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Article

One is not enough: On the effects of reference genome for the mapping and subsequent analyses of short-reads.

PLoS computational biology - 1 Jan 2021

Valiente-Mullor Carlos, Beamud Beatriz, Ansari Iván, Francés-Cuesta Carlos, García-González Neris, Mejía Lorena, Ruiz-Hueso Paula, González-Candelas Fernando

Abstract excerpt

Mapping of high-throughput sequencing (HTS) reads to a single arbitrary reference genome is a frequently used approach in microbial genomics. However, the choice of a reference may represent a source of errors that may affect subsequent analyses such as the detection of single nucleotide polymorphisms (SNPs) and phylogenetic inference. In this work, we evaluated the effect of reference choice on short-read...

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Methodology Data sources Editorial policy Privacy About Contact Helena Bioinformatics

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Identifiers

PMID: 33503026
DOI: 10.1371/journal.pcbi.1008678
PMCID: PMC7870062

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PubMed metadata and Literature Corpus relationships. Corpus snapshot updated 7 Sept 2026. Manifest publication-graph-cohort-2026-09-07.1.

Source receipt: pubmed, retrieved 7 Sept 2026.

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