Biological embedding of experience: a primer on epigenetics

MJ Aristizabal, I Anreiter… - Proceedings of the …, 2020 - National Acad Sciences
Biological embedding occurs when life experience alters biological processes to affect later
life health and well-being. Although extensive correlative data exist supporting the notion …

Epigenetic reprogramming during prostate cancer progression: a perspective from development

S Goel, V Bhatia, T Biswas, B Ateeq - Seminars in cancer biology, 2022 - Elsevier
Conrad Waddington's theory of epigenetic landscape epitomize the process of cell fate and
cellular decision-making during development. Wherein the epigenetic code maintains …

Fine-resolution mapping of TF binding and chromatin interactions

J Gutin, R Sadeh, N Bodenheimer, D Joseph-Strauss… - Cell reports, 2018 - cell.com
Transcription factor (TF) binding to DNA is crucial for transcriptional regulation. There are
multiple methods for mapping such binding. These methods balance between input …

The upstream 5′ splice site remains associated to the transcription machinery during intron synthesis

Y Leader, G Lev Maor, M Sorek, R Shayevitch… - Nature …, 2021 - nature.com
In the earliest step of spliceosome assembly, the two splice sites flanking an intron are
brought into proximity by U1 snRNP and U2AF along with other proteins. The mechanism …

Cellular macromolecules-tethered DNA walking indexing to explore nanoenvironments of chromatin modifications

F Chen, M Bai, X Cao, J Xue, Y Zhao, N Wu… - Nature …, 2021 - nature.com
Exploring spatial organization and relationship of diverse biomolecules within cellular
nanoenvironments is important to elucidate the fundamental processes of life. However, it …

Bivalent epigenetic control of oncofetal gene expression in cancer

SK Zaidi, SE Frietze, JA Gordon, JL Heath… - … and cellular biology, 2017 - Taylor & Francis
Multiple mechanisms of epigenetic control that include DNA methylation, histone
modification, noncoding RNAs, and mitotic gene bookmarking play pivotal roles in stringent …

Histone post-translational modifications and nucleosome organisation in transcriptional regulation: some open questions

J Castillo, G López-Rodas, L Franco - Protein Reviews: Volume 18, 2017 - Springer
The organisation of chromatin is first discussed to conclude that nucleosomes play both
structural and transcription-regulatory roles. The presence of nucleosomes makes difficult …

Conserved crosstalk between histone deacetylation and H3K79 methylation generates DOT1L‐dose dependency in HDAC1‐deficient thymic lymphoma

H Vlaming, CM McLean, T Korthout… - The EMBO …, 2019 - embopress.org
Abstract DOT 1L methylates histone H3K79 and is aberrantly regulated in MLL‐rearranged
leukemia. Inhibitors have been developed to target DOT 1L activity in leukemia, but cellular …

Dot1 promotes H2B ubiquitination by a methyltransferase-independent mechanism

T van Welsem, T Korthout, R Ekkebus… - Nucleic acids …, 2018 - academic.oup.com
The histone methyltransferase Dot1 is conserved from yeast to human and methylates lysine
79 of histone H3 (H3K79) on the core of the nucleosome. H3K79 methylation by Dot1 affects …

Fine chromatin-driven mechanism of transcription interference by antisense noncoding transcription

JK Gill, A Maffioletti, V García-Molinero, F Stutz… - Cell Reports, 2020 - cell.com
Eukaryotic genomes are almost entirely transcribed by RNA polymerase II. Consequently,
the transcription of long noncoding RNAs often overlaps with coding gene promoters …