Massively parallel reporter assays combined with cell-type specific eQTL informed multiple melanoma loci and identified a pleiotropic function of HIV-1 restriction gene, MX2, in melanoma promotion

Autor: Choi, J, Zhang, T, Vu, A, Ablain, J, Makowski, MM, Colli, LM, Xu, M, Rothschild, H, Gräwe, C, Kovacs, MA, Brossard, M, Taylor, J, Pasaniuc, B, Chari, R, Chanock, SJ, Hoggart, CJ, Demenais, F, Barrett, JH, Law, MH, Iles, MM, Yu, K, Vermeulen, M, Zon, LI, Brown, KM

Genome-wide association studies (GWAS) have identified ∼20 melanoma susceptibility loci. To identify susceptibility genes and variants simultaneously from multiple GWAS loci, we integrated massively-parallel reporter assays (MPRA) with cell type-sp

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=core_ac_uk__::f9f4a10ccc8b3e5ba791723f0d37ec75
https://eprints.whiterose.ac.uk/155770/1/625400v1.full.pdf

Massively parallel reporter assays of melanoma risk variants identify MX2 as a gene promoting melanoma.

Autor: Choi J; Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD, 20892, USA., Zhang T; Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD, 20892, USA., Vu A; Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD, 20892, USA., Ablain J; Stem Cell Program and Division of Hematology/Oncology, Boston Children's Hospital and Dana-Farber Cancer Institute, Boston, MA, 02115, USA., Makowski MM; Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Oncode Institute, Radboud University Nijmegen, 6525 XZ, Nijmegen, The Netherlands., Colli LM; Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD, 20892, USA., Xu M; Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD, 20892, USA., Hennessey RC; Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD, 20892, USA., Yin J; Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD, 20892, USA., Rothschild H; Stem Cell Program and Division of Hematology/Oncology, Boston Children's Hospital and Dana-Farber Cancer Institute, Boston, MA, 02115, USA., Gräwe C; Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Oncode Institute, Radboud University Nijmegen, 6525 XZ, Nijmegen, The Netherlands., Kovacs MA; Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD, 20892, USA., Funderburk KM; Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD, 20892, USA., Brossard M; Université de Paris, UMRS-1124, Institut National de la Santé et de la Recherche Médicale (INSERM), F-75006, Paris, France., Taylor J; Leeds Institute for Data Analytics, School of Medicine, University of Leeds, Leeds, LS2 9JT, UK., Pasaniuc B; Department of Human Genetics, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA, 90024, USA., Chari R; Genome Modification Core, Frederick National Lab for Cancer Research, National Cancer Institute, Frederick, MD, 21701, USA., Chanock SJ; Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD, 20892, USA., Hoggart CJ; Department of Medicine, Imperial College London, London, SW7 2BU, UK., Demenais F; Université de Paris, UMRS-1124, Institut National de la Santé et de la Recherche Médicale (INSERM), F-75006, Paris, France., Barrett JH; Leeds Institute for Data Analytics, School of Medicine, University of Leeds, Leeds, LS2 9JT, UK., Law MH; Statistical Genetics, QIMR Berghofer Medical Research Institute, Brisbane, QLD, 4006, Australia., Iles MM; Leeds Institute for Data Analytics, School of Medicine, University of Leeds, Leeds, LS2 9JT, UK., Yu K; Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD, 20892, USA., Vermeulen M; Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Oncode Institute, Radboud University Nijmegen, 6525 XZ, Nijmegen, The Netherlands., Zon LI; Stem Cell Program and Division of Hematology/Oncology, Boston Children's Hospital and Dana-Farber Cancer Institute, Boston, MA, 02115, USA., Brown KM; Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, MD, 20892, USA. kevin.brown3@nih.gov.

Publikováno v: Nature communications [Nat Commun] 2020 Jun 01; Vol. 11 (1), pp. 2718. Date of Electronic Publication: 2020 Jun 01.

Global profiling of protein-DNA and protein-nucleosome binding affinities using quantitative mass spectrometry.

