CFEA: a cell-free epigenome atlas in human diseases

Genome-wide cell-free DNA fragmentation in patients with cancer

(2019) Stephen Cristiano et al.   NATURE

Disease prediction by cell-free DNA methylation

(2018) Hao Feng et al.   BRIEFINGS IN BIOINFORMATICS

Principles of DNA methylation and their implications for biology and medicine

(2018) Yuval Dor et al.   LANCET

Clinical potential of circulating tumour DNA in patients receiving anticancer immunotherapy

(2018) Luc Cabel et al.   Nature Reviews Clinical Oncology

Sensitive tumour detection and classification using plasma cell-free DNA methylomes

(2018) Shu Yi Shen et al.   NATURE

Current and future perspectives of liquid biopsies in genomics-driven oncology

(2018) Ellen Heitzer et al.   NATURE REVIEWS GENETICS

Application of Cell-free DNA Analysis to Cancer Treatment

(2018) Ryan B. Corcoran et al.   NEW ENGLAND JOURNAL OF MEDICINE

Database Resources of the BIG Data Center in 2019

(2018) et al.   NUCLEIC ACIDS RESEARCH

Comprehensive human cell-type methylation atlas reveals origins of circulating cell-free DNA in health and disease

(2018) Joshua Moss et al.   Nature Communications

Circulating tumour DNA methylation markers for diagnosis and prognosis of hepatocellular carcinoma

(2017) Rui-hua Xu et al.   NATURE MATERIALS

Inferring expressed genes by whole-genome sequencing of plasma DNA

(2016) Peter Ulz et al.   NATURE GENETICS

Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays

(2014) Martin J. Aryee et al.   BIOINFORMATICS

Liquid Biopsies: Genotyping Circulating Tumor DNA

(2014) Luis A. Diaz et al.   JOURNAL OF CLINICAL ONCOLOGY

MEDIPS: genome-wide differential coverage analysis of sequencing data derived from DNA enrichment experiments

(2013) Matthias Lienhard et al.   BIOINFORMATICS

The Cancer Genome Atlas Pan-Cancer analysis project

(2013) John N Weinstein et al.   NATURE GENETICS

DANPOS: Dynamic analysis of nucleosome position and occupancy by sequencing

(2012) K. Chen et al.   GENOME RESEARCH

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Identifying ChIP-seq enrichment using MACS

(2012) Jianxing Feng et al.   Nature Protocols

NCBI GEO: archive for functional genomics data sets—update

(2012) Tanya Barrett et al.   NUCLEIC ACIDS RESEARCH

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

(2011) Felix Krueger et al.   BIOINFORMATICS

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

The Sequence Read Archive

(2010) R. Leinonen et al.   NUCLEIC ACIDS RESEARCH

Improvements to services at the European Nucleotide Archive

(2009) Rasko Leinonen et al.   NUCLEIC ACIDS RESEARCH