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Publikováno v:
Nucleic Acids Research
R-loops, which consist of a DNA/RNA hybrid and a displaced single-stranded DNA (ssDNA), are increasingly recognized as critical regulators of chromatin biology. R-loops are particularly enriched at gene promoters, where they play important roles in r
Autor:
Zhongming Zhao, Junjie Chen, Chao Wang, Zhen Chen, Mengfan Tang, Xu Feng, Dan Su, Guangsheng Pei, Mrinal Srivastava
Publikováno v:
Nucleic Acids Research
Poly (ADP-ribose) polymerase inhibitor (PARPi)-based therapies initially reduce tumor burden but eventually lead to acquired resistance in cancer patients with BRCA1 or BRCA2 mutation. To understand the potential PARPi resistance mechanisms, we perfo
Autor:
Hyeonju Woo, Sumin Lee, Bo Bae Lee, Jae Seok Roe, TaeSoo Kim, SeoJung Youn, Min Kyung Lee, Soo Young Lee
Publikováno v:
Nucleic Acids Research
During RNA polymerase II (RNA Pol II) transcription, the chromatin structure undergoes dynamic changes, including opening and closing of the nucleosome to enhance transcription elongation and fidelity. These changes are mediated by transcription elon
Publikováno v:
Nucleic Acids Research
Transcription induced CAG repeat instability is associated with fatal neurological disorders. Genetic approaches found transcription-coupled nucleotide excision repair (TC-NER) factor CSB protein and TFIIS play critical roles in modulating the repeat
Autor:
Josh Lawrimore, Elaine Yeh, Muznah Khan, Daniel Kolbin, Kerry Bloom, Colleen J. Lawrimore, Solenn C de Larminat, John Stanton
Publikováno v:
Nucleic Acids Research
The nucleolus is the site of ribosome biosynthesis encompassing the ribosomal DNA (rDNA) locus in a phase separated state within the nucleus. In budding yeast, we find the rDNA locus and Cdc14, a protein phosphatase that co-localizes with the rDNA, b
Autor:
Hong-Yeoul Ryu, Mark Hochstrasser
Publikováno v:
Nucleic Acids Research
Chromatin structure and gene expression are dynamically controlled by post-translational modifications (PTMs) on histone proteins, including ubiquitylation, methylation, acetylation and small ubiquitin-like modifier (SUMO) conjugation. It was initial
Autor:
Lu Li, Pamela Chamales, Jared R. Stees, Mingyi Xie, Paul C. Wassel, Marissa Brackett, David T. Y. Yu, Jörg Bungert, Ekaterina Gavrilova, Aishwarya Gurumurthy, Daniel Stribling, Jinyang Chen, Alexander M. Ishov
Publikováno v:
Nucleic Acids Research
Super-enhancers (SEs) mediate high transcription levels of target genes. Previous studies have shown that SEs recruit transcription complexes and generate enhancer RNAs (eRNAs). We characterized transcription at the human and murine β-globin locus c
Autor:
Dmitri D. Pervouchine, Marina A. Kalinina, Timofei Ivanov, Svetlana Kalmykova, Dmitry A. Skvortsov, Olga A. Dontsova
Publikováno v:
Nucleic Acids Research
The mammalian Ate1 gene encodes an arginyl transferase enzyme with tumor suppressor function that depends on the inclusion of one of the two mutually exclusive exons (MXE), exons 7a and 7b. We report that the molecular mechanism underlying MXE splici
Autor:
Formosa, Tim, Winston, Fred
Publikováno v:
Nucleic Acids Research
FACT (FAcilitates Chromatin Transcription) has long been considered to be a transcription elongation factor whose ability to destabilize nucleosomes promotes RNAPII progression on chromatin templates. However, this is just one function of this histon
Publikováno v:
Nucleic Acids Research
The ChIP-exo assay precisely delineates protein-DNA crosslinking patterns by combining chromatin immunoprecipitation with 5′ to 3′ exonuclease digestion. Within a regulatory complex, the physical distance of a regulatory protein to DNA affects cr