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GenomicsDNA double-strand breaks induced by high NaCl occur predominantly in gene deserts
High concentration of NaCl increases DNA breaks both in cell culture and in vivo. The breaks remain elevated as long as NaCl concentration remains high and are rapidly repaired when the concentration is lowered. Repair of the breaks after NaCl is reduced is accompanied by formation of foci containi...
ORGANISM(S): Mus musculus 
2011-11-21 | E-GEOD-32882 | biostudies-arrayexpress
TranscriptomicsMeiotic DNA double strand breaks in the yeast Saccaromyces cerevisiae
DNA double-strand breaks (DSBs) initiate meiotic recombination. Past DSB-mapping studies have used rad50S or sae2? mutants, which are defective in break processing, to accumulate DSBs, and report large (= 50 kb) “DSB-hot” regions that are separated by “DSB-cold” domains of similar size. Substantial ...
ORGANISM(S): Saccharomyces cerevisiae 
2007-12-30 | E-GEOD-8981 | biostudies-arrayexpress
TranscriptomicsHot spots of DNA double-strand breaks and genomic contacts of human rDNA units are involved in epigenetic regulation [DSBs]
Eukaryotic chromosomes are subjected to spontaneous fragmentation even under quick isolation of DNA in a solid phase by strong treatment with 0.1 M EDTA, 1% SDS and proteinase K (1 mg/ml). The long DNA fragments of excised chromosomal DNA were denoted as forum domains. Mostly forum domains are of 50...
ORGANISM(S): Homo sapiens 
2014-10-04 | E-GEOD-49302 | biostudies-arrayexpress
TranscriptomicsTranscriptional effects of I-PpoI induced DNA double strand breaks in mouse lymphocytes
DNA double-strand breaks (DSBs) and their repair can cause extensive epigenetic changes. As a result, DSBs have been proposed to promote transcriptional and, ultimately, physiological dysfunction via both cell-intrinsic and cell-non-autonomous pathways. Studying the consequences of DSBs in higher or...
ORGANISM(S): Mus musculus 
2016-01-04 | E-GEOD-74855 | biostudies-arrayexpress
ProteomicsSubstrate spectrum of PPM1D in the cellular response to DNA double strand breaks
PPM1D (also known as WIP1) is a p53-regulated protein phosphatase that modulates the DNA damage response (DDR) by dephosphorylation of DDR proteins. Amplification of PPM1D gene or gain-of-function mutations are commonly found in cancer. Here, we employed chemical inhibition of PPM1D and quantitative...
ORGANISM(S): Homo sapiens (Human) 
2022-09-06 | PXD035420 | Pride
Double strand breaks Atm Wip1 Kanadaptin Ppm1d Dna damage 
TranscriptomicsThe Fun30 ATP-dependent nucleosome remodeler promotes resection of DNA double-strand break ends
Chromosomal double-strand breaks (DSBs) are resected by 5M-bM-^@M-^Y-nucleases to form 3M-bM-^@M-^Y single-strand DNA (ssDNA) substrates for binding by homologous recombination and DNA damage checkpoint proteins. Two redundant pathways of extensive resection were described both in cells and in vitro...
ORGANISM(S): Saccharomyces cerevisiae 
2012-10-04 | E-GEOD-38601 | biostudies-arrayexpress
GenomicsRecG Directs DNA Synthesis During Double-Strand Break Repair [ChIP-seq]
In the bacterium Escherichia coli, RecG directs DNA synthesis during the repair of DNA double-strand breaks by homologous recombination. Examination of RecA binding during double-strand break repair in Escherichia coli in the presence and absence of RecG protein
ORGANISM(S): Escherichia coli 
2016-05-19 | E-GEOD-77181 | biostudies-arrayexpress
TranscriptomicsRecG Directs DNA Synthesis During Double-Strand Break Repair [Chromosomal marker frequency analysis]
In the bacterium Escherichia coli, RecG directs DNA synthesis during the repair of DNA double-strand breaks by homologous recombination. Chromosomal marker frequency analysis (MFA) following induction of a DSB in the absence and presence of RecG
ORGANISM(S): Escherichia coli 
2016-05-19 | E-GEOD-77183 | biostudies-arrayexpress
TranscriptomicsActivation-induced cytidine deaminase induces reproducible DNA breaks at many non-Ig loci in activated B cells
After immunization or infection, activation-induced cytidine deaminase (AID) initiates diversification of immunoglobulin (Ig) genes in B cells, introducing mutations within the antigen binding V regions (somatic hypermutation, SHM) and double-strand DNA breaks (DSBs) into switch (S) regions, leading...
ORGANISM(S): Mus musculus 
2011-01-21 | E-GEOD-24827 | biostudies-arrayexpress
TranscriptomicsMonitoring Homology Search during DNA Double-Strand Break Repair in vivo
Homologous recombination (HR) is crucial for genetic exchange, accurate repair of DNA double-strand breaks and pivotal for genome integrity. HR uses homologous sequences for repair, but how homology search, the exploration of the genome for homologous DNA sequences, is conducted in the nucleus remai...
ORGANISM(S): Saccharomyces cerevisiae 
2013-03-21 | E-GEOD-44844 | biostudies-arrayexpress
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