Results 51 to 60 of about 10,432 (143)

3C-Based Chromatin Interaction Analyses

, 2018
This introduction presents a molecular approach that uses formaldehyde cross-linking to investigate genome structure and function-chromosome conformation capture (3C).
Dekker, Job, Kim, Tae Hoon
core   +1 more source

Spatial genome organization: contrasting views from chromosome conformation capture and fluorescence in situ hybridization [PDF]

, 2014
Although important for gene regulation, most studies of genome organization use either fluorescence in situ hybridization (FISH) or chromosome conformation capture (3C) methods.
Eskeland, Ragnhild, Bickmore, Wendy A, Berlivet, Soizik, Paquette, Denis, Dostie, Josée, Williamson, Iain, Boyle, Shelagh, Illingworth, Robert S   +7 more
core   +1 more source

Visualization and data exploration of chromosome conformation capture data using Voronoi diagrams with v3c-viz

Chromosome conformation capture (3C) sequencing approaches, like Hi-C or micro-C, allow for an unbiased view of chromatin interactions. Most analysis methods rely on so-called interaction matrices, which are derived from counting read pairs in bins of ...
Race, Alan M., Chung, Ho-Ryun, Fuchs, Alisa   +2 more
core   +1 more source

Metagenomic Chromosome Conformation Capture (3C): techniques, applications, and challenges [version 1; referees: 2 approved]

F1000Research, 2015
We review currently available technologies for deconvoluting metagenomic data into individual genomes that represent populations, strains, or genotypes present in the community. An evaluation of chromosome conformation capture (3C) and related techniques in the context of metagenomics is presented, using mock microbial communities as a reference.
Michael Liu, Aaron Darling
openaire   +1 more source

C-ing the Genome: A Compendium of Chromosome Conformation Capture Methods to Study Higher-Order Chromatin Organization; UMass Metabolic Network

, 2015
Three-dimensional organization of the chromatin has important roles in transcription, replication, DNA repair, and pathologic events such as translocations.
Lian, Jane B., Fritz, Andrew J., Imbalzano, Anthony N., Stein, Janet L., van Wijnen, Andre J., Zaidi, Sayyed K., Stein, Gary S., Barutcu, Ahmet Rasim, Nickerson, Jeffrey A.   +8 more
core   +1 more source

Identifying and characterizing transcriptional regulatory elements from chromosome conformation capture data

, 2019
Which features on the chromatin are responsible for regulating gene transcription? Using promoter contacts obtained from chromosome conformation capture (3C) data as a readout for transcriptional regulation, I modeled how well histone modification marks ...
Yancoskie, M. ; https://orcid.org/
core   +1 more source

A decade of 3C technologies: insights into nuclear organization

, 2012
Over the past 10 years, the development of chromosome conformation capture (3C) technology and the subsequent genomic variants thereof have enabled the analysis of nuclear organization at an unprecedented resolution and throughput.
de Laat, W., Wouter de Laat, de Wit, E., Elzo de Wit   +3 more
core   +1 more source

Identification of cis-regulatory elements from chromosome conformation capture data.

, 2015
Gene regulation in eukaryotes involves complex interactions between promoters and regulatory elements that can be located thousands of base pairs away from each other.
Vingron, M., Schöpflin, R.
core  

Resolving spatial inconsistencies in chromosome conformation measurements.

, 2018
BACKGROUND: Chromosome structure is closely related to its function and Chromosome Conformation Capture (3C) is a widely used technique for exploring spatial properties of chromosomes.
Geet Duggal (5455586), Hao Wang (5357873), Rob Patro (5455577), Carl Kingsford (5455571), Darya Filippova (5455574), Emre Sefer (5455619), Samir Khuller (5455616)   +6 more
core   +1 more source

Identifying and Reducing Systematic Errors in Chromosome Conformation Capture Data.

, 2015
Chromosome conformation capture (3C)-based techniques have recently been used to uncover the mystic genomic architecture in the nucleus. These techniques yield indirect data on the distances between genomic loci in the form of contact frequencies that ...
Seungsoo Hahn, Seungsoo Hahn (175873), Dongsup Kim (50568), Dongsup Kim   +3 more
core   +1 more source