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Series GSE44844 Query DataSets for GSE44844
Status Public on Mar 21, 2013
Title Monitoring Homology Search during DNA Double-Strand Break Repair in vivo
Organism Saccharomyces cerevisiae
Experiment type Genome binding/occupancy profiling by genome tiling array
Summary 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 remains poorly understood. Here, we use time-resolved chromatin immunoprecipitations of repair proteins to monitor homology search in vivo. We found that homology search proceeds by a probing mechanism, which commences around the break and samples preferentially on the broken chromosome. However, elements thought to instruct chromosome loops mediate homology search shortcuts, and centromeres, which cluster within the nucleus, may facilitate homology search on other chromosomes. Our study thus revealed crucial parameters for homology search in vivo and emphasizes the importance of linear distance, chromosome architecture and proximity for recombination efficiency.
 
Overall design 2 new custom ChIP-chip platforms used; both Nimblegen; differ in oligo density: (platform 1: 2006-07-18_Scerevisiae_ChIP_Stefan Jentsch MPI Biochemistry S.cerevisiae 385K Tiling Array Version 1) ( platform 2: 100304_Scer2_MS_Chip_Stefan Jentsch MPI Biochemistry S.cerevisiae 135K Tiling Array Version 2)
ChIP-chip profiling of DSB repair factors (Rad51, Rad52, RPA, gamma-H2A) upon single inducible DSBs in S.cerevisiae
 
Contributor(s) Renkawitz J, Lademann CA, Kalocsay M, Jentsch S
Citation(s) 23523370
Submission date Mar 04, 2013
Last update date Mar 26, 2013
Contact name Jörg Renkawitz
E-mail(s) renkawit@biochem.mpg.de
Organization name Max Planck Institute of Biochemistry
Department Molecular Cell Biology
Lab Stefan Jentsch
Street address Am Klopferspitz 18
City Martinsried/Munich
ZIP/Postal code 82152
Country Germany
 
Platforms (2)
GPL16746 100304 Scer2 MS Chip Stefan Jentsch MPI Biochemistry S.cerevisiae 135K Tiling Array Version 2
GPL16747 2006-07-18 Scerevisiae ChIP Stefan Jentsch MPI Biochemistry S.cerevisiae 385K Tiling Array Version 1
Samples (140)
GSM1092341 Rad51_ChIP_HoChromosomeI_DSB0hr_rep1
GSM1092342 Rad51_ChIP_HoChromosomeI_DSB0hr_rep2
GSM1092343 Rad51_ChIP_HoChromosomeI_DSB5hr_rep1
Relations
BioProject PRJNA192332

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE44844_RAW.tar 770.2 Mb (http)(custom) TAR (of PAIR)
Processed data included within Sample table
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