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mCSEA: detecting subtle differentially methylated regions
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
inferredcites →https://doi.org/10.1007/978-1-4939-1804-1_3openalex-snapshot
Epigenome-Wide Association Studies (EWAS): Past, Present, and Future
inferredcites →https://doi.org/10.1007/s00125-010-1967-6openalex-snapshot
Insulin promoter DNA methylation correlates negatively with insulin gene expression and positively with HbA1c levels in human pancreatic islets
inferredcites →https://doi.org/10.1016/j.ymeth.2014.10.036openalex-snapshot
Probe Lasso: A novel method to rope in differentially methylated regions with 450K DNA methylation data
inferredcites →https://doi.org/10.1017/thg.2015.74openalex-snapshot
Epigenome-Wide Association Study of Aggressive Behavior
inferredcites →https://doi.org/10.1038/nmeth.3115openalex-snapshot
Comprehensive analysis of DNA methylation data with RnBeads
inferredcites →https://doi.org/10.1038/nrg.2017.32openalex-snapshot
Associating cellular epigenetic models with human phenotypes
inferredcites →https://doi.org/10.1038/nrg816openalex-snapshot
The fundamental role of epigenetic events in cancer
inferredcites →https://doi.org/10.1038/srep14540openalex-snapshot
Infants born large-for-gestational-age display slower growth in early infancy, but no epigenetic changes at birth
inferredcites →https://doi.org/10.1073/pnas.0506580102openalex-snapshot
Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles
inferredcites →https://doi.org/10.1080/00401706.1999.10485954openalex-snapshot
Nonparametric Statistical Methods
inferredcites →https://doi.org/10.1080/15592294.2015.1132136openalex-snapshot
Comparison of Methyl-capture Sequencing vs. Infinium 450K methylation array for methylome analysis in clinical samples
inferredcites →https://doi.org/10.1080/15592294.2017.1370172openalex-snapshot
DNA methylation profiles in sibling pairs discordant for intrauterine exposure to maternal gestational diabetes
inferredcites →https://doi.org/10.1093/bfgp/elw018openalex-snapshot
Methods for identifying differentially methylated regions for sequence- and array-based data: Table 1.
inferredcites →https://doi.org/10.1093/bioinformatics/bts013openalex-snapshot
IMA: an R package for high-throughput analysis of Illumina's 450K Infinium methylation data
inferredcites →https://doi.org/10.1093/hmg/ddq513openalex-snapshot
Replication timing-related and gene body-specific methylation of active human genes
inferredcites →https://doi.org/10.1093/ije/dyr238openalex-snapshot
Bump hunting to identify differentially methylated regions in epigenetic epidemiology studies
inferredcites →https://doi.org/10.1093/nar/27.1.29openalex-snapshot
KEGG: Kyoto Encyclopedia of Genes and Genomes
inferredcites →https://doi.org/10.1093/nar/28.1.27openalex-snapshot
KEGG: Kyoto Encyclopedia of Genes and Genomes
inferredcites →https://doi.org/10.1093/nar/gkt242openalex-snapshot
COHCAP: an integrative genomic pipeline for single-nucleotide resolution DNA methylation analysis
inferredcites →https://doi.org/10.1093/nar/gkv007openalex-snapshot
limma powers differential expression analyses for RNA-sequencing and microarray studies
inferredcites →https://doi.org/10.1128/mcb.19.11.7327openalex-snapshot
DNA Methylation Is the Primary Silencing Mechanism for a Set of Germ Line- and Tumor-Specific Genes with a CpG-Rich Promoter
inferredcites →https://doi.org/10.1186/1471-2105-14-128openalex-snapshot
Enrichr: interactive and collaborative HTML5 gene list enrichment analysis tool
inferredcites →https://doi.org/10.1186/1756-8935-8-6openalex-snapshot
De novo identification of differentially methylated regions in the human genome
inferredcites →https://doi.org/10.1186/s13104-015-1286-6openalex-snapshot
Effect of maternal gestational weight gain on offspring DNA methylation: a follow-up to the ALSPAC cohort study
inferredcites →https://doi.org/10.1186/s13148-016-0256-8openalex-snapshot
DNA methylation: conducting the orchestra from exposure to phenotype?
