20
views
0
recommends
+1 Recommend
0 collections
    0
    shares
      • Record: found
      • Abstract: found
      • Article: found
      Is Open Access

      DNA methylation is associated with prenatal exposure to sulfur dioxide and childhood attention-deficit hyperactivity disorder symptoms

      research-article

      Read this article at

      ScienceOpenPublisherPMC
          There is no author summary for this article yet. Authors can add summaries to their articles on ScienceOpen to make them more accessible to a non-specialist audience.

          Abstract

          Epigenetic influence plays a role in the association between exposure to air pollution and attention deficit hyperactivity disorder (ADHD); however, research regarding sulfur dioxide (SO 2) is scarce. Herein, we investigate the associations between prenatal SO 2 exposure and ADHD rating scale (ARS) at ages 4, 6 and 8 years repeatedly in a mother–child cohort (n = 329). Whole blood samples were obtained at ages 2 and 6 years, and genome-wide DNA methylation (DNAm) was analyzed for 51 children using the Illumina Infinium HumanMethylation BeadChip. We analyzed the associations between prenatal SO 2 exposure and DNAm levels at ages 2 and 6, and further investigated the association between the DNAm and ARS at ages 4, 6 and 8. Prenatal SO 2 exposure was associated with ADHD symptoms. From candidate gene analysis, DNAm levels at the 6 CpGs at age 2 were associated with prenatal SO 2 exposure levels. Of the 6 CpGs, cg07583420 ( INS-IGF2) was persistently linked with ARS at ages 4, 6 and 8. Epigenome-wide analysis showed that DNAm at 6733 CpG sites were associated with prenatal SO 2 exposure, of which 58 CpGs involved in Notch signalling pathway were further associated with ARS at age 4, 6 and 8 years, persistently. DNAm at age 6 was not associated with prenatal SO 2 exposure. Changes in DNAm levels associated with prenatal SO 2 exposure during early childhood are associated with increases in ARS in later childhood.

          Related collections

          Most cited references77

          • Record: found
          • Abstract: not found
          • Article: not found

          Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing

            • Record: found
            • Abstract: found
            • Article: found
            Is Open Access

            WGCNA: an R package for weighted correlation network analysis

            Background Correlation networks are increasingly being used in bioinformatics applications. For example, weighted gene co-expression network analysis is a systems biology method for describing the correlation patterns among genes across microarray samples. Weighted correlation network analysis (WGCNA) can be used for finding clusters (modules) of highly correlated genes, for summarizing such clusters using the module eigengene or an intramodular hub gene, for relating modules to one another and to external sample traits (using eigengene network methodology), and for calculating module membership measures. Correlation networks facilitate network based gene screening methods that can be used to identify candidate biomarkers or therapeutic targets. These methods have been successfully applied in various biological contexts, e.g. cancer, mouse genetics, yeast genetics, and analysis of brain imaging data. While parts of the correlation network methodology have been described in separate publications, there is a need to provide a user-friendly, comprehensive, and consistent software implementation and an accompanying tutorial. Results The WGCNA R software package is a comprehensive collection of R functions for performing various aspects of weighted correlation network analysis. The package includes functions for network construction, module detection, gene selection, calculations of topological properties, data simulation, visualization, and interfacing with external software. Along with the R package we also present R software tutorials. While the methods development was motivated by gene expression data, the underlying data mining approach can be applied to a variety of different settings. Conclusion The WGCNA package provides R functions for weighted correlation network analysis, e.g. co-expression network analysis of gene expression data. The R package along with its source code and additional material are freely available at .
              • Record: found
              • Abstract: found
              • Article: not found

              Minfi: a flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays.

              The recently released Infinium HumanMethylation450 array (the '450k' array) provides a high-throughput assay to quantify DNA methylation (DNAm) at ∼450 000 loci across a range of genomic features. Although less comprehensive than high-throughput sequencing-based techniques, this product is more cost-effective and promises to be the most widely used DNAm high-throughput measurement technology over the next several years. Here we describe a suite of computational tools that incorporate state-of-the-art statistical techniques for the analysis of DNAm data. The software is structured to easily adapt to future versions of the technology. We include methods for preprocessing, quality assessment and detection of differentially methylated regions from the kilobase to the megabase scale. We show how our software provides a powerful and flexible development platform for future methods. We also illustrate how our methods empower the technology to make discoveries previously thought to be possible only with sequencing-based methods. http://bioconductor.org/packages/release/bioc/html/minfi.html. khansen@jhsph.edu; rafa@jimmy.harvard.edu Supplementary data are available at Bioinformatics online.

