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Genomics. 2018 May 12. pii: S0888-7543(18)30119-8. doi: 10.1016/j.ygeno.2018.05.010. [Epub ahead of print]

Interactive web-based identification and visualization of transcript shared sequences.

Author information

1
Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD 21218, USA.
2
Department of Computer Science, University of Maryland - College Park, College Park, MD 20742, USA.
3
Department of Pathology, Johns Hopkins School of Medicine, Baltimore 21205, USA. Electronic address: dwnauen@jhmi.edu.

Abstract

We have developed TraC (Transcript Consensus), a web-based tool for detecting and visualizing shared sequences among two or more mRNA transcripts such as splice variants. Results including exon-exon boundaries are returned in a highly intuitive, data-rich, interactive plot that permits users to explore the similarities and differences of multiple transcript sequences. The online tool (http://labs.pathology.jhu.edu/nauen/trac/) is free to use. The source code is freely available for download (https://github.com/nauenlab/TraC).

KEYWORDS:

Alternative splicing; RNA; Splice variant; Visualization

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