Correction of sequencing errors in a mixed set of reads | Zendy

Leena Salmela | Zendy

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Correction of sequencing errors in a mixed set of reads

Author(s) -

Leena Salmela

Publication year - 2010

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btq151

Subject(s) - hybrid genome assembly , computer science , deep sequencing , dna sequencing , set (abstract data type) , sequence assembly , computational biology , error detection and correction , illumina dye sequencing , data mining , reference genome , algorithm , biology , genetics , genome , programming language , dna , gene , gene expression , transcriptome

High-throughput sequencing technologies produce large sets of short reads that may contain errors. These sequencing errors make de novo assembly challenging. Error correction aims to reduce the error rate prior assembly. Many de novo sequencing projects use reads from several sequencing technologies to get the benefits of all used technologies and to alleviate their shortcomings. However, combining such a mixed set of reads is problematic as many tools are specific to one sequencing platform. The SOLiD sequencing platform is especially problematic in this regard because of the two base color coding of the reads. Therefore, new tools for working with mixed read sets are needed.

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