Chapter title |
Tracking Alternatively Spliced Isoforms from Long Reads by SpliceHunter
|
---|---|
Chapter number | 5 |
Book title |
Transcriptome Data Analysis
|
Published in |
Methods in molecular biology, January 2018
|
DOI | 10.1007/978-1-4939-7710-9_5 |
Pubmed ID | |
Book ISBNs |
978-1-4939-7709-3, 978-1-4939-7710-9
|
Authors |
Zheng Kuang, Stefan Canzar |
Abstract |
Alternative splicing increases the functional complexity of a genome by generating multiple isoforms and potentially proteins from the same gene. Vast amounts of alternative splicing events are routinely detected by short read deep sequencing technologies but their functional interpretation is hampered by an uncertain transcript context. Emerging long-read sequencing technologies provide a more complete picture of full-length transcript sequences. We introduce SpliceHunter, a tool for the computational interpretation of long reads generated by for example Pacific Biosciences instruments. SpliceHunter defines and tracks isoforms and novel transcription units across time points, compares their splicing pattern to a reference annotation, and translates them into potential protein sequences. |
Mendeley readers
Geographical breakdown
Country | Count | As % |
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Unknown | 7 | 100% |
Demographic breakdown
Readers by professional status | Count | As % |
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Student > Bachelor | 3 | 43% |
Student > Ph. D. Student | 1 | 14% |
Unspecified | 1 | 14% |
Researcher | 1 | 14% |
Student > Doctoral Student | 1 | 14% |
Other | 0 | 0% |
Readers by discipline | Count | As % |
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Biochemistry, Genetics and Molecular Biology | 3 | 43% |
Unspecified | 1 | 14% |