CTCF-Mediated Human 3D Genome Architecture Reveals Chromatin Topology for Transcription.

By Zhonghui Tang, Oscar Luo, Xingwang Li, Meizhen Zheng, J. J. Zhu, Przemyslaw Szalaj, Paweł Trzaskoma, Adriana Magalska, J. Włodarczyk, B. Ruszczycki and 14 more. Cell, 2015

912 citations recorded by the source corpus.

Subfields: Genetics, Molecular Biology, Plant Science

View Paper: https://www.semanticscholar.org/paper/a0f64fc74e7e4a1949826d5dba869ce826eee089

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Genetics

In Molecular Biology

In Plant Science

Citations in the corpus

A Compendium of Chromatin Contact Maps Reveal Spatially Active Regions in the Human Genome (2016, neutral): “Within each TAD, chromatin interactions between distal cis regulatory elements occur in a cell type dependent manner to allow modulation of promoter activity by enhancers (Dryden et al., 2014; Montavon and Duboule, 2013; Phillips-Cremins et al., 2013; Simonis et al., 2006; Tang et al., 2015).”
YY1 Is a Structural Regulator of Enhancer-Promoter Loops (2017, methodology): “…enhancers and genes within the CTCF-CTCF loops from elements outside those loops (Dixon et al., 2012; Dowen et al., 2014; Hnisz et al., 2016b; Ji et al., 2016; Lupiáñez et al., 2015; Narendra et al., 2015; Nora et al., 2012; Phillips-Cremins et al., 2013; Rao et al., 2014; Tang et al., 2015).”
An efficient targeted nuclease strategy for high-resolution mapping of DNA binding sites (2016, methodology): “Moreover, 91% of the direct sites are present in CTCF ChIA-PET data, with 43% of these ChIA-PET fragments interacting with an indirect site, and the remainder contain a high CUT&RUN signal (Figure 8C), which suggests these are indirect sites involved in multiple contacts, just below the peak calling”
Fast, scalable prediction of deleterious noncoding variants from functional and population genomic data (2016, background): “…remain about the influences of constraint on enhancers, and it will be important to examine these questions further in light of rapidly improving enhancer annotations, data describing enhancer–promoter interactions 43–45 , and observations of complex evolutionary behavior at enhancers 46 .”
Targeted degradation of CTCF decouples local insulation of chromosome domains from genomic compartmentalization (2017, neutral): “This is reminiscent of the asymmetry of promoter positioning around CTCF ChIA-PET data in human cells (Tang et al., 2015).”
Genome-wide analyses of chromatin interactions after the loss of Pol I, Pol II, and Pol III (2020, neutral): “4e), constrained within CTCF loop domains [58, 59].”
Activation of proto-oncogenes by disruption of chromosome neighborhoods (2015, methodology): “The ChIA-PET technique generates a high-resolution (~5kb) chromatin interaction map of sites in the genome bound by a specific protein factor (8, 15, 16).”
Predicting enhancer-promoter interaction from genomic sequence with deep neural networks (2016, background): “Recent development of new high-throughput whole-genome mapping approaches such as Hi-C [22] and ChIA-PET [7, 32] has allowed us to identify genome-wide chromatin organization and interactions comprehensively.”