DNA methylation suppresses chitin degradation and promotes the wing development by inhibiting Bmara-mediated chitinase expression in the silkworm, Bombyx mori
DNA methylation, as an essential epigenetic modification found in mammals and plants, has been implicated to play an important role in insect reproduction. However, the functional role and the regulatory mecha... (Source: Epigenetics and Chromatin)
Source: Epigenetics and Chromatin - September 4, 2020 Category: Genetics & Stem Cells Authors: Guanfeng Xu, Yangqin Yi, Hao Lyu, Chengcheng Gong, Qili Feng, Qisheng Song, Xuezhen Peng, Lin Liu and Sichun Zheng Tags: Research Source Type: research
N6-Adenosine methylation on mRNA is recognized by YTH2 domain protein of human malaria parasite Plasmodium falciparum
Plasmodium falciparum exhibits high translational plasticity during its development in RBCs, yet the regulation at the post-transcriptional level is not well understood. The N6-methyl adenosine (m6A) is an import... (Source: Epigenetics and Chromatin)
Source: Epigenetics and Chromatin - August 31, 2020 Category: Genetics & Stem Cells Authors: Gayathri Govindaraju, Rajashekar Varma Kadumuri, Devadathan Valiyamangalath Sethumadhavan, C. A. Jabeena, Sreenivas Chavali and Arumugam Rajavelu Tags: Research Source Type: research
Distinct and overlapping roles of STAG1 and STAG2 in cohesin localization and gene expression in embryonic stem cells
The three-dimensional organization of the genome in the nucleus plays an integral role in many biological processes, including gene expression. The genome is folded into DNA loops that bring together distal re... (Source: Epigenetics and Chromatin)
Source: Epigenetics and Chromatin - August 10, 2020 Category: Genetics & Stem Cells Authors: Nicole L. Arruda, Zachary M. Carico, Megan Justice, Ying Frances Liu, Junjie Zhou, Holden C. Stefan and Jill M. Dowen Tags: Research Source Type: research
HISTome2: a database of histone proteins, modifiers for multiple organisms and epidrugs
Epigenetics research is progressing in basic, pre-clinical and clinical studies using various model systems. Hence, updating the knowledge and integration of biological data emerging from in silico, in vitro a... (Source: Epigenetics and Chromatin)
Source: Epigenetics and Chromatin - August 3, 2020 Category: Genetics & Stem Cells Authors: Sanket G. Shah, Tushar Mandloi, Pooja Kunte, Abhiram Natu, Mudasir Rashid, Divya Reddy, Nikhil Gadewal and Sanjay Gupta Tags: Research Source Type: research
Histone N-alpha terminal modifications: genome regulation at the tip of the tail
Histone proteins are decorated with numerous post-(PTMs) or co-(CTMs) translational modifications mainly on their unstructured tails, but also on their globular domain. For many decades research on histone mod... (Source: Epigenetics and Chromatin)
Source: Epigenetics and Chromatin - July 17, 2020 Category: Genetics & Stem Cells Authors: Christina Demetriadou, Costas Koufaris and Antonis Kirmizis Tags: Review Source Type: research
Impact of 3D genome organization, guided by cohesin and CTCF looping, on sex-biased chromatin interactions and gene expression in mouse liver
Several thousand sex-differential distal enhancers have been identified in mouse liver; however, their links to sex-biased genes and the impact of any sex-differences in nuclear organization and chromatin inte... (Source: Epigenetics and Chromatin)
Source: Epigenetics and Chromatin - July 17, 2020 Category: Genetics & Stem Cells Authors: Bryan J. Matthews and David J. Waxman Tags: Research Source Type: research
Molecular mechanism of histone variant H2A.B on stability and assembly of nucleosome and chromatin structures
H2A.B, the most divergent histone variant of H2A, can significantly modulate nucleosome and chromatin structures. However, the related structural details and the underlying mechanism remain elusive to date. In... (Source: Epigenetics and Chromatin)
Source: Epigenetics and Chromatin - July 14, 2020 Category: Genetics & Stem Cells Authors: Junhui Peng, Chuang Yuan, Xinfan Hua and Zhiyong Zhang Tags: Research Source Type: research
HiCoP, a simple and robust method for detecting interactions of regulatory regions
Chromatin physical interactions provide essential information for understanding the regulation of cis-elements like enhancers, promoters, and insulators in cell development and differentiation. The Hi-C assay is ... (Source: Epigenetics and Chromatin)
