Epigenetics as a mediator of plasticity in cancer
AP Feinberg, A Levchenko - Science, 2023 - science.org
The concept of an epigenetic landscape describing potential cellular fates arising from
pluripotent cells, first advanced by Conrad Waddington, has evolved in light of experiments …
pluripotent cells, first advanced by Conrad Waddington, has evolved in light of experiments …
Mechanisms of chromosome folding and nuclear organization: their interplay and open questions
Microscopy and genomic approaches provide detailed descriptions of the three-dimensional
folding of chromosomes and nuclear organization. The fundamental question is how activity …
folding of chromosomes and nuclear organization. The fundamental question is how activity …
Diverse silent chromatin states modulate genome compartmentalization and loop extrusion barriers
The relationships between chromosomal compartmentalization, chromatin state and function
are poorly understood. Here by profiling long-range contact frequencies in HCT116 colon …
are poorly understood. Here by profiling long-range contact frequencies in HCT116 colon …
Long-range phasing of dynamic, tissue-specific and allele-specific regulatory elements
Epigenomic maps identify gene regulatory elements by their chromatin state. However,
prevailing short-read sequencing methods cannot effectively distinguish alleles, evaluate …
prevailing short-read sequencing methods cannot effectively distinguish alleles, evaluate …
The co-evolution of the genome and epigenome in colorectal cancer
T Heide, J Househam, GD Cresswell, I Spiteri, C Lynn… - Nature, 2022 - nature.com
Colorectal malignancies are a leading cause of cancer-related death and have undergone
extensive genomic study,. However, DNA mutations alone do not fully explain malignant …
extensive genomic study,. However, DNA mutations alone do not fully explain malignant …
dcHiC detects differential compartments across multiple Hi-C datasets
The compartmental organization of mammalian genomes and its changes play important
roles in distinct biological processes. Here, we introduce dcHiC, which utilizes a multivariate …
roles in distinct biological processes. Here, we introduce dcHiC, which utilizes a multivariate …
[HTML][HTML] The molecular feature of macrophages in tumor immune microenvironment of glioma patients
Background Gliomas are one of the most common types of primary tumors in central nervous
system. Previous studies have found that macrophages actively participate in tumor growth …
system. Previous studies have found that macrophages actively participate in tumor growth …
An atlas of lamina-associated chromatin across twelve human cell types reveals an intermediate chromatin subtype
Background Association of chromatin with lamin proteins at the nuclear periphery has
emerged as a potential mechanism to coordinate cell type-specific gene expression and …
emerged as a potential mechanism to coordinate cell type-specific gene expression and …
Systematic inference and comparison of multi-scale chromatin sub-compartments connects spatial organization to cell phenotypes
Chromatin compartmentalization reflects biological activity. However, inference of chromatin
sub-compartments and compartment domains from chromosome conformation capture (Hi …
sub-compartments and compartment domains from chromosome conformation capture (Hi …
[HTML][HTML] DNA hypomethylation silences anti-tumor immune genes in early prostate cancer and CTCs
Cancer is characterized by hypomethylation-associated silencing of large chromatin
domains, whose contribution to tumorigenesis is uncertain. Through high-resolution genome …
domains, whose contribution to tumorigenesis is uncertain. Through high-resolution genome …