Alta-Cyclic: a self-optimizing base caller for next-generation sequencing

Erlich, Y., Mitra, P. P., Delabastide, M., McCombie, W. R., Hannon, G. J. (August 2008) Alta-Cyclic: a self-optimizing base caller for next-generation sequencing. Nature Methods, 5 (8). 679 - 682.

PDF (Alta-Cyclic: a self-optimizing base caller for next-generation sequencing) Alta_Cyclic_a_self-optimizing_base_caller_for_next_generation_sequencing.pdf - Accepted Version Restricted to Repository staff only Download (209kB)

Abstract

Next-generation sequencing is limited to short read lengths and by high error rates. We systematically analyzed sources of noise in the Illumina Genome Analyzer that contribute to these high error rates and developed a base caller, Alta-Cyclic, that uses machine learning to compensate for noise factors. Alta-Cyclic substantially improved the number of accurate reads for sequencing runs up to 78 bases and reduced systematic biases, facilitating confident identification of sequence variants.

Item Type:	Paper
Subjects:	bioinformatics > genomics and proteomics ?? Microarray_Data_Standardisation ?? ?? Q1 ?? bioinformatics > genomics and proteomics > analysis and processing > Sequence Data Processing
CSHL Authors:	De la bastide, Melissa Erlich, Yaniv Hannon, Gregory J. McCombie, W. Richard Mitra, Partha P.
Communities:	CSHL labs > Hannon lab CSHL labs > McCombie lab CSHL labs > Mitra lab School of Biological Sciences > Publications
Depositing User:	Tom Adams
Date:	August 2008
Date Deposited:	12 Jul 2011 15:29
Last Modified:	22 Sep 2014 16:01
PMCID:	PMC2978646
Related URLs:	Publisher
URI:	https://repository.cshl.edu/id/eprint/7727

Actions (login required)

Administrator's edit/view item