inferredcites →https://doi.org/10.1242/jeb.106971openalex-snapshot
Influence of environmental exposure on human epigenetic regulation
inferredcites →https://doi.org/10.1371/journal.pgen.1002454openalex-snapshot
DNA Methylation and Gene Expression Changes in Monozygotic Twins Discordant for Psoriasis: Identification of Epigenetically Dysregulated Genes
inferredcites →https://doi.org/10.1371/journal.pone.0100194openalex-snapshot
Identification of Genomic Features in Environmentally Induced Epigenetic Transgenerational Inherited Sperm Epimutations
inferredcites →https://doi.org/10.1586/erm.10.17openalex-snapshot
DNA methylation as a universal biomarker
inferredcites →https://doi.org/10.3390/genes5030821openalex-snapshot
DNA Methylation Biomarkers: Cancer and Beyond
inferredcites →https://doi.org/10.4161/epi.23243openalex-snapshot
The epigenome of AML stem and progenitor cells
inferredcites →https://doi.org/10.4161/epi.6.6.16196openalex-snapshot
Validation of a DNA methylation microarray for 450,000 CpG sites in the human genome
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.2139/ssrn.4180499openalex-extracted
Circulating Cell-Free DNA Methylation Mirrors Alterations In Cerebral Patterns in Epilepsy
inferred← citeshttps://doi.org/10.1002/2211-5463.13180openalex-snapshot
Identification of two methylated fragments of an SDC2 CpG island using a sliding window technique for early detection of colorectal cancer
inferred← citeshttps://doi.org/10.1007/978-1-0716-2962-8_2openalex-snapshot
Interactive DNA Methylation Array Analysis with ShinyÉPICo
inferred← citeshttps://doi.org/10.1007/s11357-023-00999-9openalex-snapshot
A randomized placebo-controlled trial of nicotinamide riboside in older adults with mild cognitive impairment
inferred← citeshttps://doi.org/10.1016/j.bbi.2020.10.023openalex-snapshot
PTSD is associated with increased DNA methylation across regions of HLA-DPB1 and SPATC1L
inferred← citeshttps://doi.org/10.1016/j.ebiom.2024.105242openalex-snapshot
Blood methylation pattern reflects epigenetic remodelling in adipose tissue after bariatric surgery
inferred← citeshttps://doi.org/10.1016/j.isci.2025.112708openalex-snapshot
BRAFV600E augments WNT signaling in colorectal cancer via aberrant DNA methylation
inferred← citeshttps://doi.org/10.1016/j.pneurobio.2021.102207openalex-snapshot
Epilepsy progression is associated with cumulative DNA methylation changes in inflammatory genes
inferred← citeshttps://doi.org/10.1016/j.prp.2022.154018openalex-snapshot
Identification of metastasis-related long non-coding RNAs in lung cancer through a novel tumor mesenchymal score
inferred← citeshttps://doi.org/10.1016/j.psychres.2022.114789openalex-snapshot
Risperidone-induced changes in DNA methylation in peripheral blood from first-episode schizophrenia patients parallel changes in neuroimaging and cognitive phenotypes
inferred← citeshttps://doi.org/10.1016/j.spinee.2024.10.015openalex-snapshot
Genome-wide methylation association study in monozygotic twins discordant for curve severity of adolescent idiopathic scoliosis
inferred← citeshttps://doi.org/10.1038/s41398-024-02896-xopenalex-snapshot
Cortico-striatal differences in the epigenome in attention-deficit/ hyperactivity disorder
inferred← citeshttps://doi.org/10.1038/s41421-022-00462-7openalex-snapshot
Lineage-coupled clonal capture identifies clonal evolution mechanisms and vulnerabilities of BRAFV600E inhibition resistance in melanoma
inferred← citeshttps://doi.org/10.1038/s41467-022-29302-8openalex-snapshot
Astroblastomas exhibit radial glia stem cell lineages and differential expression of imprinted and X-inactivation escape genes
inferred← citeshttps://doi.org/10.1038/s41467-024-52283-9openalex-snapshot
DNA Methylation signatures underpinning blood neutrophil to lymphocyte ratio during first week of human life
inferred← citeshttps://doi.org/10.1038/s41467-025-62533-zopenalex-snapshot
Combining mucosal microbiome and host multi-omics data shows prognostic potential in paediatric ulcerative colitis
inferred← citeshttps://doi.org/10.1038/s41598-021-01324-0openalex-snapshot
Integrative epigenomics in Sjögren´s syndrome reveals novel pathways and a strong interaction between the HLA, autoantibodies and the interferon signature
