Evidence map›Paper›PMID 37961446›Full record

ArticlebioRxiv : the preprint server for biology2023

High-resolution CTCF footprinting reveals impact of chromatin state on cohesin extrusion dynamics.

Corriene E Sept, Y Esther Tak, Christian G Cerda-Smith, Haley M Hutchinson, Viraat Goel, Marco Blanchette, Mital S Bhakta, Anders S Hansen, J Keith Joung, Sarah Johnstone and 2 more

Open access · greenAbstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed, 5 citations in OpenAlex.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

12 authors at 4 institutions in 1 country.

Corriene E SeptDepartment of Biostatistics, Harvard T.H. Chan School of Public Health; Boston, MA 02115, USA.
Y Esther TakMolecular Pathology Unit, Massachusetts General Hospital; Charlestown, MA 02129, USA.
Christian G Cerda-SmithDepartment of Pharmacology and Cancer Biology, Duke University School of Medicine; Durham, NC 27710, USA.
Haley M HutchinsonDepartment of Pharmacology and Cancer Biology, Duke University School of Medicine; Durham, NC 27710, USA.
Viraat GoelBroad Institute of MIT and Harvard; Cambridge, MA 02142, USA.
Marco BlanchetteDovetail Genomics, Cantata Bio LLC, Scotts Valley, CA 95066, USA.
Mital S BhaktaDovetail Genomics, Cantata Bio LLC, Scotts Valley, CA 95066, USA.
Anders S HansenBroad Institute of MIT and Harvard; Cambridge, MA 02142, USA.ORCID 0000-0001-7540-7858
J Keith JoungMolecular Pathology Unit, Massachusetts General Hospital; Charlestown, MA 02129, USA.
Sarah JohnstoneBroad Institute of MIT and Harvard; Cambridge, MA 02142, USA.
Christine E EylerDepartment of Radiation Oncology, Duke University School of Medicine; Durham, NC 27710, USA.
Martin J AryeeDepartment of Biostatistics, Harvard T.H. Chan School of Public Health; Boston, MA 02115, USA.ORCID 0000-0002-6848-1344
Broad Institute · USDuke University · USDovetail Genomics (United States) · USHarvard University · US

Funding

Center for Genomic Editing and Recording: Development and Application of Next-Generation Genome and Epigenome Editing Methods to Advance the Study and Treatment of Human DiseaseRM1HG009490 · NHGRI · WHITEHEAD INSTITUTE FOR BIOMEDICAL RES · PI Brittany S. Adamson, Martin Joseph Ankrah Aryee · 2017 to 2026
$22.7M
Evolution, Optimization, and Application of Genome Editing TechnologiesR35GM118158 · NIGMS · MASSACHUSETTS GENERAL HOSPITAL · PI JOUNG, J. KEITH · 2016 to 2023
$4.7M
Interdisciplinary training: Statistical Genetics/Genomics and Computational BiologyT32GM135117 · NIGMS · HARVARD UNIVERSITY D/B/A HARVARD SCHOOL OF PUBLIC HEALTH · PI Curtis Huttenhower, XIHONG LIN · 2020 to 2026
$3.1M
Harnessing treatment-induced tumor evolution and collateral sensitivities using a human rectal cancer co-clinical platformK08CA263300 · NCI · DUKE UNIVERSITY · PI Christine Elissa Eyler · 2022 to 2026
$1.2M
NCI NIH HHS K08 CA263300NHGRI NIH HHS RM1 HG009490NIGMS NIH HHS R35 GM118158NIGMS NIH HHS T32 GM135117
6 · The paper itself

Abstract

DNA looping is vital for establishing many enhancer-promoter interactions. While CTCF is known to anchor many cohesin-mediated loops, the looped chromatin fiber appears to predominantly exist in a poorly characterized actively extruding state. To better characterize extruding chromatin loop structures, we used CTCF MNase HiChIP data to determine both CTCF binding at high resolution and 3D contact information. Here we present

Identifiers

PMID37961446
PMCPMC10634716
OpenAlexW4387895578

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.