNA-Seq data.Scientific reports · 2019Article
- The early transcriptome response of cassava (Manihot esculenta Crantz) to mealybug (Phenacoccus manihoti) feeding.PloS one · 2018Article
- Intergenic Alu exonisation facilitates the evolution of tissue-specific transcript ends.Nucleic acids research · 2015Article
- MIsoMine: a genome-scale high-resolution data portal of expression, function and networks at the splice isoform level in the mouse.Database : the journal of biological databases and curation · 2015Article
- AnaLysis of Expression on human chromosome 21, ALE-HSA21: a pilot integrated web resource.Database : the journal of biological databases and curation · 2014Article
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Authors and funding
6 authors.
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Abstract
The use of high-throughput RNA sequencing technology (RNA-seq) allows whole transcriptome analysis, providing an unbiased and unabridged view of alternative transcript expression. Coupling splicing variant-specific expression with its functional inference is still an open and difficult issue for which we created the DataBase of Alternative Transcripts Expression (DBATE), a web-based repository storing expression values and functional annotation of alternative splicing variants. We processed 13 large RNA-seq panels from human healthy tissues and in disease conditions, reporting expression levels and functional annotations gathered and integrated from different sources for each splicing variant, using a variant-specific annotation transfer pipeline. The possibility to perform complex queries by cross-referencing different functional annotations permits the retrieval of desired subsets of splicing variant expression values that can be visualized in several ways, from simple to more informative. DBATE is intended as a novel tool to help appreciate how, and possibly why, the transcriptome expression is shaped. DATABASE URL: http://bioinformatica.uniroma2.it/DBATE/.
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