inferred← citeshttps://doi.org/10.1038/s41598-025-18724-1openalex-snapshot
Brain region and cell type-specific DNA methylation profiles in association with ADHD
inferred← citeshttps://doi.org/10.1038/s41598-025-99755-6openalex-snapshot
DNA methylome biomarkers of rheumatoid arthritis-associated interstitial lung disease reflecting lung fibrosis pathways, an exploratory case–control study
inferred← citeshttps://doi.org/10.1080/15592294.2022.2115600openalex-snapshot
An evaluation of the genome-wide false positive rates of common methods for identifying differentially methylated regions using illumina methylation arrays
inferred← citeshttps://doi.org/10.1080/15592294.2023.2207959openalex-snapshot
A novel principal component based method for identifying differentially methylated regions in Illumina Infinium MethylationEPIC BeadChip data
inferred← citeshttps://doi.org/10.1080/19490976.2025.2450207openalex-snapshot
Host-microbe multi-omics and succinotype profiling have prognostic value for future relapse in patients with inflammatory bowel disease
inferred← citeshttps://doi.org/10.1093/bioadv/vbac088openalex-snapshot
GPU-accelerated and pipelined methylation calling
inferred← citeshttps://doi.org/10.1093/bioinformatics/btaa1095openalex-snapshot
shinyÉPICo: a graphical pipeline to analyze Illumina DNA methylation arrays
inferred← citeshttps://doi.org/10.1093/bioinformatics/btae523openalex-snapshot
Multi-Omic Graph Diagnosis (MOGDx): a data integration tool to perform classification tasks for heterogeneous diseases
inferred← citeshttps://doi.org/10.1093/bioinformatics/btz148openalex-snapshot
DECO: decompose heterogeneous population cohorts for patient stratification and discovery of sample biomarkers using omic data profiling
inferred← citeshttps://doi.org/10.1093/nar/gkab1182openalex-snapshot
Coordinated glucocorticoid receptor and MAFB action induces tolerogenesis and epigenome remodeling in dendritic cells
inferred← citeshttps://doi.org/10.1093/nargab/lqab035openalex-snapshot
Wavelet Screening identifies regions highly enriched for differentially methylated loci for orofacial clefts
inferred← citeshttps://doi.org/10.1101/2020.03.31.018283openalex-snapshot
Risperidone-induced changes in DNA methylation from peripheral blood in first-episode schizophrenia parallel neuroimaging and cognitive phenotype
inferred← citeshttps://doi.org/10.1101/2020.09.14.20192211openalex-snapshot
An integrative multi-omics approach in Sjögren’s Syndrome identifies novel genetic drivers with regulatory function and disease-specificity
inferred← citeshttps://doi.org/10.1101/2021.07.27.453975openalex-snapshot
MAFB surrogates the glucocorticoid receptor ability to induce tolerogenesis in dendritic cells
inferred← citeshttps://doi.org/10.1101/2025.04.28.650924openalex-snapshot
Impact of Dupilumab and Upadacitinib Treatment on Epigenetic and Transcriptomic Alterations in Skin‐Homing T Cells of Atopic Dermatitis Patients
inferred← citeshttps://doi.org/10.1113/ep093999openalex-snapshot
Multi‐omics identifies promoter methylation and gene expression changes associated with human skeletal muscle atrophy
inferred← citeshttps://doi.org/10.1186/s12920-025-02240-2openalex-snapshot
Epigenetic profiles of response to transcranial magnetic stimulation in treatment resistant depression
inferred← citeshttps://doi.org/10.1186/s13059-021-02388-xopenalex-snapshot
Gene set enrichment analysis for genome-wide DNA methylation data
inferred← citeshttps://doi.org/10.1186/s13072-022-00444-9openalex-snapshot
Pioneer transcription factors are associated with the modulation of DNA methylation patterns across cancers
inferred← citeshttps://doi.org/10.1186/s13075-025-03628-2openalex-snapshot
Analysis of epigenetic biomarkers for diagnosis and assessment of severity in rheumatoid arthritis: a cross-sectional study
inferred← citeshttps://doi.org/10.1186/s13148-019-0798-7openalex-snapshot
Longitudinal epigenome-wide association studies of three male military cohorts reveal multiple CpG sites associated with post-traumatic stress disorder
inferred← citeshttps://doi.org/10.1186/s13148-022-01350-3openalex-snapshot
Cri du chat syndrome patients have DNA methylation changes in genes linked to symptoms of the disease
