Multiple knockout mouse models reveal lincRNAs are required for life and brain development

M Sauvageau, LA Goff, S Lodato, B Bonev, AF Groff… - elife, 2013 - elifesciences.org
Many studies are uncovering functional roles for long noncoding RNAs (lncRNAs), yet few
have been tested for in vivo relevance through genetic ablation in animal models. To …

A compendium and comparative epigenomics analysis of cis-regulatory elements in the pig genome

Y Zhao, Y Hou, Y Xu, Y Luan, H Zhou, X Qi… - Nature …, 2021 - nature.com
Although major advances in genomics have initiated an exciting new era of research, a lack
of information regarding cis-regulatory elements has limited the genetic improvement or …

The pluripotent regulatory circuitry connecting promoters to their long-range interacting elements

S Schoenfelder, M Furlan-Magaril, B Mifsud… - Genome …, 2015 - genome.cshlp.org
The mammalian genome harbors up to one million regulatory elements often located at
great distances from their target genes. Long-range elements control genes through …

Integrated genomics and proteomics define huntingtin CAG length–dependent networks in mice

P Langfelder, JP Cantle, D Chatzopoulou… - Nature …, 2016 - nature.com
To gain insight into how mutant huntingtin (mHtt) CAG repeat length modifies Huntington's
disease (HD) pathogenesis, we profiled mRNA in over 600 brain and peripheral tissue …

Enhancers: five essential questions

LA Pennacchio, W Bickmore, A Dean… - Nature Reviews …, 2013 - nature.com
Although enhancers are crucial and widespread gene-regulatory elements, we are far from
a complete understanding of how they function or their importance in areas such as disease …

Phase separation of OCT4 controls TAD reorganization to promote cell fate transitions

J Wang, H Yu, Q Ma, P Zeng, D Wu, Y Hou, X Liu, L Jia… - Cell Stem Cell, 2021 - cell.com
Topological-associated domains (TADs) are thought to be relatively stable across cell types,
although some TAD reorganization has been observed during cellular differentiation …

Epigenomic analysis of multilineage differentiation of human embryonic stem cells

W Xie, MD Schultz, R Lister, Z Hou, N Rajagopal… - Cell, 2013 - cell.com
Epigenetic mechanisms have been proposed to play crucial roles in mammalian
development, but their precise functions are only partially understood. To investigate …

The hierarchy of the 3D genome

JH Gibcus, J Dekker - Molecular cell, 2013 - cell.com
Mammalian genomes encode genetic information in their linear sequence, but appropriate
expression of their genes requires chromosomes to fold into complex three-dimensional …

Programming and inheritance of parental DNA methylomes in mammals

L Wang, J Zhang, J Duan, X Gao, W Zhu, X Lu, L Yang… - Cell, 2014 - cell.com
The reprogramming of parental methylomes is essential for embryonic development. In
mammals, paternal 5-methylcytosines (5mCs) have been proposed to be actively converted …

DNA methylation dynamics and dysregulation delineated by high-throughput profiling in the mouse

W Zhou, T Hinoue, B Barnes, O Mitchell, W Iqbal… - Cell genomics, 2022 - cell.com
We have developed a mouse DNA methylation array that contains 296,070 probes
representing the diversity of mouse DNA methylation biology. We present a mouse …