Other Publications (1)
Articles by Yishai Yehuda in JoVE
Genome-wide Determination of Mammalian Replication Timing by DNA Content Measurement Yishai Yehuda1, Britny Blumenfeld1, Dan Lehmann2, Itamar Simon1 1Dept. of Microbiology and Molecular Genetics, IMRIC, Faculty of Medicine, Hebrew University of Jerusalem, 2The Core Research Facility, IMRIC, Faculty of Medicine, Hebrew University of Jerusalem We describe here a relatively fast and simple approach for mapping genome-wide mammalian replication timing, from cell isolation to the basic analysis of the sequencing results. A genomic map of a representative replication program will be provided following the protocol.
Other articles by Yishai Yehuda on PubMed
The Mutation Spectrum in Genomic Late Replication Domains Shapes Mammalian GC Content Nucleic Acids Research. May, 2016 | Pubmed ID: 27085808 Genome sequence compositions and epigenetic organizations are correlated extensively across multiple length scales. Replication dynamics, in particular, is highly correlated with GC content. We combine genome-wide time of replication (ToR) data, topological domains maps and detailed functional epigenetic annotations to study the correlations between replication timing and GC content at multiple scales. We find that the decrease in genomic GC content at large scale late replicating regions can be explained by mutation bias favoring A/T nucleotide, without selection or biased gene conversion. Quantification of the free dNTP pool during the cell cycle is consistent with a mechanism involving replication-coupled mutation spectrum that favors AT nucleotides at late S-phase. We suggest that mammalian GC content composition is shaped by independent forces, globally modulating mutation bias and locally selecting on functional element. Deconvoluting these forces and analyzing them on their native scales is important for proper characterization of complex genomic correlations.