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annotatr: genomic regions in context

Bioinformatics (Oxford, England), 2017-08, Vol.33 (15), p.2381-2383

2017

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Machine learning approaches and databases for prediction of drug–target interaction: a survey paper

Briefings in bioinformatics, 2021-01, Vol.22 (1), p.247-269

2021

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ER-stress-induced transcriptional regulation increases protein synthesis leading to cell death

Nature cell biology, 2013-05, Vol.15 (5), p.481

2013

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MethylSig: a whole genome DNA methylation analysis pipeline

Bioinformatics (Oxford, England), 2014-09, Vol.30 (17), p.2414-2422

2014

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MicroRNA-320 Is Involved in the Regulation of Cardiac Ischemia/Reperfusion Injury by Targeting Heat-Shock Protein 20

Circulation (New York, N.Y.), 2009-05, Vol.119 (17), p.2357-2366

2009

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PePr: a peak-calling prioritization pipeline to identify consistent or differential peaks from replicated ChIP-Seq data

Bioinformatics (Oxford, England), 2014-09, Vol.30 (18), p.2568-2575

2014

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Metscape 2 bioinformatics tool for the analysis and visualization of metabolomics and gene expression data

Bioinformatics, 2012-02, Vol.28 (3), p.373-380

2012

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A Mouse Model of X-linked Intellectual Disability Associated with Impaired Removal of Histone Methylation

Cell reports (Cambridge), 2016-02, Vol.14 (5), p.1000-1009

2016

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LRpath: a logistic regression approach for identifying enriched biological groups in gene expression data

Bioinformatics, 2009-01, Vol.25 (2), p.211-217

2009

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Epigenetics: relevance and implications for public health

Annual review of public health, 2014-01, Vol.35 (1), p.105-122

2014

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Genome-wide DNA methylation differences between late-onset Alzheimer's disease and cognitively normal controls in human frontal cortex

Journal of Alzheimer's disease, 2012-01, Vol.29 (3), p.571

2012

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Somatic expression of piRNA and associated machinery in the mouse identifies short, tissue-specific piRNA

Epigenetics, 2019-05, Vol.14 (5), p.504-521

2019

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Comprehensive enhancer-target gene assignments improve gene set level interpretation of genome-wide regulatory data

Genome Biology, 2022-04, Vol.23 (1), p.105-105, Article 105

2022

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Intensity-based hierarchical Bayes method improves testing for differentially expressed genes in microarray experiments

BMC bioinformatics, 2006-12, Vol.7 (1), p.538-538, Article 538

2006

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Heterogeneity of Human Breast Stem and Progenitor Cells as Revealed by Transcriptional Profiling

Stem cell reports, 2018-05, Vol.10 (5), p.1596-1609

2018

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Single-Cell Analysis of the Gene Expression Effects of Developmental Lead (Pb) Exposure on the Mouse Hippocampus

Toxicological sciences, 2020-08, Vol.176 (2), p.396-409

2020

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Translational toxicoepigenetic Meta-Analyses identify homologous gene DNA methylation reprogramming following developmental phthalate and lead exposure in mouse and human offspring

Environment international, 2024-04, Vol.186, p.108575-108575, Article 108575

2024

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Novel Epigenetic Biomarkers Mediating Bisphenol A Exposure and Metabolic Phenotypes in Female Mice

Endocrinology (Philadelphia), 2017-01, Vol.158 (1), p.31-40

2017

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Age-related epigenome-wide DNA methylation and hydroxymethylation in longitudinal mouse blood

Epigenetics, 2018-07, Vol.13 (7), p.779-792

2018

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LRpath analysis reveals common pathways dysregulated via DNA methylation across cancer types

BMC genomics, 2012-10, Vol.13 (1), p.526-526, Article 526

2012

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Detection of differential DNA methylation in repetitive DNA of mice and humans perinatally exposed to bisphenol A

Epigenetics, 2016-07, Vol.11 (7), p.489-500

2016

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Molecular Tumor Subtypes of HPV-Positive Head and Neck Cancers: Biological Characteristics and Implications for Clinical Outcomes

Cancers, 2021-05, Vol.13 (11), p.2721

2021

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Skeletal muscle gene expression in response to resistance exercise: sex specific regulation

BMC genomics, 2010-11, Vol.11 (1), p.659-659, Article 659

2010

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Bisphenol A-associated alterations in the expression and epigenetic regulation of genes encoding xenobiotic metabolizing enzymes in human fetal liver

Environmental and molecular mutagenesis, 2014-04, Vol.55 (3), p.184-195

2014

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Tissue and sex-specific programming of DNA methylation by perinatal lead exposure: implications for environmental epigenetics studies

Epigenetics, 2021-10, Vol.16 (10), p.1102-1122

2021

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annotatr: genomic regions in context

Machine learning approaches and databases for prediction of drug–target interaction: a survey paper

ER-stress-induced transcriptional regulation increases protein synthesis leading to cell death

MethylSig: a whole genome DNA methylation analysis pipeline

MicroRNA-320 Is Involved in the Regulation of Cardiac Ischemia/Reperfusion Injury by Targeting Heat-Shock Protein 20

PePr: a peak-calling prioritization pipeline to identify consistent or differential peaks from replicated ChIP-Seq data

Metscape 2 bioinformatics tool for the analysis and visualization of metabolomics and gene expression data

A Mouse Model of X-linked Intellectual Disability Associated with Impaired Removal of Histone Methylation

LRpath: a logistic regression approach for identifying enriched biological groups in gene expression data

Epigenetics: relevance and implications for public health

Genome-wide DNA methylation differences between late-onset Alzheimer's disease and cognitively normal controls in human frontal cortex

Somatic expression of piRNA and associated machinery in the mouse identifies short, tissue-specific piRNA

Comprehensive enhancer-target gene assignments improve gene set level interpretation of genome-wide regulatory data

Intensity-based hierarchical Bayes method improves testing for differentially expressed genes in microarray experiments

Heterogeneity of Human Breast Stem and Progenitor Cells as Revealed by Transcriptional Profiling

Single-Cell Analysis of the Gene Expression Effects of Developmental Lead (Pb) Exposure on the Mouse Hippocampus

Translational toxicoepigenetic Meta-Analyses identify homologous gene DNA methylation reprogramming following developmental phthalate and lead exposure in mouse and human offspring

Novel Epigenetic Biomarkers Mediating Bisphenol A Exposure and Metabolic Phenotypes in Female Mice

Age-related epigenome-wide DNA methylation and hydroxymethylation in longitudinal mouse blood

LRpath analysis reveals common pathways dysregulated via DNA methylation across cancer types

Detection of differential DNA methylation in repetitive DNA of mice and humans perinatally exposed to bisphenol A

Molecular Tumor Subtypes of HPV-Positive Head and Neck Cancers: Biological Characteristics and Implications for Clinical Outcomes

Skeletal muscle gene expression in response to resistance exercise: sex specific regulation

Bisphenol A-associated alterations in the expression and epigenetic regulation of genes encoding xenobiotic metabolizing enzymes in human fetal liver

Tissue and sex-specific programming of DNA methylation by perinatal lead exposure: implications for environmental epigenetics studies

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