@EnhancerLoop

Enhancer papers manually picked by @IvKrivega. Views are my own. #chromatin #enhancer #synteticbiology #geneediting

 San Francisco, CA
linkedin.com/in/ikrivega
Joined July 2020
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3DGenBench: a web-server to benchmark computational models for 3D Genomics

Abstract. Modeling 3D genome organisation has been booming in the last years thanks to the availability of experimental datasets of genomic contacts. Howev

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TADs do not stay in the loop

In a recent issue of Science, Gabriele et al. have, for the first time, quantified the dynamics of a topologically associating domain (TAD) in live cells by coupling super-resolution imaging and...

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Capture-C: a modular and flexible approach for high-resolution chromosome conformation capture

Nature Protocols - Capture-C detects DNA regions in close proximity in the nucleus, relying on oligonucleotide probes to enrich fragments of interest. This protocol describes several variations of...

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Here, we introduce RedChIP, a technique combining RNA–DNA proximity ligation and chromatin immunoprecipitation for identifying RNA–chromatin interactions mediated by a particular protein.  pnas.org/content/119/1/e2116…
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CTCF-mediated loops are neither required for the interaction of the Sox2 promoter with distal enhancers, nor for its expression biorxiv.org/cgi/content/shor…
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Assessing genome-wide dynamic changes in enhancer activity during early mESC differentiation by...

Abstract. Embryonic stem cells (ESCs) can differentiate into any given cell type and therefore represent a versatile model to study the link between gene r

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Jpx RNA regulates CTCF anchor site selection and formation of chromosome loops cell.com/cell/fulltext/S0092…

Jpx RNA regulates CTCF anchor site selection and formation of chromosome loops

Jpx RNA regulates chromosome looping throughout the genome by releasing CTCF from chromatin, thereby determining where CTCF binds, how anchor sites are selected, and how genome architecture is...

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Epiphany: predicting Hi-C contact maps from 1D epigenomic signals biorxiv.org/cgi/content/shor… #journals #feedly
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