Analysis and Visualization Tool for Targeted Amplicon Bisulfite Sequencing on Ion Torrent Sequencers

MSRE-HTPrimer: a high-throughput and genome-wide primer design pipeline optimized for epigenetic research

(2016) Ram Vinay Pandey et al.   Clinical Epigenetics

Semiconductor-based sequencing of genome-wide DNA methylation states

(2015) Michael J Corley et al.   Epigenetics

The impact of Docker containers on the performance of genomic pipelines

(2015) Paolo Di Tommaso et al.   PeerJ

BiQ Analyzer HiMod: an interactive software tool for high-throughput locus-specific analysis of 5-methylcytosine and its oxidized derivatives

(2014) Daniel Becker et al.   NUCLEIC ACIDS RESEARCH

Comparison and quantitative verification of mapping algorithms for whole-genome bisulfite sequencing

(2014) Govindarajan Kunde-Ramamoorthy et al.   NUCLEIC ACIDS RESEARCH

Strategies for validation and testing of DNA methylation biomarkers

(2014) Christa Noehammer et al.   Epigenomics

The relationship between DNA methylation, genetic and expression inter-individual variation in untransformed human fibroblasts

(2014) James R Wagner et al.   GENOME BIOLOGY

BS-Seeker2: a versatile aligning pipeline for bisulfite sequencing data

(2013) Weilong Guo et al.   BMC GENOMICS

Intragenic DNA methylation modulates alternative splicing by recruiting MeCP2 to promote exon recognition

(2013) Alika K Maunakea et al.   CELL RESEARCH

Disentangling DNA methylation

(2013) Mary Muers   NATURE REVIEWS GENETICS

Shining a Light on Dark Sequencing: Characterising Errors in Ion Torrent PGM Data

(2013) Lauren M. Bragg et al.   PLoS Computational Biology

DNA methylation age of human tissues and cell types

(2013) Steve Horvath   GENOME BIOLOGY

IMA: an R package for high-throughput analysis of Illumina's 450K Infinium methylation data

(2012) D. Wang et al.   BIOINFORMATICS

Cohort Profile: TwinsUK and Healthy Ageing Twin Study

(2012) A. Moayyeri et al.   INTERNATIONAL JOURNAL OF EPIDEMIOLOGY

Performance comparison of benchtop high-throughput sequencing platforms

(2012) Nicholas J Loman et al.   NATURE BIOTECHNOLOGY

DNA methylome analysis using short bisulfite sequencing data

(2012) Felix Krueger et al.   NATURE METHODS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Comparison of alignment software for genome-wide bisulphite sequence data

(2012) Aniruddha Chatterjee et al.   NUCLEIC ACIDS RESEARCH

Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications

(2011) Felix Krueger et al.   BIOINFORMATICS

Quality control and preprocessing of metagenomic datasets

(2011) R. Schmieder et al.   BIOINFORMATICS

Targeted enrichment of genomic DNA regions for next-generation sequencing

(2011) F. Mertes et al.   Briefings in Functional Genomics

An integrated semiconductor device enabling non-optical genome sequencing

(2011) Jonathan M. Rothberg et al.   NATURE

Epigenetic modifications and human disease

(2010) Anna Portela et al.   NATURE BIOTECHNOLOGY

BSMAP: whole genome bisulfite sequence MAPping program

(2009) Yuanxin Xi et al.   BMC BIOINFORMATICS

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY