BM-BC: a Bayesian method of base calling for Solexa sequence data

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dc.contributor.authorQuintana Quintana, Fernando
dc.contributor.authorJara Weitzmann, Alejandro
dc.contributor.authorJi, Yuan
dc.contributor.authorMitra, Riten
dc.contributor.authorMueller, Peter
dc.contributor.authorLiu, Ping
dc.contributor.authorLu, Yue
dc.contributor.authorLiang, Shoudan
dc.date.accessioned2019-10-18T15:55:17Z
dc.date.available2019-10-18T15:55:17Z
dc.date.issued2012
dc.date.updated2019-10-14T18:27:20Z
dc.description.abstractAbstract Base calling is a critical step in the Solexa next-generation sequencing procedure. It compares the position-specific intensity measurements that reflect the signal strength of four possible bases (A, C, G, T) at each genomic position, and outputs estimates of the true sequences for short reads of DNA or RNA. We present a Bayesian method of base calling, BM-BC, for Solexa-GA sequencing data. The Bayesian method builds on a hierarchical model that accounts for three sources of noise in the data, which are known to affect the accuracy of the base calls: fading, phasing, and cross-talk between channels. We show that the new method improves the precision of base calling compared with currently leading methods. Furthermore, the proposed method provides a probability score that measures the confidence of each base call. This probability score can be used to estimate the false discovery rate of the base calling or to rank the precision of the estimated DNA sequences, which in turn can be useful for downstream analysis such as sequence alignment.
dc.fuente.origenBiomed Central
dc.identifier.citationBMC Bioinformatics. 2012 Aug 24;13(Suppl 13):S6
dc.identifier.doi10.1186/1471-2105-13-S13-S6
dc.identifier.urihttps://doi.org/10.1186/1471-2105-13-S13-S6
dc.identifier.urihttps://repositorio.uc.cl/handle/11534/26861
dc.language.isoen
dc.pagina.final9
dc.pagina.inicio1
dc.revistaBMC Bioinformaticses_ES
dc.rightsacceso abierto
dc.rights.holderJi et al; licensee BioMed Central Ltd.
dc.subject.ddc570
dc.subject.deweyBiologíaes_ES
dc.subject.otherGenómica- Bases de datoses_ES
dc.subject.otherAdn - Procesamiento de datoses_ES
dc.titleBM-BC: a Bayesian method of base calling for Solexa sequence dataes_ES
dc.typeartículo
dc.volumenVol. 13 (Suppl. 13)
sipa.codpersvinculados55068
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