Evidence map›Paper›PMID 38941464›Full record

ArticleScience advances2024

A genome scale transcriptional regulatory model of the human placenta.

Alison Paquette, Kylia Ahuna, Yeon Mi Hwang, Jocelynn Pearl, Hanna Liao, Paul Shannon, Leena Kadam, Samantha Lapehn, Matthew Bucher, Ryan Roper and 16 more

Abstract read
In one paragraph

Article in Science advances, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.

0numbers the graph read from it
0cells of the map it votes in
15citing 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

15 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Article
  5. Article
  6. BHLHE40 Cooperates with GATA2/3 to Control Human Syncytiotrophoblast Lineage Differentiation.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025
    Article
  7. Review
  8. Super-Enhancers in Placental Development and Diseases.Journal of developmental biology · 2025
    Review
  9. Article
  10. Article
  11. Article
  12. Article
  13. Article
  14. Transcriptomic comparison of in vitro models of the human placenta.bioRxiv : the preprint server for biology · 2024
    Article
  15. Associations Between Prenatal Vitamin D and Placental Gene Expression.bioRxiv : the preprint server for biology · 2024
    Article
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

26 authors.

Alison PaquetteUniversity of Washington, Seattle, WA, USA.ORCID 0000-0002-6065-9398
Kylia AhunaOregon Health and Sciences University, Portland, OR, USA.ORCID 0009-0001-5395-1091
Yeon Mi HwangInstitute for Systems Biology, Seattle, WA, USA.ORCID 0000-0002-4193-8623
Jocelynn PearlTune Therapeutics, Seattle, WA, USA.ORCID 0000-0002-4709-9699
Hanna LiaoUniversity of Washington, Seattle, WA, USA.ORCID 0000-0003-4890-7990
Paul ShannonInstitute for Systems Biology, Seattle, WA, USA.ORCID 0009-0003-6641-3115
Leena KadamOregon Health and Sciences University, Portland, OR, USA.ORCID 0000-0002-1812-5210
Samantha LapehnSeattle Children's Research Institute, Seattle, WA, USA.ORCID 0000-0001-6299-7633
Matthew BucherOregon Health and Sciences University, Portland, OR, USA.ORCID 0000-0001-9012-6229
Ryan RoperInstitute for Systems Biology, Seattle, WA, USA.ORCID 0000-0003-0086-7029
Cory FunkInstitute for Systems Biology, Seattle, WA, USA.ORCID 0000-0002-5229-9011
James MacDonaldUniversity of Washington, Seattle, WA, USA.ORCID 0000-0002-7328-7626
Theo BammlerUniversity of Washington, Seattle, WA, USA.ORCID 0000-0001-8325-2825
Priyanka BaloniInstitute for Systems Biology, Seattle, WA, USA.ORCID 0000-0002-3382-4941
Heather BrockwayDepartment of Physiology and Aging, University of Florida, Gainesville, FL, USA.
W Alex MasonUniversity of Tennessee Health Sciences Center, Memphis, TN, USA.
Nicole BushUniversity of California San Francisco, San Francisco, CA, USA.ORCID 0000-0003-0217-9975
Kaja Z LewinnUniversity of California San Francisco, San Francisco, CA, USA.
Catherine J KarrUniversity of Washington, Seattle, WA, USA.ORCID 0000-0002-4683-2270
John StamatoyannopoulosUniversity of Washington, Seattle, WA, USA.ORCID 0000-0002-2664-5769
Louis J MugliaThe Burroughs Wellcome Fund, Research Triangle Park, NC, USA.ORCID 0000-0002-0301-8770
Helen JonesUniversity of Florida, Gainesville, FL, USA.ORCID 0000-0001-7356-8420
Yoel SadovskyMagee Womens Research Institute, Pittsburgh, PA, USA.ORCID 0000-0003-2969-6737
Leslie MyattOregon Health and Sciences University, Portland, OR, USA.ORCID 0000-0002-2569-7807
Sheela SathyanarayanaUniversity of Washington, Seattle, WA, USA.
Nathan D PriceInstitute for Systems Biology, Seattle, WA, USA.ORCID 0000-0002-4157-0267

Funding

XENOBIOTIC BIOTRANSFORMATION AND DISPOSITIONP30ES007033 · NIEHS · UNIVERSITY OF WASHINGTON · PI ALI SHOJAIE · 1995 to 2026
$42.5M
Prenatal and Early Childhood Pathways To Health:  An Integrated Model of Chemical and Social Exposures, Biological Mechanisms, and Sex-Specific Effects on Neurodevelopment and Respiratory OutcomesUH3OD023271 · OD · UNIVERSITY OF WASHINGTON · PI BUSH, NICOLE RENEE, KARR, CATHERINE J · 2018 to 2022
$37.3M
Prenatal and Early Childhood Pathways To Health:  An Integrated Model of Chemical and Social Exposures, Biological Mechanisms, and Sex-Specific Effects on Neurodevelopment and Respiratory OutcomesUG3OD023271 · OD · UNIVERSITY OF WASHINGTON · PI BUSH, NICOLE RENEE, KARR, CATHERINE J · 2016 to 2017
$5.1M
Pregnancy Folate Status & Early Childhood Respiratory & Atopic Disease OutcomesR01HL109977 · NHLBI · VANDERBILT UNIVERSITY MEDICAL CENTER · PI CARROLL, KECIA NICOLE · 2011 to 2015
$3.4M
Harnessing "omics": A Systems Biology approach to discovery of biologicalpathways in placental development and parturitionR01HD091527 · NICHD · UNIVERSITY OF FLORIDA · PI BALONI, PRIYANKA, JONES, HELEN N · 2017 to 2021
$2.7M
ECHO in Agricultural Washington and Rural Environments (ECHO AWARE)UG3OD035528 · OD · UNIVERSITY OF WASHINGTON · PI KARR, CATHERINE J · 2023 to 2024
$2.4M
The Role of Corticotrophin Releasing Hormone on Placental Transcriptional Networks and Birth TimingR00HD096112 · NICHD · SEATTLE CHILDREN'S HOSPITAL · PI PAQUETTE, ALISON GENEVIEVE · 2020 to 2022
$721k
The role of Corticotrophin Releasing Hormone on placental transcriptional networks and birth timingK99HD096112 · NICHD · INSTITUTE FOR SYSTEMS BIOLOGY · PI PAQUETTE, ALISON GENEVIEVE · 2018 to 2019
$258k
NHLBI NIH HHS R01 HL109977NICHD NIH HHS K99 HD096112NICHD NIH HHS R00 HD096112NICHD NIH HHS R01 HD091527NIEHS NIH HHS P30 ES007033NIH HHS UG3 OD023271NIH HHS UG3 OD035528NIH HHS UH3 OD023271
6 · The paper itself

Abstract

Gene regulation is essential to placental function and fetal development. We built a genome-scale transcriptional regulatory network (TRN) of the human placenta using digital genomic footprinting and transcriptomic data. We integrated 475 transcriptomes and 12 DNase hypersensitivity datasets from placental samples to globally and quantitatively map transcription factor (TF)-target gene interactions. In an independent dataset, the TRN model predicted target gene expression with an out-of-sample

Indexed as

Gene Regulatory NetworksGenome, HumanPlacentaTranscription FactorsFemaleGene Expression ProfilingGene Expression RegulationHumansPregnancyTranscriptomeTranscription Factors

Identifiers

PMID38941464
PMCPMC11212735

What OpenQuestion holds

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LicenceCC BY-NC
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.