Evidence map›Paper›PMID 31563432›Full record

ArticleMolecular cell2019

Mediator Condensates Localize Signaling Factors to Key Cell Identity Genes.

Alicia V Zamudio, Alessandra Dall'Agnese, Jonathan E Henninger, John C Manteiga, Lena K Afeyan, Nancy M Hannett, Eliot L Coffey, Charles H Li, Ozgur Oksuz, Benjamin R Sabari and 11 more

Abstract read
In one paragraph

Article in Molecular cell, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 195 papers.

0numbers the graph read from it
0cells of the map it votes in
195citing 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

195 citing papers in PubMed.

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  20. Review

135 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

21 authors.

Alicia V ZamudioWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
Alessandra Dall'AgneseWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.
Jonathan E HenningerWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.
John C ManteigaWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
Lena K AfeyanWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
Nancy M HannettWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.
Eliot L CoffeyWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
Charles H LiWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
Ozgur OksuzWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.
Benjamin R SabariWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.
Ann BoijaWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.
Isaac A KleinWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA; Department of Medical Oncology, Dana-Farber Cancer Institute, Harvard Medical School, Boston, MA 02215, USA.
Susana W HawkenProgram in Computational and Systems Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
Jan-Hendrik SpilleDepartment of Physics, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
Tim-Michael DeckerDepartment of Biochemistry, University of Colorado, Boulder, Boulder, CO 80303, USA.
Ibrahim I CisseDepartment of Physics, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
Brian J AbrahamWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA; St. Jude Children's Research Hospital, Memphis, TN 38105, USA.
Tong I LeeWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.
Dylan J TaatjesDepartment of Biochemistry, University of Colorado, Boulder, Boulder, CO 80303, USA.
Jurian SchuijersWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA. Electronic address: j.schuijers@umcutrecht.nl.
Richard A YoungWhitehead Institute for Biomedical Research, Cambridge, MA 02142, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA. Electronic address: young@wi.mit.edu.

Funding

PRE-DOCTORAL TRAINING IN THE BIOLOGICAL SCIENCEST32GM007287 · NIGMS · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI BELL, STEPHEN P., KEATING, AMY E · 1985 to 2019
$40.8M
Physician Scientist Training in Cancer ResearchT32CA009172 · NCI · DANA-FARBER CANCER INSTITUTE · PI Jennifer R Brown, James A. DeCaprio · 1985 to 2026
$17.1M
Graduate Training in Computational and Systems BiologyT32GM087237 · NIGMS · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI BURGE, CHRISTOPHER B · 2009 to 2023
$4.6M
Transcriptional regulatory networks in living cellsR01GM123511 · NIGMS · WHITEHEAD INSTITUTE FOR BIOMEDICAL RES · PI YOUNG, RICHARD · 2017 to 2020
$3.6M
IMAGING TRANSCRIPTION WITH SINGLE MOLECULE RESOLUTION IN LIVE MAMMALIAN CELLSDP2CA195769 · NCI · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI CISSE, IBRAHIM · 2014 to 2014
$2.3M
Mediator Kinases and Transcription RegulationR01GM117370 · NIGMS · UNIVERSITY OF COLORADO · PI TAATJES, DYLAN J · 2016 to 2019
$1.5M
Nuclear Organization and Dynamics of Mediator and RNA Polymerase II in Living Stem CellsR01GM134734 · NIGMS · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI GORE, JEFF · 2019 to 2022
$1.2M
NCI NIH HHS DP2 CA195769NCI NIH HHS T32 CA009172NIGMS NIH HHS R01 GM117370NIGMS NIH HHS R01 GM123511NIGMS NIH HHS R01 GM134734NIGMS NIH HHS T32 GM007287NIGMS NIH HHS T32 GM087237
6 · The paper itself

Abstract

The gene expression programs that define the identity of each cell are controlled by master transcription factors (TFs) that bind cell-type-specific enhancers, as well as signaling factors, which bring extracellular stimuli to these enhancers. Recent studies have revealed that master TFs form phase-separated condensates with the Mediator coactivator at super-enhancers. Here, we present evidence that signaling factors for the WNT, TGF-β, and JAK/STAT pathways use their intrinsically disordered regions (IDRs) to enter and concentrate in Mediator condensates at super-enhancers. We show that the WNT coactivator β-catenin interacts both with components of condensates and DNA-binding factors to selectively occupy super-enhancer-associated genes. We propose that the cell-type specificity of the response to signaling is mediated in part by the IDRs of the signaling factors, which cause these factors to partition into condensates established by the master TFs and Mediator at genes with prominent roles in cell identity.

Indexed as

Animalsbeta CateninCell LineEnhancer Elements, GeneticGene Expression RegulationHumansIntrinsically Disordered ProteinsMediator ComplexSignal TransductionSmad3 ProteinSTAT3 Transcription FactorSTAT Transcription FactorsTGF-beta Superfamily ProteinsTranscription FactorsTranscription, GeneticWnt Signaling Pathwaybeta CateninIntrinsically Disordered ProteinsMediator ComplexSmad3 ProteinSTAT3 Transcription FactorSTAT Transcription FactorsTGF-beta Superfamily ProteinsTranscription Factorsgene regulationJAK/STATsignaling pathwayTGF-βtranscriptional condensatesWNT

Identifiers

PMID31563432
PMCPMC6898777

What OpenQuestion holds

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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.