Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Stickleback genome-wide replication timing from whole embryo

ABSTRACT: Stickleback genome-wide replication timing from whole embryo

PROVIDER: PRJNA497600 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR8080950.fastq.gz	Fastqsanger.gz
	SRR8080960.fastq.gz	Fastqsanger.gz
	SRR8080951.fastq.gz	Fastqsanger.gz
	SRR8080952.fastq.gz	Fastqsanger.gz
	SRR8080943.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 18

Similar Datasets

Stickleback genome-wide replication timing from whole embryo

Project description:Developing stickleback embryos were dissociated and sorted for S-phase and G0/G1-phase cell populations. DNA was extracted from each population and sequenced. In a mixed S-phase population, regions that replicate earlier are at higher copy number (up to 2x) than regions that replicate later. The read depth in S-phase, normalized to the read depth in G-phase, thus represents replication timing.

2018-10-20 | GSE121537 | GEO

The establishment of a DNA replication timing program in the early embryo.

Project description:Single Embryo Repli-Seq was utilized to investigate the replication timing in zygotes and 2-cell cleavage stage embryos. The aim was to understand the temporal progression of DNA replication during the early stages of embryonic development in mammals.

2024-05-23 | GSE237400 | GEO

Replication timing for the replication fountains

Project description:Replication timing for the replication fountains

| PRJNA1045676 | ENA

The establishment of a DNA replication timing program in the early embryo.

Project description:The establishment of a DNA replication timing program in the early embryo.

| PRJNA994886 | ENA

Genome-wide analysis of replication timing in preimplantation mouse embryos

Project description:Replication timing is cell type specific, is tightly linked to the 3D nuclear organisation of the genome and is considered an epigenetic fingerprint. In spite of its importance in maintaining the epigenome the developmental regulation of replication timing in mammals in vivo has not been explored. Here, using single cell Repli-seq, we generated the genome-wide replication timing maps of mouse embryos from the zygote until the blastocyst stage.

2023-10-16 | GSE218365 | GEO

Genome-wide Profiling of DNA Replication Timing in pombe.

Project description:DNA replication is initiated at multiple sites or origins enriched with AT-rich sequences at various times during the S-phase. While current studies of genome-wide DNA replication profiles have focused on the timing of replication and the location of origins, the efficiency of replication/firing at various origins remains unclear. In this study, we show different efficiencies of DNA replication at various loci by using ORF-specific DNA microarrays. DNA copy-number increases as a function of time at individual loci are approximated to near-sigmoidal models for estimation of replication initiation and completion timings in HU-challenged cells. Duplicating times (from initiation to completion) vary from loci to loci, partly contributing to various firing efficiencies at origins. DNA replication timing profiles are strikingly similar to the reported patterns of enriched ssDNA, suggesting that majority stalled forks are restored for resumption of DNA replication. Although the DNA replication timing profiles are disrupted in HU-challenged cds1? cells, ~85% of potential origins overlapped with those found in wild type cells, significantly, most of which represents inefficiently fired origins in wild type cells. Together, our result indicates that replication checkpoint plays a role in monitoring efficient origins and thus maintaining global DNA replication patterns in HU-challenged cells. Keywords: WT or Cds1 HU synchronized cells released in HU free media and harvested at different time points vs WT or Cds1 synchronized with HU for 3 hrs. We analyzed 32 arrays for WT and 38 arrays for Cds1 cells which were synchronized with HU and released in HU free media and harvested at different time points. At least two biological repeats were done for each time points.

2007-08-14 | E-GEOD-6977 | biostudies-arrayexpress

Human DNA Replication Timing Variation

Project description:Human DNA Replication Timing Variation

| PRJNA598743 | ENA

Human DNA Replication Timing Variation

Project description:Human DNA Replication Timing Variation

| PRJNA598744 | ENA

Genome-Wide Dynamics of Replication Timing Revealed by In Vitro Models of Mouse Embryogenesis

Project description:This SuperSeries is composed of the following subset Series: GSE17980: Genome-Wide Dynamics of Replication Timing Revealed by In Vitro Models of Mouse Embryogenesis (Expression) GSE17983: Genome-Wide Dynamics of Replication Timing Revealed by In Vitro Models of Mouse Embryogenesis (WG_CGH; Replication Timing) GSE17980 (Expression): 8 cell lines, with a total of 14 individual replicates (i.e. 6 in duplicates, 2 in single replicates) GSE17983 (WG_CGH; Replication Timing): 22 cell lines, with a total of 36 individual replicates (i.e. 14 in duplicates, 8 in single replicates)

2010-05-19 | E-GEOD-18019 | biostudies-arrayexpress

Genome-wide Profiling of DNA Replication Timing in pombe.

2007-08-14 | GSE6977 | GEO