A new tool developed for high-speed search of fungal protein homologies

Ref ID: 19337

Author:

Xiao Hu, Chengshu Wang

Author address:

Key Laboratory of Insect Developmental and Evolutionary Biology, institute of Plant Physiology and
ecology; shanghai institutes for Biological sciences; Chinese Academy of sciences; Shanghai, China

Full conference title:

Asian Mycological Congress 2013 and the 13th International Marine and Freshwater Mycology Symposium

Date: 19 August 2014

Abstract:

Along with the wide application of Next Generation Sequencing (NGS) techniques, more and
more fungal genomics have been sequenced. Protein homology search plays the most important role in
comparative genomics studies. Traditional protein search tools such as blastp and fasta have worked
very well in the past years, but are hard to deal with the rapid growing data from NGS. Here, we
developed a new tool: Real sImple proteiN seArch tool (RINA) to help accelerate the speed of data
processing. In principle, RINA uses the same heuristic method as in blastp and fasta, but with an
optimized data structuring especially designed for fungal genome data. In practical applications, for
example, RINA can achieve 2-3 orders of magnitude of speedup in gene function annotation but taking
very low memory resources. Overall, the features of RINA enable it a very suitable tool for researchers to
handle a large fungal genome dataset but with limited computational resources.

Abstract Number: A-07

Conference Year: 2013

Link to conference website: NULL

New link: NULL

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