Source: Epigenetics and Chromatin - July 1, 2020 Category: Genetics & Stem Cells Authors: Yan Zhang, Zhaoqiang Li, Shasha Bian, Hao Zhao, Delong Feng, Yanhong Chen, Yuhe Hou, Qifa Liu and Bingtao Hao Tags: Methodology Source Type: research
Linker histone epitopes are hidden by in situ higher-order chromatin structure
Histone H1 is the most mobile histone in the cell nucleus. Defining the positions of H1 on chromatin in situ, therefore, represents a challenge. Immunoprecipitation of formaldehyde-fixed and sonicated chromati... (Source: Epigenetics and Chromatin)
Source: Epigenetics and Chromatin - June 6, 2020 Category: Genetics & Stem Cells Authors: Vladimir B. Teif, Travis J. Gould, Christopher T. Clarkson, Logan Boyd, Enoch B. Antwi, Naveed Ishaque, Ada L. Olins and Donald E. Olins Tags: Research Source Type: research
DAMEfinder: a method to detect differential allele-specific methylation
DNA methylation is a highly studied epigenetic signature that is associated with regulation of gene expression, whereby genes with high levels of promoter methylation are generally repressed. Genomic imprintin... (Source: Epigenetics and Chromatin)
Source: Epigenetics and Chromatin - June 1, 2020 Category: Genetics & Stem Cells Authors: Stephany Orjuela, Dania Machlab, Mirco Menigatti, Giancarlo Marra and Mark D. Robinson Tags: Methodology Source Type: research
Taf14 is required for the stabilization of transcription pre-initiation complex in Saccharomyces cerevisiae
The YEATS domain is a highly conserved protein structure that interacts with acetylated and crotonylated lysine residues in N-terminal tails of histones. The budding yeast genome encodes three YEATS domain pro... (Source: Epigenetics and Chromatin)
Source: Epigenetics and Chromatin - May 27, 2020 Category: Genetics & Stem Cells Authors: Kadri Peil, Henel J ürgens, Johanna Luige, Kersti Kristjuhan and Arnold Kristjuhan Tags: Research Source Type: research
In vivo chromatin organization on native yeast telomeric regions is independent of a cis-telomere loopback conformation
DNA packaging into chromatin regulates all DNA-related processes and at chromosomal ends could affect both essential functions of telomeres: protection against DNA damage response and telomere replication. Des... (Source: Epigenetics and Chromatin)
Source: Epigenetics and Chromatin - May 22, 2020 Category: Genetics & Stem Cells Authors: Emeline Pasquier and Raymund J. Wellinger Tags: Research Source Type: research
BAMscale: quantification of next-generation sequencing peaks and generation of scaled coverage tracks
Next-generation sequencing allows genome-wide analysis of changes in chromatin states and gene expression. Data analysis of these increasingly used methods either requires multiple analysis steps, or extensive... (Source: Epigenetics and Chromatin)
Source: Epigenetics and Chromatin - April 22, 2020 Category: Genetics & Stem Cells Authors: Lorinc S. Pongor, Jacob M. Gross, Roberto Vera Alvarez, Junko Murai, Sang-Min Jang, Hongliang Zhang, Christophe Redon, Haiqing Fu, Shar-Yin Huang, Bhushan Thakur, Adrian Baris, Leonardo Marino-Ramirez, David Landsman, Mirit I. Aladjem and Yves Pommier Tags: Methodology Source Type: research
ATAC-seq normalization method can significantly affect differential accessibility analysis and interpretation
Chromatin dysregulation is associated with developmental disorders and cancer. Numerous methods for measuring genome-wide chromatin accessibility have been developed in the genomic era to interrogate the funct... (Source: Epigenetics and Chromatin)
Source: Epigenetics and Chromatin - April 22, 2020 Category: Genetics & Stem Cells Authors: Jake J. Reske, Mike R. Wilson and Ronald L. Chandler Tags: Methodology Source Type: research
EPIGENE: genome-wide transcription unit annotation using a multivariate probabilistic model of histone modifications
Understanding the transcriptome is critical for explaining the functional as well as regulatory roles of genomic regions. Current methods for the identification of transcription units (TUs) use RNA-seq that, h... (Source: Epigenetics and Chromatin)
Source: Epigenetics and Chromatin - April 7, 2020 Category: Genetics & Stem Cells Authors: Anshupa Sahu, Na Li, Ilona Dunkel and Ho-Ryun Chung Tags: Methodology Source Type: research
