Epigenetics as a mediator of plasticity in cancer
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 …
Multi-stage mechanisms of tumor metastasis and therapeutic strategies
Z Liu, J Chen, Y Ren, S Liu, Y Ba, A Zuo… - … and Targeted Therapy, 2024 - nature.com
The cascade of metastasis in tumor cells, exhibiting organ-specific tendencies, may occur at
numerous phases of the disease and progress under intense evolutionary pressures. Organ …
numerous phases of the disease and progress under intense evolutionary pressures. Organ …
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 …
Integrated analyses highlight interactions between the three-dimensional genome and DNA, RNA and epigenomic alterations in metastatic prostate cancer
The impact of variations in the three-dimensional structure of the genome has been
recognized, but solid cancer tissue studies are limited. Here, we performed integrated deep …
recognized, but solid cancer tissue studies are limited. Here, we performed integrated deep …
Mutant IDH1 inhibition induces dsDNA sensing to activate tumor immunity
Isocitrate dehydrogenase 1 (IDH1) is the most commonly mutated metabolic gene across
human cancers. Mutant IDH1 (mIDH1) generates the oncometabolite (R)-2 …
human cancers. Mutant IDH1 (mIDH1) generates the oncometabolite (R)-2 …
The co-evolution of the genome and epigenome in colorectal cancer
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 …
Tumor editing suppresses innate and adaptive antitumor immunity and is reversed by inhibiting DNA methylation
Cancer cells edit gene expression to evade immunosurveillance. However, genome-wide
studies of gene editing during early tumorigenesis are lacking. Here we used single-cell …
studies of gene editing during early tumorigenesis are lacking. Here we used single-cell …
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 …