inferred← citeshttps://doi.org/10.1186/s13148-022-01416-2openalex-snapshot
Circulating cell-free DNA methylation mirrors alterations in cerebral patterns in epilepsy
inferred← citeshttps://doi.org/10.1186/s13148-025-01940-xopenalex-snapshot
Genome-wide DNA methylation profiles of colorectal tumors in Lynch syndrome and familial adenomatous polyposis
inferred← citeshttps://doi.org/10.1186/s13148-026-02177-yopenalex-snapshot
Blood DNA methylation of EIF5A and TGIF1 is associated with adipose tissue health and metabolic outcomes in obesity: a multi-cohort study
inferred← citeshttps://doi.org/10.1186/s40478-023-01618-6openalex-snapshot
The specific DNA methylation landscape in focal cortical dysplasia ILAE type 3D
inferred← citeshttps://doi.org/10.1371/journal.pone.0315920openalex-snapshot
DMRIntTk: Integrating different DMR sets based on density peak clustering
inferred← citeshttps://doi.org/10.14288/1.0384565openalex-snapshot
Genome-wide DNA methylation and imprinted gene analysis in babies conceived by ART
inferred← citeshttps://doi.org/10.21203/rs.3.rs-4526525/v1openalex-snapshot
Interplay between T-bet and HIF-1a is required for proper epigenomic and transcriptomic reprogramming of monocyte subsets
inferred← citeshttps://doi.org/10.2174/1574893618666230816141723openalex-snapshot
A Metric to Characterize Differentially Methylated Region Sets Detected from Methylation Array Data
inferred← citeshttps://doi.org/10.2174/1875036202114010144openalex-snapshot
Use of Two Complementary Bioinformatic Approaches to Identify Differentially Methylated Regions in Neonatal Sepsis
inferred← citeshttps://doi.org/10.21769/bioprotoc.4033openalex-snapshot
Detecting Differentially Methylated Promoters in Genes Related to Disease Phenotypes Using R
inferred← citeshttps://doi.org/10.2217/epi-2021-0310openalex-snapshot
Leukocyte Methylomic Imprints of Exposure to the Genocide against the Tutsi in Rwanda: a Pilot Epigenome-Wide Analysis
inferred← citeshttps://doi.org/10.3389/fimmu.2021.622599openalex-snapshot
DNA Methylation Analysis to Unravel Altered Genetic Pathways Underlying Early Onset and Late Onset Neonatal Sepsis. A Pilot Study
inferred← citeshttps://doi.org/10.3389/fimmu.2023.1333705openalex-snapshot
Alterations in leukocyte DNA methylome are associated to immunosuppression in severe clinical phenotypes of septic patients
inferred← citeshttps://doi.org/10.3389/fimmu.2025.1571987openalex-snapshot
Differential DNA methylation in infants with IgE- and non-IgE-mediated cow’s milk allergy and its association with acquired tolerance
inferred← citeshttps://doi.org/10.3390/epigenomes9030026openalex-snapshot
Epigenomic Interactions Between Chronic Pain and Recurrent Pressure Injuries After Spinal Cord Injury
inferred← citeshttps://doi.org/10.3390/genes12081191openalex-snapshot
Severity of Idiopathic Scoliosis Is Associated with Differential Methylation: An Epigenome-Wide Association Study of Monozygotic Twins with Idiopathic Scoliosis
inferred← citeshttps://doi.org/10.3390/ijms262311244openalex-snapshot
A Comprehensive Analysis of Novel Variations Associated with Bile Duct Cancer: Insights into Expression, Methylation, and 3D Protein Structure
inferred← citeshttps://doi.org/10.3390/ijms27167275openalex-snapshot
Integrative Multi-Omics Analysis of Multiple Sclerosis Reveals Cell-Type-Specific Regulatory Landscapes and Discordant Methylation–Expression Coupling
inferred← citeshttps://doi.org/10.6084/m9.figshare.14752223openalex-snapshot
Additional file 1 of Gene set enrichment analysis for genome-wide DNA methylation data
inferred← citeshttps://doi.org/10.6084/m9.figshare.14752229openalex-snapshot
Additional file 3 of Gene set enrichment analysis for genome-wide DNA methylation data
inferred← citeshttps://doi.org/10.6084/m9.figshare.19619310openalex-snapshot
Additional file 3 of Pioneer transcription factors are associated with the modulation of DNA methylation patterns across cancers
inferred← citeshttps://doi.org/10.6084/m9.figshare.26609370openalex-snapshot
Additional file 1 of The specific DNA methylation landscape in focal cortical dysplasia ILAE type 3D
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