Evidence map›Paper›PMID 35173300›Full record

ArticlePediatric research2022

Functional assessment of heart-specific enhancers by integrating ChIP-seq data.

Feng Wang, Yawen Zhang, Fang Wu, Yiting Gui, Xudong Chen, Youhua Wang, Xu Wang, Yonghao Gui, Qiang Li

Abstract read
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In one paragraph

Article in Pediatric research, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing papers in PubMed
0.1field-weighted citation impact, top 60% 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

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3 · Its place in the literature

Who cites it

3 citing papers in PubMed, 1 citations in OpenAlex.

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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 3 institutions in 1 country.

Feng WangTranslational Medical Center for Development and Disease, Institute of Pediatrics, Key Laboratory of Birth Defects Prevention and Control, Children's Hospital of Fudan University, National Children's Medical Center, Shanghai, 201102, China.
Yawen ZhangTranslational Medical Center for Development and Disease, Institute of Pediatrics, Key Laboratory of Birth Defects Prevention and Control, Children's Hospital of Fudan University, National Children's Medical Center, Shanghai, 201102, China.
Fang WuTranslational Medical Center for Development and Disease, Institute of Pediatrics, Key Laboratory of Birth Defects Prevention and Control, Children's Hospital of Fudan University, National Children's Medical Center, Shanghai, 201102, China.
Yiting GuiTranslational Medical Center for Development and Disease, Institute of Pediatrics, Key Laboratory of Birth Defects Prevention and Control, Children's Hospital of Fudan University, National Children's Medical Center, Shanghai, 201102, China.
Xudong ChenTranslational Medical Center for Development and Disease, Institute of Pediatrics, Key Laboratory of Birth Defects Prevention and Control, Children's Hospital of Fudan University, National Children's Medical Center, Shanghai, 201102, China.
Youhua WangDepartment of Cardiology, Longhua Hospital, Shanghai University of Traditional Chinese Medicine, Shanghai, 200032, China.
Xu WangCancer Metabolism Laboratory, Cancer Institute, Fudan University Shanghai Cancer Center, Shanghai, 200032, China.
Yonghao GuiCardiovascular Center, Children's Hospital of Fudan University, National Children's Medical Center, Shanghai, 201102, China.
Qiang LiTranslational Medical Center for Development and Disease, Institute of Pediatrics, Key Laboratory of Birth Defects Prevention and Control, Children's Hospital of Fudan University, National Children's Medical Center, Shanghai, 201102, China. liq@fudan.edu.cn.
Children's Hospital of Fudan University · CNFudan University Shanghai Cancer Center · CNShanghai University of Traditional Chinese Medicine · CN

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

backgroundIdentification and functional annotations of regulatory sequences play a pivotal role in heart development and function.

methodsTo generate a map of human heart-specific enhancers, we performed an integrative analysis of 148 chromatin immunoprecipitation coupled to massively parallel sequencing (ChIP-seq) samples with enhancer-associated epigenetic marks from the heart, liver, brain, and kidney. Functional validation of heart-specific enhancer activity was then performed using cultured cells.

resultsA 144.6-Mb candidate heart-specific enhancer compendium was generated by integrating the analysis of 148 epigenomic data sets from human and mouse hearts and control tissues. To validate in vivo enhancer activity, we tested 12 of these sequences around 45 CHD-related genes in cultured cells and found that 8 (67%) have reproducible heart-specific enhancer activity. A functional analysis demonstrated that the identified human heart-specific enhancer wf1 regulates the FBN1 gene which is involved in heart disease.

conclusionsOur study provides an integrative analysis pipeline for ChIP-seq data and identified a comprehensive catalog of human heart-specific enhancers for clinical CHD-related studies. IMPACT: Establishing an efficient way to analyze regulatory regions in CHD is very important. A highly qualified heart-specific enhancer compendium was generated by integrating 148 online ChIP-seq samples. Sixty-seven percent of predicted regulatory sequences have reproducible heart-specific enhancer activity in vivo. Human heart-specific enhancer wf1 regulates the CHD-related FBN1 gene.

Indexed as

Chromatin Immunoprecipitation SequencingEnhancer Elements, GeneticAnimalsChromatin ImmunoprecipitationHeartHigh-Throughput Nucleotide SequencingHumansMice

Identifiers

PMID35173300
OpenAlexW4213062215

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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.