Differentially methylated regions in T cells identify kidney transplant patients at risk for de novo skin cancer

[1]  Audrey Y. Chu,et al.  Epigenome-wide association studies identify DNA methylation associated with kidney function , 2017, Nature Communications.

[2]  M. Naesens,et al.  Precision Transplant Medicine: Biomarkers to the Rescue. , 2017, Journal of the American Society of Nephrology : JASN.

[3]  M. Betjes,et al.  Interferon-Gamma DNA Methylation Is Affected by Mycophenolic Acid but Not by Tacrolimus after T-Cell Activation , 2017, Front. Immunol..

[4]  M. Esteller,et al.  Obesity and menopause modify the epigenomic profile of breast cancer. , 2017, Endocrine-related cancer.

[5]  M. Abecassis,et al.  Biomarker Guidelines for High-Dimensional Genomic Studies in Transplantation: Adding Method to the Madness , 2017, Transplantation.

[6]  M. Betjes,et al.  Variations in DNA methylation of interferon gamma and programmed death 1 in allograft rejection after kidney transplantation , 2016, Clinical Epigenetics.

[7]  M. Betjes,et al.  Clinical potential of DNA methylation in organ transplantation. , 2016, The Journal of heart and lung transplantation : the official publication of the International Society for Heart Transplantation.

[8]  P. Harden,et al.  CD8+ Immunosenescence Predicts Post-Transplant Cutaneous Squamous Cell Carcinoma in High-Risk Patients. , 2016, Journal of the American Society of Nephrology : JASN.

[9]  D. Berg,et al.  Immunosuppressive Medications and Squamous Cell Skin Carcinoma: Nested Case‐Control Study Within the Skin Cancer after Organ Transplant (SCOT) Cohort , 2016, American journal of transplantation : official journal of the American Society of Transplantation and the American Society of Transplant Surgeons.

[10]  Jun Yu Li,et al.  Upregulation of flotillin-1 promotes invasion and metastasis by activating TGF-β signaling in nasopharyngeal carcinoma , 2015, Oncotarget.

[11]  Michael Q. Zhang,et al.  Integrative analysis of 111 reference human epigenomes , 2015, Nature.

[12]  Raphael Gottardo,et al.  Orchestrating high-throughput genomic analysis with Bioconductor , 2015, Nature Methods.

[13]  P. Eline Slagboom,et al.  MethylAid: visual and interactive quality control of large Illumina 450k datasets , 2014, Bioinform..

[14]  D. Bates,et al.  Fitting Linear Mixed-Effects Models Using lme4 , 2014, 1406.5823.

[15]  P. Harden,et al.  Predictors of Cancer Risk in the Long-Term Solid-Organ Transplant Recipient , 2014, Transplantation.

[16]  A. McKnight,et al.  DNA hypermethylation and DNA hypomethylation is present at different loci in chronic kidney disease , 2014, Epigenetics.

[17]  H. Schreiber,et al.  Innate and adaptive immune cells in the tumor microenvironment , 2013, Nature Immunology.

[18]  M. Betjes.  Immune cell dysfunction and inflammation in end-stage renal disease , 2013, Nature Reviews Nephrology.

[19]  Ruth Pidsley,et al.  A data-driven approach to preprocessing Illumina 450K methylation array data , 2013, BMC Genomics.

[20]  G. Edgren,et al.  Risk of skin cancer and other malignancies in kidney, liver, heart and lung transplant recipients 1970 to 2008—A Swedish population‐based study , 2013, International journal of cancer.

[21]  Brent S. Pedersen,et al.  Comb-p: software for combining, analyzing, grouping and correcting spatially correlated P-values , 2012, Bioinform..

[22]  M. Fraga,et al.  DNA methylation: a promising landscape for immune system-related diseases. , 2012, Trends in genetics : TIG.

[23]  Libing Song,et al.  Flotillin-1 promotes tumor necrosis factor-α receptor signaling and activation of NF-κB in esophageal squamous cell carcinoma cells. , 2012, Gastroenterology.