                Author and article information

                Contributors
                iambabyvox@hanmail.net
                younhee.lim@sund.ku.dk
                Journal
                Sci Rep
                Sci Rep
                Scientific Reports
                Nature Publishing Group UK (London )
                2045-2322
                1 March 2023
                1 March 2023
                2023
                : 13
                : 3501
                Affiliations
                [1 ]GRID grid.410914.9, ISNI 0000 0004 0628 9810, National Cancer Center Graduate School of Cancer Science and Policy, ; Goyang, Republic of Korea
                [2 ]GRID grid.31501.36, ISNI 0000 0004 0470 5905, Department of Preventive Medicine, , Seoul National University College of Medicine, ; Seoul, Republic of Korea
                [3 ]GRID grid.31501.36, ISNI 0000 0004 0470 5905, Environmental Health Center, , Seoul National University College of Medicine, ; Seoul, Republic of Korea
                [4 ]GRID grid.21925.3d, ISNI 0000 0004 1936 9000, Department of Statistics, , University of Pittsburgh, ; Pittsburgh, PA USA
                [5 ]GRID grid.412484.f, ISNI 0000 0001 0302 820X, Institute of Environmental Medicine, , Seoul National University Medical Research Center, ; Seoul, Republic of Korea
                [6 ]GRID grid.412484.f, ISNI 0000 0001 0302 820X, Public Healthcare Center, , Seoul National University Hospital, ; Seoul, Republic of Korea
                [7 ]GRID grid.410899.d, ISNI 0000 0004 0533 4755, Department of Surgery, , Wonkwang University Sanbon Hospital, ; Gunpo, Republic of Korea
                [8 ]GRID grid.415619.e, ISNI 0000 0004 1773 6903, Public Health Research Institute, National Medical Center, ; Seoul, Republic of Korea
                [9 ]Department of Pediatrics, Seoul National University College of Medicine, Seoul National University Children’s Hospital, Seoul, Republic of Korea
                [10 ]GRID grid.412484.f, ISNI 0000 0001 0302 820X, Division of Children and Adolescent Psychiatry, Department of Psychiatry, , Seoul National University Hospital, ; Seoul, Republic of Korea
                [11 ]GRID grid.28046.38, ISNI 0000 0001 2182 2255, Institute of Mental Health Research, University of Ottawa, ; Ottawa, Canada
                [12 ]GRID grid.28046.38, ISNI 0000 0001 2182 2255, Department of Cellular and Molecular Medicine, , University of Ottawa, ; Ottawa, Canada
                [13 ]GRID grid.21107.35, ISNI 0000 0001 2171 9311, Department of Psychiatry and Behavioral Sciences, , Johns Hopkins University School of Medicine, ; Baltimore, USA
                [14 ]GRID grid.411986.3, ISNI 0000 0004 4671 5423, Department of Psychiatry, , Hanyang University Medical Center, ; 222-1 Wangsimni-Ro, Seongdong-Gu, Seoul, 04763 Republic of Korea
                [15 ]GRID grid.5254.6, ISNI 0000 0001 0674 042X, Section of Environmental Epidemiology, Department of Public Health, , University of Copenhagen, ; Østerster Farimagsgade 5, 1014 København K, Copenhagen, Denmark
                Article
                29843
                10.1038/s41598-023-29843-y
                9977725
                36859453
                eba2c9a4-f6d9-4988-aa7b-ce15e96b9c52
                © The Author(s) 2023

                Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/.

                History
                : 18 June 2022
                : 10 February 2023
                Funding
                Funded by: the Bio & Medical Technology Development Program of the National Research Foundation (NRF) funded by the Korean Government (MSIT)
                Award ID: 2019M3E5D1A01069345
                Funded by: the Environmental Health Center, funded by the Korean Ministry of Environment
                Funded by: R&D Research program funded by the Ministry of Food and Drug Safety of Korea
                Award ID: #18162MFDS121
                Funded by: the Basic Science Research Program through the National Research Foundation of Korea, funded by the Ministry of Education
                Award ID: 2018R1D1A1B07043446
                Funded by: FundRef http://dx.doi.org/10.13039/501100005860, Helsefonden;
                Award ID: 21-B-0063
                Award Recipient :
                Categories
                Article
                Custom metadata
                © The Author(s) 2023

                Uncategorized
                epidemiology,molecular medicine
                Uncategorized
                epidemiology, molecular medicine

                Comments

                Comment on this article

                Related Documents Log