Evidence map›Paper›PMID 33016200›Full record

ArticleEpigenetics2021

CUE: CpG impUtation ensemble for DNA methylation levels across the human methylation450 (HM450) and EPIC (HM850) BeadChip platforms.

Gang Li, Laura Raffield, Mark Logue, Mark W Miller, Hudson P Santos, T Michael O'Shea, Rebecca C Fry, Yun Li

Abstract read
In one paragraph

Article in Epigenetics, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed, 1 pooled it
–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

2 citing papers in PubMed, 1 synthesis or guideline pooled it.

  1. Pooled it
  2. 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

8 authors.

Gang LiDepartment of Statistics and Operations Research, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.ORCID 0000-0003-0759-9063
Laura RaffieldDepartment of Genetics, University of North Carolina, Chapel Hill, NC, USA.ORCID 0000-0002-7892-193X
Mark LogueNational Center for PTSD: Behavioral Sciences Division at VA Boston Healthcare System, Boston, MA, USA.ORCID 0000-0001-9347-7892
Mark W MillerNational Center for PTSD: Behavioral Sciences Division at VA Boston Healthcare System, Boston, MA, USA.ORCID 0000-0001-6393-8563
Hudson P SantosSchool of Nursing, University of North Carolina, Chapel Hill, NC, USA.ORCID 0000-0002-4040-366X
T Michael O'SheaDepartment of Pediatrics, School of Medicine, University of North Carolina, Chapel Hill, NC, USA.ORCID 0000-0001-6692-911X
Rebecca C FryInstitute for Environmental Health Solutions, Gillings School of Global Public Health, University of North Carolina, Chapel Hill, NC, USA.ORCID 0000-0003-0899-9018
Yun LiDepartment of Genetics, University of North Carolina, Chapel Hill, NC, USA.ORCID 0000-0002-9275-4189

Funding

UNC-CH CENTER FOR ENVIRONMENTAL HEALTH &SUSCEPTIBILITYP30ES010126 · NIEHS · UNIV OF NORTH CAROLINA CHAPEL HILL · PI Melissa A. Troester · 2001 to 2026
$36.3M
Neonatal Biomarkers in Extremely Preterm Babies Predict Childhood Brain DisordersU01NS040069 · NINDS · CHILDREN'S HOSPITAL BOSTON · PI KUBAN, KARL · 2001 to 2014
$34.0M
The Role of the Placenta-Brain Axis in Children's NeurodevelopmentUH3OD023348 · OD · UNIV OF NORTH CAROLINA CHAPEL HILL · PI Rebecca Fry, Michael O'SHEA · 2018 to 2026
$21.9M
The Genetic Epidemiology of Heart, Lung, and Blood TraitsTraining Grant (GenHLB)T32HL129982 · NHLBI · UNIV OF NORTH CAROLINA CHAPEL HILL · PI Christy Leigh Avery, KAREN L. MOHLKE · 2016 to 2026
$3.8M
Placental Epigenome and Brain Dysfunction after Preterm BirthR01HD092374 · NICHD · UNIV OF NORTH CAROLINA CHAPEL HILL · PI FRY, REBECCA, O'SHEA, MICHAEL · 2017 to 2021
$3.2M
Genetic Studies of Blood Cell Traits in Multi-Ethnic CohortsR01HL129132 · NHLBI · UNIV OF NORTH CAROLINA CHAPEL HILL · PI LI, YUN, REINER, ALEXANDER P · 2016 to 2019
$2.7M
Genetic and Epigenetic Effects on Childhood Cognitive TrajectoriesR01NR019245 · NINR · UNIV OF NORTH CAROLINA CHAPEL HILL · PI SANTOS, HUDSON · 2020 to 2024
$1.7M
Placental DNA Methylation, Maternal Hardship and Child Neurodevelopmental OutcomesK23NR017898 · NINR · UNIV OF NORTH CAROLINA CHAPEL HILL · PI SANTOS, HUDSON · 2018 to 2020
$395k
Genetic and Epigenetic Biomarkers of PTSDI01BX003477 · VA · VA BOSTON HEALTH CARE SYSTEM · PI LOGUE, MARK W · 2017 to 2020
–
BLRD VA I01 BX003477NHLBI NIH HHS R01 HL129132NHLBI NIH HHS T32 HL129982NICHD NIH HHS R01 HD092374NIEHS NIH HHS P30 ES010126NIH HHS UH3 OD023348NINDS NIH HHS U01 NS040069NINR NIH HHS K23 NR017898
6 · The paper itself

Abstract

DNA methylation at CpG dinucleotides is one of the most extensively studied epigenetic marks. With technological advancements, geneticists can profile DNA methylation with multiple reliable approaches. However, profiling platforms can differ substantially in the CpGs they assess, consequently hindering integrated analysis across platforms. Here, we present CpG impUtation Ensemble (CUE), which leverages multiple classical statistical and modern machine learning methods, to impute from the Illumina HumanMethylation450 (HM450) BeadChip to the Illumina HumanMethylationEPIC (HM850) BeadChip. Data were analysed from two population cohorts with methylation measured both by HM450 and HM850: the Extremely Low Gestational Age Newborns (ELGAN) study (

Indexed as

DNA MethylationEpigenomicsCpG IslandsFemaleHigh-Throughput Nucleotide SequencingHumansInfant, NewbornPregnancyDNA methylationensemble learningHM450HM850imputationplacentawhole blood

Identifiers

PMID33016200
PMCPMC8330997

What OpenQuestion holds

Textmetadata
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.