Conformation Capture
Two ways to fold the genome during the cell cycle: insights obtained with chromosome conformation capture
... chromosome conformation capture carbon copy (5C) and Hi-C studies revealed that A- and B-compartments are themselves composed of smaller domains, referred to as topologically associating domains (TADs) or ...
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A cautionary note on the use of chromosome conformation capture in plants
... Chromosome conformation capture (3C) in Arabidopsis To assess the reliability and robustness of the 3C tech- nique for the detection of chromatin interactions in Arabidopsis, we used this methodology to ...
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A multi task graph clustering approach for chromosome conformation capture data sets identifies conserved modules of chromosomal interactions
... While current clustering and dimensionality reduction techniques have provided useful insights into genome organization, there are several key issues that need to be addressed. First, unlike traditional functional ...
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Invasive DNA elements modify the nuclear architecture of their insertion site by KNOT linked silencing in Arabidopsis thaliana
... Abbreviations 3D: Three-dimensional; 4C: Circular chromosome conformation capture; Aline: Active transgenic line; ddPCR: Droplet digital PCR; FC: Fold change; IF: Interaction frequency; [r] ...
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Capture Hi C identifies a novel causal gene, IL20RA, in the pan autoimmune genetic susceptibility region 6q23
... Chromosome conformation capture; BACs: Bacterial artificial chromosomes; CeD: Celiac disease; CHi-C: Capture Hi-C; CHiCAGO: Capture HiC Analysis of Genomic Organisation; ChIP: Chromatin ...
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Impact of 3D genome organization, guided by cohesin and CTCF looping, on sex-biased chromatin interactions and gene expression in mouse liver
... Finally, by applying circularized chromo- some conformation capture with sequencing (4C-seq) to sex-biased enhancer viewpoints in five genomic regions, we established that sex differen[r] ...
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Hi C as a tool for precise detection and characterisation of chromosomal rearrangements and copy number variation in human tumours
... Here we demonstrate the power of in-nucleus Hi-C [14], a derivative of the chromosome conformation capture 3C technique [15], to detect both known and novel, balanced and unbalanced chro[r] ...
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Three Murine Leukemia Virus Integration Regions within 100 Kilobases Upstream of c-myb Are Proximal to the 5′ Regulatory Region of the Gene through DNA Looping
... chromosome conformation capture (3C)-quantitative PCR assays, inter- actions between the 5= region, including the promoter and all Mml sites (Mml1, Mml2, and Mml3), were detected due to DNA looping in M1 ...
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Xist localization and function: new insights from multiple levels
... chromosome conformation capture technique (4C), Splinter and col- leagues showed that, upon differentiation of female ESCs, the inactive X chromosome (Xi) loses the spe- cific interactions between loci that ...
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ChIP'ing the mammalian genome: technical advances and insights into functional elements
... conformation capture, 3C), microarray analysis or high throughput sequencing (4C or 5C), with limited scale and selective bias [46-48]. Applying 3C in the human β-globin loci, various specific interactions ...
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Three-dimensional genome architecture and emerging technologies: looping in disease
... Chromosome conformation capture; 3D: Three-dimensional; 4C: Circular chromosome conformation capture on chip; 4C-seq: Circular chromosome conformation capture on chip combined ...
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Gene Set Enrichment Analyses: lessons learned from the heart failure phenotype
... chromosome conformation capture sequencing; C4D: The Coronary Artery Disease consortium; CAD: Coronary artery disease; CARDIoGRAM: Coronary Artery DIsease Genome wide Replication and Meta-analysis; CHARGE: ...
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Classifying leukemia types with chromatin conformation data
... chromosome conformation capture carbon copy (5C) technology (Figure ...chromatin conformation by converting chemically cross-linked chromatin segments into unique ligation products, which are then ...
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3C and 3C-based techniques: the powerful tools for spatial genome organization deciphering
... genomic conformation were largely based on cytological techniques, such as fluorescence in situ hybridization (FISH), which allows direct evaluation of the proximity between genetic loci using ...chromosome ...
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Enhancer variants: evaluating functions in common disease
... (chromosome conformation capture (3C)) [61], can be ...some conformation capture), an extension of 3C, can cap- ture all regions that physically contact a site of interest, without prior ...
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Allosteric inhibition of Aurora-A kinase by a synthetic vNAR domain
... Aurora-A is a Ser/Thr protein kinase that functions pri- marily in cell division and is overexpressed in breast, colon and other cancers [9]. Aurora-A interacts with and stabilizes N-Myc and c-Myc, transcription factors ...
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Indole 3 spiro N methyl 2′ pyrrolidine 3′ spiro 9′′ anthracene 2,10′′ dione
... In both the molecules, ring B adopts a boat conformation and ring D is in an envelope conformation. Ring E in molecule 1 is planar, and in molecule 2 it is slightly twisted along the C7BÐC2B bond. The ...
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4′ (p Methoxyphenyl) 1′ methyl 1H indole 3 spiro 2′ pyrrolidine 3′ spiro 1′′ cyclopentane 2(3H),2′′ dione
... The indole moiety of the title compound, C23H24N2O3, is planar; but the pyrrolidine ring adopts an envelope conformation.. The conformation is stabilized by intramolecular CÐ H O intera[r] ...
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Analysis of a Neutralizing Antibody for Human Herpesvirus 6B Reveals a Role for Glycoprotein Q1 in Viral Entry
... BgQ1 conformation and that this conformation is altered by interactions with BgQ2, we sought to determine whether there were conformational differences within infected cells by comparing stainings with KH-1 ...
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Conformation and meatiness of pork belly
... The next factor of interest which was considered was the sex of the animals. Gilts showed a better conformation of belly than barrows. The differences were significant in three traits (belly without bones as ...
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