Filtering duplicate reads from 454 pyrosequencing data

  • Throughout the recent years, 454 pyrosequencing has emerged as an efficient alternative to traditional Sanger sequencing and is widely used in both de novo whole-genome sequencing and metagenomics. Especially the latter application is extremely sensitive to sequencing errors and artificially duplicated reads. Both are common in 454 pyrosequencing and can create a strong bias in the estimation of diversity and composition of a sample. To date, there are several tools that aim to remove both sequencing noise and duplicates. Nevertheless, duplicate removal is often based on nucleotide sequences rather than on the underlying flow values, which contain additional information.

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Metadaten
Author:Susanne Balzer, Ketil Malde, Markus GrohmeGND, Inge Jonassen
URN:urn:nbn:de:kobv:526-opus4-6080
DOI:https://doi.org/10.1093/bioinformatics/btt047
ISSN:1367-4811
Parent Title (English):Bioinformatics
Document Type:Article
Language:English
Year of Publication:2013
Date of first Publication:2013/02/01
Publishing Institution:Technische Hochschule Wildau
Release Date:2016/06/30
Volume:29
Issue:7
First Page:830
Last Page:836
Source:S.Balzer et al. Filtering duplicate reads from 454 pyrosequencing data. Vol. 29 no. 7 2013, pages 830–836. doi:10.1093/bioinformatics/btt047
Faculties an central facilities:Fachbereich Ingenieurwesen / Wirtschaftsingenieurwesen (bis 8/2014)
Dewey Decimal Classification:5 Naturwissenschaften und Mathematik / 57 Biowissenschaften; Biologie / 570 Biowissenschaften; Biologie
Licence (German):Creative Commons - CC BY 3.0 - Namensnennung 3.0 Unported
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