Wang, X., Yu, X., Zhu, W., McCombie, W. R., Antoniou, E., Powers, R. S., Davidson, N. O., Li, E., Williams, J. (June 2015) A trimming-and-retrieving alignment scheme for reduced representation bisulfite sequencing. Bioinformatics, 31 (12). pp. 2040-2042. ISSN 1367-4803
Abstract
SUMMARY: Currently available bisulfite sequencing tools frequently suffer from low mapping rates and low methylation calls, especially for data generated from the Illumina sequencer, NextSeq. Here we introduce a sequential trimming-and-retrieving alignment approach for investigating DNA methylation patterns, which significantly improves the number of mapped reads and covered CpG sites. The method is implemented in an automated analysis toolkit for processing bisulfite sequencing reads. Availability: http://mysbfiles.stonybrook.edu/~xuefenwang/software.html https://github.com/xfwang/BStools CONTACT: xuefeng.wang@stonybrook.edu SUPPLEMENTARY INFORMATION: Supplementary materials are available at Bioinformatics online.
| Item Type: | Paper |
|---|---|
| Subjects: | Investigative techniques and equipment > assays > next generation sequencing |
| CSHL Authors: | |
| Communities: | CSHL Cancer Center Program > Cancer Genetics CSHL labs > McCombie lab CSHL labs > Powers lab CSHL Cancer Center Shared Resources > DNA Sequencing Service |
| Depositing User: | Matt Covey |
| Date: | 15 June 2015 |
| Date Deposited: | 01 Jul 2015 19:13 |
| Last Modified: | 16 Jul 2021 14:02 |
| PMCID: | PMC4481698 |
| Related URLs: | |
| URI: | https://repository.cshl.edu/id/eprint/31608 |
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