Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Single-cell chromatin conformation capture of diploid cells by Dip-C

ABSTRACT: Single-cell chromatin conformation capture of diploid cells by Dip-C

PROVIDER: PRJNA483472 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Single-cell chromatin conformation capture of diploid cells by Dip-C (analyzed with the dip-c package)

2018-08-15 | GSE117109 | GEO

Single-cell chromatin conformation capture of diploid cells by Dip-C (analyzed with the hickit package)

Project description:To reconstruct the 3D genomes of single diploid human and mouse cells, we performed single-cell chromatin conformation capture by a novel method, Dip-C, on human cells. This submission is similar to our submission GSE117109, but analyzed the data with the hickit package instead of the dip-c package. The raw data for the samples in this series are identical to the related samples in GSE117109. There are links between the original and re-analyzed data on the sample pages.

2018-08-15 | GSE117874 | GEO

Single-cell chromatin conformation capture of mouse sensory neurons in visual and olfactory systems by Dip-C

Project description:We performed single-cell chromatin conformation capture with our recently developed method, Dip-C, on mouse sensory neurons in visual and olfactory systems, and reconstructed their 3D genomes.

2019-02-04 | GSE121791 | GEO

Diploid chromatin conformation capture (Dip-C) of single cells from the developing mouse cortex and hippocampus

Project description:To study the dynamics of 3D genome structure during postnatal development of the mouse forebrain, we performed Dip-C on 1,954 single cells from the mouse cortex and hippocampus at different ages throughout the first postnatal year.

2021-01-07 | GSE146397 | GEO

Multiplexed Chromatin Conformation Capture in Mouse Erythroid cells using Capture-C

Project description:Multiplexed Chromatin Conformation Capture in Mouse Erythroid cells , from hundreds of targeted loci, using agilent oligo capture technology and high throughput sequencing. Two erythroid Ter119+ cell replicates and a mouse ES cell control

2013-12-21 | E-GEOD-47758 | biostudies-arrayexpress

Multiplexed Chromatin Conformation Capture in Mouse Erythroid cells using Capture-C

Project description:Multiplexed Chromatin Conformation Capture in Mouse Erythroid cells , from hundreds of targeted loci, using agilent oligo capture technology and high throughput sequencing.

2013-12-21 | GSE47758 | GEO

Diploid chromatin conformation capture (Dip-C) of single cells from the developing visual cortex of dark-reared and control mice

Project description:To study the effect of sensory experience on 3D genome structure of the mouse brain, we performed Dip-C on 1,692 single cells from the visual cortex of dark-reared and control mice at different ages throughout the first postnatal month.

2021-01-05 | GSE164203 | GEO

Single-cell chromatin conformation capture of mouse sensory neurons in visual and olfactory systems by Dip-C

Project description:Single-cell chromatin conformation capture of mouse sensory neurons in visual and olfactory systems by Dip-C

| PRJNA498483 | ENA

Single-cell chromatin conformation capture of diploid cells by Dip-C

Project description:This SuperSeries is composed of the SubSeries listed below.

2018-08-15 | GSE117876 | GEO

A Streamlined Tethered Chromosome Conformation Capture Protocol

Project description:Background: Identification of locus-locus contacts at the chromatin level provides a valuable foundation for understanding of nuclear architecture and function and a valuable tool for inferring long-range linkage relationships. As one approach to this, chromatin conformation capture-based techniques allow creation of genome spatial organization maps. While such approaches have been available for some time, methodological advances will be of considerable use in minimizing both time and input material required for successful application. Results: Here we report a modified tethered conformation capture protocol that utilizes a series of rapid and efficient molecular manipulations. We applied the method to Caenorhabditis elegans, obtaining chromatin interaction maps that provide a sequence-anchored delineation of salient aspects of Caenorhabditis elegans chromosome structure, demonstrating a high level of consistency in overall chromosome organization between biological samples collected under different conditions. In addition to the application of the method to defining nuclear architecture, we found the resulting chromatin interaction maps to be of sufficient resolution and sensitivity to enable detection of large-scale structural variants such as inversions or translocations. Conclusion: Our streamlined protocol provides an accelerated, robust, and broadly applicable means of generating chromatin spatial organization maps and detecting genome rearrangements without a need for cellular or chromatin fractionation. Application of modified version of TCC protocl using different C. elegans strains (N2 and glp-1) in L1, and adult life stages.

2016-01-20 | E-GEOD-76930 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data