[24]  Ralph Stadhouders,et al.  Transcription regulation by distal enhancers , 2012, Transcription.

[25]  M. Fraga,et al.  Epigenetics and the environment: emerging patterns and implications , 2012, Nature Reviews Genetics.

[26]  K. Tsai,et al.  Roles of the immune system in skin cancer , 2011, The British journal of dermatology.

[27]  A. Bird,et al.  CpG islands and the regulation of transcription. , 2011, Genes & development.

[28]  K. Robertson,et al.  Epigenetic mechanisms and genome stability , 2010, Clinical Epigenetics.

[29]  W. Weimar,et al.  Patient Survival After the Diagnosis of Cancer in Renal Transplant Recipients: A Nested Case-Control Study , 2010, Transplantation.

[30]  Hein Putter,et al.  Variation, patterns, and temporal stability of DNA methylation: considerations for epigenetic epidemiology , 2010, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.

[31]  G. Tufveson,et al.  Immunosuppressive treatment after solid organ transplantation and risk of post-transplant cutaneous squamous cell carcinoma. , 2010, Nephrology, dialysis, transplantation : official publication of the European Dialysis and Transplant Association - European Renal Association.

[32]  J. D. de Fijter,et al.  Subsequent Squamous- and Basal-Cell Carcinomas in Kidney-Transplant Recipients After the First Skin Cancer: Cumulative Incidence and Risk Factors , 2010, Transplantation.

[33]  T. Marafioti,et al.  Immune phenotype predicts risk for posttransplantation squamous cell carcinoma. , 2010, Journal of the American Society of Nephrology : JASN.

[34]  K. Gaus,et al.  Flotillins Are Involved in the Polarization of Primitive and Mature Hematopoietic Cells , 2009, PloS one.

[35]  Christopher B Wilson,et al.  Epigenetic control of T-helper-cell differentiation , 2009, Nature Reviews Immunology.

[36]  R. Clark,et al.  Human squamous cell carcinomas evade the immune response by down-regulation of vascular E-selectin and recruitment of regulatory T cells , 2008, The Journal of experimental medicine.

[37]  C. Ulrich,et al.  Sunscreens in organ transplant patients. , 2008, Nephrology, dialysis, transplantation : official publication of the European Dialysis and Transplant Association - European Renal Association.

[38]  A. Bird,et al.  DNA methylation landscapes: provocative insights from epigenomics , 2008, Nature Reviews Genetics.

[39]  Thomas Lengauer,et al.  Inter-individual variation of DNA methylation and its implications for large-scale epigenome mapping , 2008, Nucleic acids research.

[40]  Ivo G Gut,et al.  DNA methylation analysis by pyrosequencing , 2007, Nature Protocols.

[41]  E. Decullier,et al.  Subsequent Skin Cancers in Kidney and Heart Transplant Recipients after the First Squamous Cell Carcinoma , 2006, Transplantation.

[42]  F. Berthoux,et al.  Long-term kinetic of T-lymphocyte subsets in kidney-transplant recipients: influence of anti-T-cell antibodies and association with posttransplant malignancies. , 2005, Transplantation.

[43]  Philip F Halloran,et al.  Immunosuppressive drugs for kidney transplantation. , 2004, The New England journal of medicine.

[44]  Jean Kanitakis,et al.  Skin cancers after organ transplantation. , 2003, The New England journal of medicine.

[45]  J. Huisman.  The Netherlands , 1996, The Lancet.

[46]  J. Vandenbroucke,et al.  Incidence of skin cancer after renal transplantation in The Netherlands. , 1990, Transplantation.

[47]  Z. Šidák.  Rectangular Confidence Regions for the Means of Multivariate Normal Distributions , 1967 .

[48]  R Core Team,et al.  R: A language and environment for statistical computing. , 2014 .

[49]  Kemp H. Kernstine,et al.  DNA methylation biomarkers for lung cancer , 2011, Tumor Biology.