Non-referenced genome assembly from epigenomic short-read data.
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ABSTRACT:
SUBMITTER: Kaspi A
PROVIDER: S-EPMC4622496 | biostudies-literature | 2014 Oct
REPOSITORIES: biostudies-literature
Publications
Non-referenced genome assembly from epigenomic short-read data.
Kaspi Antony A Ziemann Mark M Keating Samuel T ST Khurana Ishant I Connor Timothy T Spolding Briana B Cooper Adrian A Lazarus Ross R Walder Ken K Zimmet Paul P El-Osta Assam A El-Osta Assam A
Epigenetics 20141001 10
Current computational methods used to analyze changes in DNA methylation and chromatin modification rely on sequenced genomes. Here we describe a pipeline for the detection of these changes from short-read sequence data that does not require a reference genome. Open source software packages were used for sequence assembly, alignment, and measurement of differential enrichment. The method was evaluated by comparing results with reference-based results showing a strong correlation between chromati ...[more]
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