scholarly journals Rapid high-resolution measurement of DNA replication timing by droplet digital PCR

2018 ◽  
Vol 46 (19) ◽  
pp. e112-e112 ◽  
Author(s):  
Dzmitry G Batrakou ◽  
Emma D Heron ◽  
Conrad A Nieduszynski
Keyword(s):  
Dna Replication ◽  
High Resolution ◽  
Replication Timing ◽  
Digital Pcr ◽  
Droplet Digital Pcr ◽  
High Resolution Measurement ◽  
Resolution Measurement ◽  
Dna Replication Timing

scholarly journals Rapid high-resolution measurement of DNA replication timing by droplet digital PCR

2017 ◽  
Author(s):  
Dzmitry G. Batrakou ◽  
Emma D. Heron ◽  
Conrad A. Nieduszynski
Keyword(s):  
Dna Replication ◽  
High Throughput ◽  
High Throughput Sequencing ◽  
Replication Timing ◽  
Digital Pcr ◽  
Droplet Digital Pcr ◽  
Human Cells ◽  
Genome Replication ◽  
Multiple Loci ◽  
Dna Replication Timing

ABSTRACTGenomes are replicated in a reproducible temporal pattern. Current methods for assaying allele replication timing are time consuming and/or expensive. These include high-throughput sequencing which can be used to measure DNA copy number as a proxy for allele replication timing. Here, we use droplet digital PCR to study DNA replication timing at multiple loci in budding yeast and human cells. We establish that the method has temporal and spatial resolutions comparable to the high-throughput sequencing approaches, while being faster than alternative locus-specific methods. Furthermore, the approach is capable of allele discrimination. We apply this method to determine relative replication timing across timing transition zones in cultured human cells. Finally, multiple samples can be analysed in parallel, allowing us to rapidly screen kinetochore mutants for perturbation to centromere replication timing. Therefore, this approach is well suited to the study of locus-specific replication and the screening of cis- and trans-acting mutants to identify mechanisms that regulate local genome replication timing.

TIGER: inferring DNA replication timing from whole-genome sequence data

2021 ◽  
Author(s):  
Amnon Koren ◽  
Dashiell J Massey ◽  
Alexa N Bracci
Keyword(s):  
Dna Replication ◽  
Genome Sequence ◽  
Genomic Dna ◽  
Sequence Data ◽  
Replication Timing ◽  
Whole Genome Sequence ◽  
Supplementary Information ◽  
Whole Genome ◽  
Genome Sequence Data ◽  
Dna Replication Timing

Abstract Motivation Genomic DNA replicates according to a reproducible spatiotemporal program, with some loci replicating early in S phase while others replicate late. Despite being a central cellular process, DNA replication timing studies have been limited in scale due to technical challenges. Results We present TIGER (Timing Inferred from Genome Replication), a computational approach for extracting DNA replication timing information from whole genome sequence data obtained from proliferating cell samples. The presence of replicating cells in a biological specimen leads to non-uniform representation of genomic DNA that depends on the timing of replication of different genomic loci. Replication dynamics can hence be observed in genome sequence data by analyzing DNA copy number along chromosomes while accounting for other sources of sequence coverage variation. TIGER is applicable to any species with a contiguous genome assembly and rivals the quality of experimental measurements of DNA replication timing. It provides a straightforward approach for measuring replication timing and can readily be applied at scale. Availability and Implementation TIGER is available at https://github.com/TheKorenLab/TIGER. Supplementary information Supplementary data are available at Bioinformatics online

High Resolution Measurement of Dose Distributions in the LEKSELL Gamma Knife

1994 ◽  
Vol 4 (4) ◽  
pp. 215-219
Author(s):  
P. Kindl ◽  
B. Obenaus ◽  
Kh. Feichtinger ◽  
G. Stuecklschweiger
Keyword(s):  
High Resolution ◽  
Gamma Knife ◽  
Dose Distributions ◽  
High Resolution Measurement ◽  
Resolution Measurement

Optical-fiber laser Doppler velocimeter for high-resolution measurement of pulsatile blood flows

1982 ◽  
Vol 21 (10) ◽  
pp. 1785 ◽  
Author(s):  
H. Nishihara ◽  
J. Koyama ◽  
N. Hoki ◽  
F. Kajiya ◽  
M. Hironaga ◽  
...  
Keyword(s):  
High Resolution ◽  
Optical Fiber ◽  
Fiber Laser ◽  
Laser Doppler ◽  
Laser Doppler Velocimeter ◽  
Blood Flows ◽  
High Resolution Measurement ◽  
Resolution Measurement
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