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Author Details

John P Thomson
MRC Institute of Genetics and Cancer, University of Edinburgh
2010
40
21
Trey Ideker (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36244845The role of liquid biopsy in management of the neck with indeterminate response on post-treatment imaging following non-surgical management of oropharyngeal cancer.Eur J Surg Oncol2023
37207500Whole exome sequencing of low grade serous ovarian carcinoma identifies genomic events associated with clinical outcome.Gynecol Oncol2023
37169775Distinct histopathological features are associated with molecular subtypes and outcome in low grade serous ovarian carcinoma.Sci Rep2023
36719033The Scottish COVID Cancer Immunity Prevalence Study: A Longitudinal Study of SARS-CoV-2 Immune Response in Patients Receiving Anti-Cancer Treatment.Oncologist2023
35245467Human biliary epithelial cells from discarded donor livers rescue bile duct structure and function in a mouse model of biliary disease.Cell Stem Cell2022
35431082Longitudinal measurement of HPV copy number in cell-free DNA is associated with patient outcomes in HPV-positive oropharyngeal cancer.Eur J Surg Oncol2022
33306983Neutrophils Fuel Effective Immune Responses through Gluconeogenesis and Glycogenesis.Cell Metab2021
34079052Integrated molecular characterisation of endometrioid ovarian carcinoma identifies opportunities for stratification.NPJ Precis Oncol2021
33951466Neutrophils fuel effective immune responses through gluconeogenesis and glycogenesis.Cell Metab2021
31389294Non-alcoholic fatty liver disease (NAFLD) is associated with dynamic changes in DNA hydroxymethylation.Epigenetics2020
33409477A human pluripotent stem cell model for the analysis of metabolic dysfunction in hepatic steatosis.iScience2020
32585002Activation of transcription factor circuity in 2i-induced ground state pluripotency is independent of repressive global epigenetic landscapes.Nucleic Acids Res2020
31495455Hormone receptor expression patterns define clinically meaningful subgroups of endometrioid ovarian carcinoma.Gynecol Oncol2019
31722211DNA Methylation Directs Polycomb-Dependent 3D Genome Re-organization in Naive Pluripotency.Cell Rep2019
29224170Affinity-Based Enrichment Techniques for the Genome-Wide Analysis of 5-Hydroxymethylcytosine.Methods Mol Biol2018
29636086Investigation into the role of the germline epigenome in the transmission of glucocorticoid-programmed effects across generations.Genome Biol2018
29542689Corrigendum: Cholangiocytes act as facultative liver stem cells during impaired hepatocyte regeneration.Nature2018
29786565Modelling non-alcoholic fatty liver disease in human hepatocyte-like cells.Philos Trans R Soc Lond B Biol Sci2018
29505975DNA methylation as a genomic marker of exposure to chemical and environmental agents.Curr Opin Chem Biol2018
261264475-Hydroxymethylcytosine Profiling in Human DNA.Methods Mol Biol2017
28386604Hypoxia determines survival outcomes of bacterial infection through HIF-1alpha dependent re-programming of leukocyte metabolism.Sci Immunol2017
28351383Diverse interventions that extend mouse lifespan suppress shared age-associated epigenetic changes at critical gene regulatory regions.Genome Biol2017
29707653Methyl donor deficient diets cause distinct alterations in lipid metabolism but are poorly representative of human NAFLD.Wellcome Open Res2017
29130343Defining baseline epigenetic landscapes in the rat liver.Epigenomics2017
28700576Cholangiocytes act as facultative liver stem cells during impaired hepatocyte regeneration.Nature2017
27936926The application of genome-wide 5-hydroxymethylcytosine studies in cancer research.Epigenomics2017
27197233Loss of Tet1-Associated 5-Hydroxymethylcytosine Is Concomitant with Aberrant Promoter Hypermethylation in Liver Cancer.Cancer Res2016
25648825Rapid reprogramming of epigenetic and transcriptional profiles in mammalian culture systems.Genome Biol2015
25985418DNA immunoprecipitation semiconductor sequencing (DIP-SC-seq) as a rapid method to generate genome wide epigenetic signatures.Sci Rep2015
24001620Epigenetic profiles as defined signatures of xenobiotic exposure.Mutat Res Genet Toxicol Environ Mutagen2014
25546306Epigenetic modification of the PD-1 (Pdcd1) promoter in effector CD4(+) T cells tolerized by peptide immunotherapy.Elife2014
24690595Phenobarbital induces cell cycle transcriptional responses in mouse liver humanized for constitutive androstane and pregnane x receptors.Toxicol Sci2014
23091169Identification of Dlk1-Dio3 imprinted gene cluster noncoding RNAs as novel candidate biomarkers for liver tumor promotion.Toxicol Sci2013
242838805-hydroxymethylcytosine profiling as an indicator of cellular state.Epigenomics2013
24186071CpG island chromatin is shaped by recruitment of ZF-CxxC proteins.Cold Spring Harb Perspect Biol2013
24214958Comparative analysis of affinity-based 5-hydroxymethylation enrichment techniques.Nucleic Acids Res2013
23598998Dynamic changes in 5-hydroxymethylation signatures underpin early and late events in drug exposed liver.Nucleic Acids Res2013
23732041Deep C diving: mapping the low-abundance modifications of the DNA demethylation pathway.Genome Biol2013
23034186Non-genotoxic carcinogen exposure induces defined changes in the 5-hydroxymethylome.Genome Biol2012
20393567CpG islands influence chromatin structure via the CpG-binding protein Cfp1.Nature2010
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Collaborators

Richard R Meehan
Institute of Genetics and Molecular Medicine, University of Edinburgh
Co-authored papers 30
Alison Meynert
Institute of Genetics and Cancer, University of Edinburgh
Co-authored papers 3
Philippe Couttet
Co-authored papers 2
Victor Koteliansky
Co-authored papers 2
John Kenneth Baillie
Roslin Institute, University of Edinburgh
Co-authored papers 2
Duncan Sproul
Institute of Genetics and Cancer, University of Edinburgh
Co-authored papers 2
Roman L Bogorad
Co-authored papers 2
Tony McBryan
The Beatson Institute
Co-authored papers 1
Tina Wang
Harvard University
Co-authored papers 1
Edwin R Chilvers
Co-authored papers 1
Florian Hahne
1 Preclinical Safety, Novartis Institutes for Biomedical Research
Co-authored papers 1
Neil A Robertson
Beatson Institute for Cancer Research and the University of Glasgow
Co-authored papers 1
Colin A Semple
Institute of Genetics and Cancer, University of Edinburgh
Co-authored papers 1
Richard A Miller
University of Michigan School of Medicine ann arbor
Co-authored papers 1
Keith D James
Wellcome Trust Sanger Institute
Co-authored papers 1
Holly M Brown-Borg
University of North Dakota
Co-authored papers 1
John J Cole
College of Medicine, University of Glasgow
Co-authored papers 1
Claire Brock
Beatson Institute for Cancer Research and University of Glasgow
Co-authored papers 1
Peter D Adams
Sanford Burnham Prebys Medical Discovery Institute
Co-authored papers 1
Lee Murphy
Edinburgh Clinical Research Facility, University of Edinburgh
Co-authored papers 1
William Clark
Cancer Research UK Beatson Institute
Co-authored papers 1
Ghulam Mohammad Rather
Islamic University of Science and Technology
Co-authored papers 1
Trey Ideker (CM4AI)
University of California San Diego
Co-authored papers 1
Aimee M Deaton
Co-authored papers 1
Robert Andrews
Co-authored papers 1
Graeme R Grimes
Co-authored papers 1
Release 1.2