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김상우 교수, 김준호 박사 연구논문 한빛사 추천 논문으로 소개

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논문:

 

Junho Kim, Ju Heon Maeng, Jae Seok Lim, Heyonju Son, Junehawk Lee, Jeong Ho Lee and Sangwoo Kim*: Vecuum: identification and filtration of false somatic variants caused by recombinant vector contamination, Bioinformatics (2016) 32(20): 3072-3080.

2016년 발표된 김상우 교수, 김준호 박사의 Bioinformatics 논문이 BRIC에서 운영하는 한빛사 추천논문으로 등록되었습니다.

 

본 논문은 샘플 내 존재하는 vector contamination 의 발견과 이를 해결하는 새로운 알고리즘을 발표하였고, 새로운 사실 발견 및 기술적 진보를 인정받아 F1000Prime에서 추천논문으로 선정된 바 있습니다.

 

F1000Prime 논문 소개:

 

This is a very interesting paper that presents software to identify vector-contamination by inserts that are variable, not just the usual  contamination by known vectors of fixed sequence. The background is that when a vector gets integrated into a sequence and linearized, the fixed vector part may be adjacent to a variable sequence segment that was put (with different mutations) into the cloning vector. Such variations may be misinterpreted as bona fide low frequency mutations, especially in the setting of cancer sequencing studies that look for low-frequency somatic mutations in bulk samples. Thus, the authors' method can be used to distinguish somatic mutations in the host DNA from variation in the sequencing reagents that get sequenced along with the sample DNA. The general idea of the method is to identify sequence matches to known vectors, using BWA, and then look at the exon junction patterns in the adjacent sequences to see if they are skewed. In this paper, Figure 1 is "worth more than a thousand words" and readers should start at Figure 1 to understand the innovative problem formulation done by the authors.

 

한빛사 추천논문 링크

http://www.ibric.org/myboard/read.php?Board=hbs_treatise&id=48454&ttype=2&idauthorid=23677

원논문

http://bioinformatics.oxfordjournals.org/content/32/20/3072.full

F1000Prime 사이트

http://f1000.com/prime/726447850