Coming of age: ten years of next-generation sequencing technologies

S Goodwin, JD McPherson, WR McCombie - Nature reviews genetics, 2016 - nature.com
Since the completion of the human genome project in 2003, extraordinary progress has
been made in genome sequencing technologies, which has led to a decreased cost per …

[HTML][HTML] DNA methylation analysis: choosing the right method

S Kurdyukov, M Bullock - Biology, 2016 - mdpi.com
In the burgeoning field of epigenetics, there are several methods available to determine the
methylation status of DNA samples. However, choosing the method that is best suited to …

Repetitive DNA and next-generation sequencing: computational challenges and solutions

TJ Treangen, SL Salzberg - Nature Reviews Genetics, 2012 - nature.com
Repetitive DNA sequences are abundant in a broad range of species, from bacteria to
mammals, and they cover nearly half of the human genome. Repeats have always …

The Polycomb complex PRC2 and its mark in life

R Margueron, D Reinberg - Nature, 2011 - nature.com
Polycomb group proteins maintain the gene-expression pattern of different cells that is set
during early development by regulating chromatin structure. In mammals, two main …

Human DNA methylomes at base resolution show widespread epigenomic differences

R Lister, M Pelizzola, RH Dowen, RD Hawkins, G Hon… - nature, 2009 - nature.com
DNA cytosine methylation is a central epigenetic modification that has essential roles in
cellular processes including genome regulation, development and disease. Here we …

Principles and challenges of genome-wide DNA methylation analysis

PW Laird - Nature Reviews Genetics, 2010 - nature.com
Methylation of cytosine bases in DNA provides a layer of epigenetic control in many
eukaryotes that has important implications for normal biology and disease. Therefore …

Preparation of reduced representation bisulfite sequencing libraries for genome-scale DNA methylation profiling

H Gu, ZD Smith, C Bock, P Boyle, A Gnirke… - Nature protocols, 2011 - nature.com
Genome-wide mapping of 5-methylcytosine is of broad interest to many fields of biology and
medicine. A variety of methods have been developed, and several have recently been …

[HTML][HTML] Single-cell epigenomics: powerful new methods for understanding gene regulation and cell identity

SJ Clark, HJ Lee, SA Smallwood, G Kelsey, W Reik - Genome biology, 2016 - Springer
Emerging single-cell epigenomic methods are being developed with the exciting potential to
transform our knowledge of gene regulation. Here we review available techniques and …

[HTML][HTML] Distinct epigenomic landscapes of pluripotent and lineage-committed human cells

RD Hawkins, GC Hon, LK Lee, QM Ngo, R Lister… - Cell stem cell, 2010 - cell.com
Human embryonic stem cells (hESCs) share an identical genome with lineage-committed
cells, yet possess the remarkable properties of self-renewal and pluripotency. The diverse …

[HTML][HTML] Contribution of intragenic DNA methylation in mouse gametic DNA methylomes to establish oocyte-specific heritable marks

H Kobayashi, T Sakurai, M Imai, N Takahashi… - PLoS …, 2012 - journals.plos.org
Genome-wide dynamic changes in DNA methylation are indispensable for germline
development and genomic imprinting in mammals. Here, we report single-base resolution …