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Sci Adv2024;10(26):eadf3411.June 28, 2024Journal Article

A genome scale transcriptional regulatory model of the human placenta.

Alison Paquette1,2, Kylia Ahuna3, Yeon Mi Hwang4, Jocelynn Pearl5, Hanna Liao1, Paul Shannon4, Leena Kadam3, Samantha Lapehn2, Matthew Bucher3, Ryan Roper4, Cory Funk4, James MacDonald1, Theo Bammler1, Priyanka Baloni4, Heather Brockway6, W Alex Mason7, Nicole Bush8, Kaja Z Lewinn8, Catherine J Karr1, John Stamatoyannopoulos1,9, Louis J Muglia10,11, Helen Jones12, Yoel Sadovsky13,14, Leslie Myatt3, Sheela Sathyanarayana1,2, Nathan D Price4,15
1University of Washington, Seattle, WA, USA.
2Seattle Children's Research Institute, Seattle, WA, USA.
3Oregon Health and Sciences University, Portland, OR, USA.
4Institute for Systems Biology, Seattle, WA, USA.
5Tune Therapeutics, Seattle, WA, USA.
6Department of Physiology and Aging, University of Florida, Gainesville, FL, USA.
7University of Tennessee Health Sciences Center, Memphis, TN, USA.
8University of California San Francisco, San Francisco, CA, USA.
9The Altius Institute, Seattle, WA, USA.
10The Burroughs Wellcome Fund, Research Triangle Park, NC, USA.
11Cincinnati Children's Hospital Medical Center and Department of Pediatrics, University of Cincinnati College of Medicine, Cincinnati, OH, USA.
12University of Florida, Gainesville, FL, USA.
13Magee Womens Research Institute, Pittsburgh, PA, USA.
14University of Pittsburgh, Pittsburgh, PA, USA.
15Thorne HealthTech, New York City, NY, USA.
PubMed PMC DOI PDF

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 interaction…

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