SeqOthello: querying RNA-seq experiments at scale

SeqOthello: querying RNA-seq experiments at scale

Abstract We present SeqOthello, an ultra-fast and memory-efficient indexing structure to support arbitrary sequence query against large collections of RNA-seq experiments. It takes SeqOthello only 5 min and 19.1 GB memory to conduct a global survey of 11,658 fusion events against 10,113 TCGA Pan-Can...

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Bibliographic Details
Main Authors: Ye Yu, Jinpeng Liu, Xinan Liu, Yi Zhang, Eamonn Magner, Erik Lehnert, Chen Qian, Jinze Liu
Format: Article
Language:English
Published: BMC 2018-10-01
Series:Genome Biology
Subjects:
RNA-seq
TCGA
Gene fusion
Pan-cancer
Query
Compression
Online Access:http://link.springer.com/article/10.1186/s13059-018-1535-9

Internet

http://link.springer.com/article/10.1186/s13059-018-1535-9

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