Evidence map›Paper›PMID 35786310›Full record

ArticleEpigenetics2022

Comparison of DNA methylation measurements from EPIC BeadChip and SeqCap targeted bisulphite sequencing in PON1 and nine additional candidate genes.

Dennis Khodasevich, Anna R Smith, Karen Huen, Brenda Eskenazi, Andres Cardenas, Nina Holland

Open access · hybridAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Epigenetics, 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
0.3field-weighted citation impact, top 40% 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

3 citing papers in PubMed, 3 citations in OpenAlex.

  1. Article
  2. Article
  3. 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

6 authors at 2 institutions in 1 country.

Dennis KhodasevichDivision of Environmental Health Sciences, Children's Environmental Health Laboratory, School of Public Health, University of California, Berkeley, CA, USA.ORCID 0000-0003-1412-8251
Anna R SmithDivision of Environmental Health Sciences, Children's Environmental Health Laboratory, School of Public Health, University of California, Berkeley, CA, USA.ORCID 0000-0003-1047-3859
Karen HuenDivision of Environmental Health Sciences, Children's Environmental Health Laboratory, School of Public Health, University of California, Berkeley, CA, USA.
Brenda EskenaziCenter for Children's Environmental Health, School of Public Health, University of California, Berkeley, CA, USA.
Andres CardenasDivision of Environmental Health Sciences, Children's Environmental Health Laboratory, School of Public Health, University of California, Berkeley, CA, USA.
Nina HollandDivision of Environmental Health Sciences, Children's Environmental Health Laboratory, School of Public Health, University of California, Berkeley, CA, USA.
University of California, Berkeley · USCenter for Environmental Health · US

Funding

Molecular Mechanisms of Obesity in Children Exposed to Phthalates in UteroR01ES021369 · NIEHS · UNIVERSITY OF CALIFORNIA BERKELEY · PI HOLLAND, NINA T · 2013 to 2017
$3.1M
Common and Distinct Influences of Prenatal and Postnatal Early-Life Adversity on Epigenomic Trajectories in Mexican American ChildrenR01MD016595 · NIMHD · UNIVERSITY OF CALIFORNIA BERKELEY · PI Andres Cardenas, Julianna Deardorff · 2022 to 2026
$3.0M
Maintaining and Expanding the CHAMACOS Epidemiology Cohort Infrastructure for Future GenerationsR24ES028529 · NIEHS · UNIVERSITY OF CALIFORNIA BERKELEY · PI Robert Gunier · 2017 to 2026
$2.0M
PON1 and Developmental Sensitivity to OP PesticidesR01ES012503 · NIEHS · UNIVERSITY OF CALIFORNIA BERKELEY · PI HOLLAND, NINA T · 2006 to 2010
$2.0M
PRENATAL AND POSTNATAL EXPOSURE TO ENVIRONMENTAL MIXTURES: NEURODEVELOPMENT AND DNA METHYLATION BIOMARKERSR01ES031259 · NIEHS · UNIVERSITY OF CALIFORNIA BERKELEY · PI CARDENAS, ANDRES · 2020 to 2024
$1.9M
Early life influences on Epigenetic Aging in Mexican-American childrenR03AG067064 · NIA · UNIVERSITY OF CALIFORNIA BERKELEY · PI HOLLAND, NINA T · 2020 to 2021
$159k
NIA NIH HHS R03 AG067064NIEHS NIH HHS R01 ES012503NIEHS NIH HHS R01 ES021369NIEHS NIH HHS R01 ES031259NIEHS NIH HHS R24 ES028529NIMHD NIH HHS R01 MD016595
6 · The paper itself

Abstract

Epigenome-wide association studies (EWAS) are widely implemented in epidemiology, and the Illumina HumanMethylationEPIC BeadChip (EPIC) DNA microarray is the most-used technology. Recently, next-generation sequencing (NGS)-based methods, which assess DNA methylation at single-base resolution, have become more affordable and technically feasible. While the content of microarray technology is fixed, NGS-based approaches, such as the Roche Nimblegen, SeqCap Epi Enrichment System (SeqCap), offer the flexibility of targeting most CpGs in a gene. With the current usage of microarrays and emerging NGS-based technologies, it is important to establish whether data generated from the two platforms are comparable. We harnessed 112 samples from the Center for the Health Assessment of Mothers and Children of Salinas (CHAMACOS) birth cohort study and compared DNA methylation between the EPIC microarray and SeqCap for

Indexed as

AryldialkylphosphataseDNA MethylationCohort StudiesCpG IslandsHumansSequence Analysis, DNASulfitesAryldialkylphosphatasehydrogen sulfitePON1 protein, humanSulfitesDNA methylationEPIC microarrayNGS-based sequencingPON1SeqCap

Identifiers

PMID35786310
PMCPMC9665150
OpenAlexW4283768741

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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.