Evidence map›Paper›PMID 25842977›Full record

ArticleCell stem cell2015

Epigenetic priming of enhancers predicts developmental competence of hESC-derived endodermal lineage intermediates.

Allen Wang, Feng Yue, Yan Li, Ruiyu Xie, Thomas Harper, Nisha A Patel, Kayla Muth, Jeffrey Palmer, Yunjiang Qiu, Jinzhao Wang and 5 more

Open access · bronzeAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Cell stem cell, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 156 papers.

0numbers the graph read from it
0cells of the map it votes in
156citing papers in PubMed
28.3field-weighted citation impact, top 1% of its field
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

156 citing papers in PubMed, 284 citations in OpenAlex.

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

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

15 authors at 5 institutions in 1 country.

Allen WangPediatric Diabetes Research Center, Department of Pediatrics, University of California, San Diego, La Jolla, CA 92093-0983, USA; Sanford Consortium for Regenerative Medicine, La Jolla, CA 92037, USA.
Feng YueDepartment of Biochemistry and Molecular Biology, College of Medicine, The Pennsylvania State University, Hershey, PA 17033, USA.
Yan LiLudwig Institute for Cancer Research, La Jolla, CA 92093-0653, USA.
Ruiyu XiePediatric Diabetes Research Center, Department of Pediatrics, University of California, San Diego, La Jolla, CA 92093-0983, USA; Sanford Consortium for Regenerative Medicine, La Jolla, CA 92037, USA.
Thomas HarperPediatric Diabetes Research Center, Department of Pediatrics, University of California, San Diego, La Jolla, CA 92093-0983, USA; Sanford Consortium for Regenerative Medicine, La Jolla, CA 92037, USA.
Nisha A PatelPediatric Diabetes Research Center, Department of Pediatrics, University of California, San Diego, La Jolla, CA 92093-0983, USA; Sanford Consortium for Regenerative Medicine, La Jolla, CA 92037, USA.
Kayla MuthPediatric Diabetes Research Center, Department of Pediatrics, University of California, San Diego, La Jolla, CA 92093-0983, USA; Sanford Consortium for Regenerative Medicine, La Jolla, CA 92037, USA.
Jeffrey PalmerPediatric Diabetes Research Center, Department of Pediatrics, University of California, San Diego, La Jolla, CA 92093-0983, USA; Sanford Consortium for Regenerative Medicine, La Jolla, CA 92037, USA.
Yunjiang QiuLudwig Institute for Cancer Research, La Jolla, CA 92093-0653, USA.
Jinzhao WangPediatric Diabetes Research Center, Department of Pediatrics, University of California, San Diego, La Jolla, CA 92093-0983, USA; Sanford Consortium for Regenerative Medicine, La Jolla, CA 92037, USA.
Dieter K LamPediatric Diabetes Research Center, Department of Pediatrics, University of California, San Diego, La Jolla, CA 92093-0983, USA; Sanford Consortium for Regenerative Medicine, La Jolla, CA 92037, USA.
Jeffrey C RaumDivision of Endocrinology, Diabetes, and Metabolism, Institute for Diabetes, Obesity and Metabolism, Department of Medicine, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Doris A StoffersDivision of Endocrinology, Diabetes, and Metabolism, Institute for Diabetes, Obesity and Metabolism, Department of Medicine, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Bing RenLudwig Institute for Cancer Research, La Jolla, CA 92093-0653, USA; Department of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA 92093-0651, USA; Institute of Genomic Medicine, University of California, San Diego, La Jolla, CA 92093-0761, USA; Moores Cancer Center, University of California San Diego, La Jolla, CA 92093-0653, USA. Electronic address: biren@ucsd.edu.
Maike SanderPediatric Diabetes Research Center, Department of Pediatrics, University of California, San Diego, La Jolla, CA 92093-0983, USA; Sanford Consortium for Regenerative Medicine, La Jolla, CA 92037, USA; Department of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA 92093-0651, USA; Institute of Genomic Medicine, University of California, San Diego, La Jolla, CA 92093-0761, USA; Moores Cancer Center, University of California San Diego, La Jolla, CA 92093-0653, USA. Electronic address: masander@ucsd.edu.
Sanford Consortium for Regenerative Medicine · USUniversity of California, San Diego · USLudwig Cancer Research · USUniversity of Pennsylvania · USPennsylvania State University · US

Funding

Coordinating Center for Beta Cell Biology ConsortiumU01DK072473 · NIDDK · VANDERBILT UNIVERSITY · PI MAGNUSON, MARK A · 2005 to 2014
$61.0M
The San Diego Epigenome CenterU01ES017166 · NIEHS · LUDWIG INSTITUTE FOR CANCER RES LTD · PI REN, BING · 2008 to 2013
$16.3M
Epigenetic strategies for the in vitro generation of replacement beta cellsU01DK089567 · NIDDK · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI SANDER, MAIKE · 2010 to 2013
$4.7M
TRAINING PROGRAM IN DIABETES RESEARCHT32DK007494 · NIDDK · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI SALTIEL, ALAN R. · 1986 to 2021
$4.7M
Formation of endocrine pancreas progenitorsU01DK089540 · NIDDK · UNIVERSITY OF PENNSYLVANIA · PI STOFFERS, DORIS A · 2010 to 2014
$3.0M
NIDDK NIH HHS T32 DK007494NIDDK NIH HHS T32 DK7494-27NIDDK NIH HHS U01 DK072473NIDDK NIH HHS U01-DK072473NIDDK NIH HHS U01 DK089540NIDDK NIH HHS U01-DK089540NIDDK NIH HHS U01 DK089567NIDDK NIH HHS U01-DK089567NIEHS NIH HHS U01 ES017166NIEHS NIH HHS U01-ES017166
6 · The paper itself

Abstract

Embryonic development relies on the capacity of progenitor cells to appropriately respond to inductive cues, a cellular property known as developmental competence. Here, we report that epigenetic priming of enhancers signifies developmental competence during endodermal lineage diversification. Chromatin mapping during pancreatic and hepatic differentiation of human embryonic stem cells revealed the en masse acquisition of a poised chromatin state at enhancers specific to endoderm-derived cell lineages in gut tube intermediates. Experimentally, the acquisition of this poised enhancer state predicts the ability of endodermal intermediates to respond to inductive signals. Furthermore, these enhancers are first recognized by the pioneer transcription factors FOXA1 and FOXA2 when competence is acquired, while subsequent recruitment of lineage-inductive transcription factors, such as PDX1, leads to enhancer and target gene activation. Together, our results identify the acquisition of a poised chromatin state at enhancers as a mechanism by which progenitor cells acquire developmental competence.

Indexed as

BiomarkersCell DifferentiationCell LineCell LineageChromatin Assembly and DisassemblyEmbryonic Stem CellsEndodermEnhancer Elements, GeneticEpigenesis, GeneticGastrulaGene Expression Regulation, DevelopmentalHepatocyte Nuclear Factor 3-alphaHepatocyte Nuclear Factor 3-betaHigh-Throughput Nucleotide SequencingHistonesHomeodomain ProteinsBiomarkersFOXA1 protein, humanFOXA2 protein, humanHepatocyte Nuclear Factor 3-alphaHepatocyte Nuclear Factor 3-betaHistonesHomeodomain Proteinspancreatic and duodenal homeobox 1 proteinRNA, Small InterferingTrans-Activators

Identifiers

PMID25842977
PMCPMC4478079
OpenAlexW1991655646

What OpenQuestion holds

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Registered trials

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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.