Evidence map›Paper›PMID 36167075›Full record

ArticleCell systems2022

Systems analysis of de novo mutations in congenital heart diseases identified a protein network in the hypoplastic left heart syndrome.

Yuejun Jessie Wang, Xicheng Zhang, Chi Keung Lam, Hongchao Guo, Cheng Wang, Sai Zhang, Joseph C Wu, Michael Snyder, Jingjing Li

Open access · bronzeAbstract read
In one paragraph

Article in Cell systems, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.

0numbers the graph read from it
0cells of the map it votes in
8citing papers in PubMed
1.0field-weighted citation impact, top 27% 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

8 citing papers in PubMed, 12 citations in OpenAlex.

  1. Article
  2. Review
  3. Article
  4. Review
  5. Article
  6. A germline chimeric KANK1-DMRT1 transcript derived from a complex structural variant is associated with a congenital heart defect segregating across five generations.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2024
    Article
  7. RNA binding proteins in cardiovascular development and disease.Current topics in developmental biology · 2024
    Article
  8. 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

9 authors at 5 institutions in 1 country.

Yuejun Jessie WangThe Eli and Edythe Broad Center of Regeneration Medicine and Stem Cell Research, the Bakar Computational Health Sciences Institute, the Parker Institute for Cancer Immunotherapy, and the Department of Neurology, School of Medicine, University of California, San Francisco, 35 Medical Center Way, San Francisco, CA 94143, USA.
Xicheng ZhangDepartment of Genetics and the Center for Genomics and Personalized Medicine, School of Medicine, Stanford University, 291 Campus Dr., Stanford, CA 94305, USA.
Chi Keung LamStanford Cardiovascular Institute, School of Medicine, Stanford University, 265 Campus Dr., Stanford, CA 94305, USA; Department of Medicine, Division of Cardiology, School of Medicine, Stanford University, 265 Campus Dr., Stanford, CA 94305, USA; Department of Biological Sciences, University of Delaware, Newark, DE 19716, USA.
Hongchao GuoStanford Cardiovascular Institute, School of Medicine, Stanford University, 265 Campus Dr., Stanford, CA 94305, USA; Department of Medicine, Division of Cardiology, School of Medicine, Stanford University, 265 Campus Dr., Stanford, CA 94305, USA.
Cheng WangThe Eli and Edythe Broad Center of Regeneration Medicine and Stem Cell Research, the Bakar Computational Health Sciences Institute, the Parker Institute for Cancer Immunotherapy, and the Department of Neurology, School of Medicine, University of California, San Francisco, 35 Medical Center Way, San Francisco, CA 94143, USA.
Sai ZhangDepartment of Genetics and the Center for Genomics and Personalized Medicine, School of Medicine, Stanford University, 291 Campus Dr., Stanford, CA 94305, USA.
Joseph C WuStanford Cardiovascular Institute, School of Medicine, Stanford University, 265 Campus Dr., Stanford, CA 94305, USA; Department of Medicine, Division of Cardiology, School of Medicine, Stanford University, 265 Campus Dr., Stanford, CA 94305, USA; Department of Radiology, Stanford University School of Medicine, Stanford University, 265 Campus Dr., Stanford, CA 94305, USA.
Michael SnyderDepartment of Genetics and the Center for Genomics and Personalized Medicine, School of Medicine, Stanford University, 291 Campus Dr., Stanford, CA 94305, USA; Stanford Cardiovascular Institute, School of Medicine, Stanford University, 265 Campus Dr., Stanford, CA 94305, USA. Electronic address: mpsnyder@stanford.edu.
Jingjing LiThe Eli and Edythe Broad Center of Regeneration Medicine and Stem Cell Research, the Bakar Computational Health Sciences Institute, the Parker Institute for Cancer Immunotherapy, and the Department of Neurology, School of Medicine, University of California, San Francisco, 35 Medical Center Way, San Francisco, CA 94143, USA. Electronic address: jingjing.li@ucsf.edu.
Stanford University · USCardiovascular Institute of the South · USBroad Center · USParker Institute for Cancer Immunotherapy · USUniversity of California, San Francisco · US

