Dynamics of DNA damage response proteins at DNA breaks: a focus on protein modifications

SE Polo, SP Jackson - Genes & development, 2011 - genesdev.cshlp.org
Genome integrity is constantly monitored by sophisticated cellular networks, collectively
termed the DNA damage response (DDR). A common feature of DDR proteins is their …

Causes of genome instability

A Aguilera, T García-Muse - Annual review of genetics, 2013 - annualreviews.org
Genomes are transmitted faithfully from dividing cells to their offspring. Changes that occur
during DNA repair, chromosome duplication, and transmission or via recombination provide …

BLISS is a versatile and quantitative method for genome-wide profiling of DNA double-strand breaks

WX Yan, R Mirzazadeh, S Garnerone, D Scott… - Nature …, 2017 - nature.com
Precisely measuring the location and frequency of DNA double-strand breaks (DSBs) along
the genome is instrumental to understanding genomic fragility, but current methods are …

Map** nucleosome resolution chromosome folding in yeast by micro-C

THS Hsieh, A Weiner, B Lajoie, J Dekker, N Friedman… - Cell, 2015 - cell.com
We describe a Hi-C-based method, Micro-C, in which micrococcal nuclease is used instead
of restriction enzymes to fragment chromatin, enabling nucleosome resolution chromosome …

Nucleotide-resolution DNA double-strand break map** by next-generation sequencing

N Crosetto, A Mitra, MJ Silva, M Bienko, N Dojer… - Nature …, 2013 - nature.com
We present a genome-wide approach to map DNA double-strand breaks (DSBs) at
nucleotide resolution by a method we termed BLESS (direct in situ breaks labeling …

53BP1 nuclear bodies form around DNA lesions generated by mitotic transmission of chromosomes under replication stress

C Lukas, V Savic, S Bekker-Jensen, C Doil… - Nature cell …, 2011 - nature.com
Completion of genome duplication is challenged by structural and topological barriers that
impede progression of replication forks. Although this can seriously undermine genome …

R-loop-mediated genomic instability is caused by impairment of replication fork progression

W Gan, Z Guan, J Liu, T Gui, K Shen… - Genes & …, 2011 - genesdev.cshlp.org
Transcriptional R loops are anomalous RNA: DNA hybrids that have been detected in
organisms from bacteria to humans. These structures have been shown in eukaryotes to …

Everything You Ever Wanted to Know About Saccharomyces cerevisiae Telomeres: Beginning to End

RJ Wellinger, VA Zakian - Genetics, 2012 - academic.oup.com
The mechanisms that maintain the stability of chromosome ends have broad impact on
genome integrity in all eukaryotes. Budding yeast is a premier organism for telomere …

High-resolution chromatin dynamics during a yeast stress response

A Weiner, THS Hsieh, A Appleboim, HV Chen, A Rahat… - Molecular cell, 2015 - cell.com
Covalent histone modifications are highly conserved and play multiple roles in eukaryotic
transcription regulation. Here, we mapped 26 histone modifications genome-wide in …

Off-target analysis in gene editing and applications for clinical translation of CRISPR/Cas9 in HIV-1 therapy

A Atkins, CH Chung, AG Allen, W Dampier… - Frontiers in genome …, 2021 - frontiersin.org
As genome-editing nucleases move toward broader clinical applications, the need to define
the limits of their specificity and efficiency increases. A variety of approaches for nuclease …