Results 31 to 40 of about 110,531 (202)

CUT&Tag2for1: a modified method for simultaneous profiling of the accessible and silenced regulome in single cells

Genome Biology, 2022
Cleavage Under Targets and Tagmentation (CUT&Tag) is an antibody-directed transposase tethering strategy for in situ chromatin profiling in small samples and single cells.
Derek H. Janssens, Dominik J. Otto, Michael P. Meers, Manu Setty, Kami Ahmad, Steven Henikoff   +5 more
doaj   +1 more source

Genome-Wide Profiling of Histone Modifications in Fission Yeast Using CUT&Tag. [PDF]

Methods Mol Biol
Eukaryotic DNA is organized in the nucleus in the form of chromatin. Nucleosomes, the fundamental unit of chromatin, are subject to many posttranslational modifications (PTMs) as well as compositional variations through incorporation of histone variants. These alterations play important roles in regulation of genome structure and activity.
Torres-Garcia S, Huang Y, Dewornu FS, Tong P, Yeboah R, Allshire R, Shukla M.   +6 more
europepmc   +5 more sources

The role of ZNF143 overexpression in rat liver cell proliferation

BMC Genomics, 2022
Background Zinc finger protein 143(ZNF143), a member of the Krüppel C2H2-type zinc finger protein family, is strongly associated with cell cycle regulation and cancer development.
Bingyu Ye, Wenlong Shen, Chunyan Zhang, Mengli Yu, Xinru Ding, Man Yin, Yahao Wang, Xinjie Guo, Ge Bai, Kailin Lin, Shu Shi, Ping Li, Yan Zhang, Guoying Yu, Zhihu Zhao   +14 more
doaj   +1 more source

Response to the commentary by Melidis et al. on "Untargeted CUT&Tag reads are enriched at accessible chromatin and restrict identification of potential G4-forming sequences in G4-targeted CUT&Tag experiments". [PDF]

Nucleic Acids Res
Abstract In their Matters Arising commentary, Melidis et al. critically evaluate our work (Nucleic Acids Research, volume 53, gkaf678). In our response, we emphasize why our approach supports the validity of our conclusions. The authors’ suggestion that we failed to include “explicit disclosure of the analytical methods and code” in ...
Byrd AK, Thompson MD.
europepmc   +3 more sources

CUT&Tag overcomes biases of ChIP and establishes chromatin patterns for repetitive genomic loci. [PDF]

iScience
New in situ chromatin profiling methods, such as CUT&Tag, have streamlined studies of chromatin features by eliminating the need for up-front purification, but we find that some features are not equally detectable when comparing with previous methods. ChIP-Seq and CUT&Tag identify similar chromatin enrichment profiles for genic loci, such as promoters,
Park BJ, Hua S, Casler KD, Cefaloni E, Ayers MC, Lake RF, Murphy KE, Vertino PM, O'Connell MR, Murphy PJ.   +9 more
europepmc   +3 more sources

Distinct H3K27me3 and H3K27ac Modifications in Neural Tube Defects Induced by Benzo[a]pyrene

Brain Sciences, 2023
The pathological mechanisms of neural tube defects (NTDs) are not yet fully understood. Although the dysregulation of histone modification in NTDs is recognized, it remains to be fully elucidated on a genome-wide level.
Shanshan Lin, Chengrui Wang, Zhiwen Li, Xiu Qiu   +3 more
doaj   +1 more source

Inhibition of histone methyltransferase PRMT5 attenuates cisplatin-induced hearing loss through the PI3K/Akt-mediated mitochondrial apoptotic pathway

Journal of Pharmaceutical Analysis, 2023
This study aimed to evaluate the therapeutic potential of inhibiting protein arginine methyltransferase 5 (PRMT5) in cisplatin-induced hearing loss.
Zhiwei Zheng, Benyu Nan, Chang Liu, Dongmei Tang, Wen Li, Liping Zhao, Guohui Nie, Yingzi He   +7 more
doaj   +1 more source

Benchmark of chromatin–protein interaction methods in haploid round spermatids

Frontiers in Cell and Developmental Biology
IntroductionChromatin–protein interactions are fundamental for regulation of gene transcription. While chromatin immunoprecipitation followed by deep sequencing (ChIP-seq) has long been the gold standard for mapping these interactions, emerging ...
Ruolei Wang, Yue Wu, Ze Zhou, Yicheng Ma, Weidong Zhang, Zihang Wang, Weihan Luo, Peng Hua   +7 more
doaj   +1 more source

CUT&Tag recovers up to half of ENCODE ChIP-seq histone acetylation peaks

Nature Communications, 2022
Abstract Techniques for genome-wide epigenetic profiling have been undergoing accelerated development toward recovery of high-quality data from bulk and single cell samples. DNA-protein interactions have traditionally been profiled via chromatin immunoprecipitation followed by next generation sequencing (ChIP-seq ...
Abbasova L, Abbasova L, Urbanaviciute P, Hu D, Ismail JN, Schilder BM, Schilder BM, Nott A, Skene NG, Marzi SJ.   +9 more
europepmc   +4 more sources

Health‐Related Social Needs in Children With Sickle Cell Disease Are Associated With Worse Health‐Related Quality of Life

Pediatric Blood &Cancer, EarlyView.
ABSTRACT Background Children with sickle cell disease (SCD) face multiple acute and chronic medical complications that may impact their quality of life as reported by patients themselves. Health‐related social needs (HRSNs), such as food and housing insecurity, are common in people with SCD, but the association between HRSNs and patient‐reported ...
Sarah J. Marks, Molly Sonenklar, Cerelia Donald, Cecelia Valrie, Wally Smith, India Sisler   +5 more
wiley   +1 more source