Funding

Project 3 (Mercola)P01HL141084 · NHLBI · STANFORD UNIVERSITY · PI Joseph C. Wu · 2019 to 2026
$21.1M
PRODUCTION CENTER FOR MAPPING REGULATORY REGIONS OF THE HUMAN GENOMEUM1HG009442 · NHGRI · STANFORD UNIVERSITY · PI SNYDER, MICHAEL P. · 2017 to 2021
$20.1M
Stanford Islet Research CoreP30DK116074 · NIDDK · STANFORD UNIVERSITY · PI Seung K Kim · 2017 to 2026
$19.5M
Signature Protein Profiles to Identify AAAsP50HL083800 · NHLBI · STANFORD UNIVERSITY · PI TAYLOR, CHARLES ANTHONY · 2006 to 2010
$13.7M
Elucidating ECM Signaling in Cardiac Organoids with Machine Learning and Single-cell MultiomicsR01HL163680 · NHLBI · STANFORD UNIVERSITY · PI RAJADAS, JAYAKUMAR, WONG, WING H. · 2022 to 2025
$2.5M
Single-Cell Analysis of the Noncoding Genome in Human Diseases and EvolutionR35GM142983 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI LI, JINGJING · 2021 to 2025
$2.0M
DNA Variants and AAA DiseaseR01HL101388 · NHLBI · STANFORD UNIVERSITY · PI TSAO, PHILIP S · 2010 to 2013
$1.6M
MicroRNA Regulation of Nicotine Accelerated AAAsR01HL122939 · NHLBI · PALO ALTO VETERANS INSTIT FOR RESEARCH · PI TSAO, PHILIP S · 2014 to 2017
$1.4M
Delineating the Genetic Susceptibility of Smoking-Induced Vascular DysfunctionR00HL150319 · NHLBI · UTAH STATE HIGHER EDUCATION SYSTEM--UNIVERSITY OF UTAH · PI GUO, HONGCHAO · 2023 to 2025
$747k
Computational appliance: a supercomputer for modern biomedical researchS10OD023452 · OD · STANFORD UNIVERSITY · PI DATTA, SOMALEE · 2017 to 2017
$600k
Ultra high throughput sequencer for sustaining and enhancing multi-scale genomic studiesS10OD025212 · OD · STANFORD UNIVERSITY · PI SNYDER, MICHAEL P. · 2018 to 2018
$600k
Delineating the Genetic Susceptibility of Smoking-Induced Vascular DysfunctionK99HL150319 · NHLBI · STANFORD UNIVERSITY · PI GUO, HONGCHAO · 2020 to 2021
$283k
NHGRI NIH HHS UM1 HG009442NHLBI NIH HHS K99 HL150319NHLBI NIH HHS P01 HL141084NHLBI NIH HHS P50 HL083800NHLBI NIH HHS R00 HL150319NHLBI NIH HHS R01 HL101388NHLBI NIH HHS R01 HL122939NHLBI NIH HHS R01 HL163680NIDDK NIH HHS P30 DK116074NIGMS NIH HHS R35 GM142983NIH HHS S10 OD023452NIH HHS S10 OD025212
6 · The paper itself

Abstract

Despite a strong genetic component, only a few genes have been identified in congenital heart diseases (CHDs). We introduced systems analyses to uncover the hidden organization on biological networks of mutations in CHDs and leveraged network analysis to integrate the protein interactome, patient exomes, and single-cell transcriptomes of the developing heart. We identified a CHD network regulating heart development and observed that a sub-network also regulates fetal brain development, thereby providing mechanistic insights into the clinical comorbidities between CHDs and neurodevelopmental conditions. At a small scale, we experimentally verified uncharacterized cardiac functions of several proteins. At a global scale, our study revealed developmental dynamics of the network and observed its association with the hypoplastic left heart syndrome (HLHS), which was further supported by the dysregulation of the network in HLHS endothelial cells. Overall, our work identified previously uncharacterized CHD factors and provided a generalizable framework applicable to studying many other complex diseases. A record of this paper's Transparent Peer Review process is included in the supplemental information.

Indexed as

Heart Defects, CongenitalHypoplastic Left Heart SyndromeEndothelial CellsHumansMutationSystems Analysisbiological networkscongenital heart diseaseshypoplastic heartpersonal genomessingle cellsystems biology

Identifiers

PMID36167075
PMCPMC9671831
OpenAlexW4297143474

What OpenQuestion holds

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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.