Autor: Makowski MM; Department of Molecular Biology, Radboud Institute for Molecular Life Sciences, Radboud University, Nijmegen, 6500 HB, The Netherlands.; Oncode Institute, Radboud University, Nijmegen, 6500 HB, The Netherlands., Gräwe C; Department of Molecular Biology, Radboud Institute for Molecular Life Sciences, Radboud University, Nijmegen, 6500 HB, The Netherlands.; Oncode Institute, Radboud University, Nijmegen, 6500 HB, The Netherlands., Foster BM; Institute of Functional Epigenetics, Helmholtz Zentrum München, 85764, Neuherberg, Germany.; MRC London Institute of Medical Sciences (LMS), London, W12 0NN, UK.; Institute of Clinical Sciences (ICS), Faculty of Medicine, Imperial College London, London, W12 0NN, UK., Nguyen NV; MRC London Institute of Medical Sciences (LMS), London, W12 0NN, UK.; Institute of Clinical Sciences (ICS), Faculty of Medicine, Imperial College London, London, W12 0NN, UK., Bartke T; Institute of Functional Epigenetics, Helmholtz Zentrum München, 85764, Neuherberg, Germany. till.bartke@helmholtz-muenchen.de.; MRC London Institute of Medical Sciences (LMS), London, W12 0NN, UK. till.bartke@helmholtz-muenchen.de.; Institute of Clinical Sciences (ICS), Faculty of Medicine, Imperial College London, London, W12 0NN, UK. till.bartke@helmholtz-muenchen.de., Vermeulen M; Department of Molecular Biology, Radboud Institute for Molecular Life Sciences, Radboud University, Nijmegen, 6500 HB, The Netherlands. michiel.vermeulen@science.ru.nl.; Oncode Institute, Radboud University, Nijmegen, 6500 HB, The Netherlands. michiel.vermeulen@science.ru.nl.

Publikováno v: Nature communications [Nat Commun] 2018 Apr 25; Vol. 9 (1), pp. 1653. Date of Electronic Publication: 2018 Apr 25.

SDHD Promoter Mutations Ablate GABP Transcription Factor Binding in Melanoma.

Autor: Zhang T; Laboratory of Translational Genomics, Division of Cancer Epidemiology and Genetics, NCI, NIH, Bethesda, Maryland., Xu M; Laboratory of Translational Genomics, Division of Cancer Epidemiology and Genetics, NCI, NIH, Bethesda, Maryland., Makowski MM; Radboud Institute of Molecular Life Sciences, Radboud University Nijmegen, Nijmegen, the Netherlands., Lee C; Laboratory of Translational Genomics, Division of Cancer Epidemiology and Genetics, NCI, NIH, Bethesda, Maryland., Kovacs M; Laboratory of Translational Genomics, Division of Cancer Epidemiology and Genetics, NCI, NIH, Bethesda, Maryland., Fang J; Laboratory of Translational Genomics, Division of Cancer Epidemiology and Genetics, NCI, NIH, Bethesda, Maryland., Willems E; Radboud Institute of Molecular Life Sciences, Radboud University Nijmegen, Nijmegen, the Netherlands., Trent JM; The Translational Genomics Research Institute (TGen), Phoenix, Arizona., Hayward NK; QIMR Berghofer Medical Research Institute, Brisbane, Queensland, Australia., Vermeulen M; Radboud Institute of Molecular Life Sciences, Radboud University Nijmegen, Nijmegen, the Netherlands. Kevin.Brown3@nih.gov M.Vermeulen@ncmls.ru.nl., Brown KM; Laboratory of Translational Genomics, Division of Cancer Epidemiology and Genetics, NCI, NIH, Bethesda, Maryland. Kevin.Brown3@nih.gov M.Vermeulen@ncmls.ru.nl.

Publikováno v: Cancer research [Cancer Res] 2017 Apr 01; Vol. 77 (7), pp. 1649-1661. Date of Electronic Publication: 2017 Jan 20.

The dynamic interactome and genomic targets of Polycomb complexes during stem-cell differentiation.

Autor: Kloet SL; Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Radboud University Nijmegen, The Netherlands., Makowski MM; Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Radboud University Nijmegen, The Netherlands., Baymaz HI; Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Radboud University Nijmegen, The Netherlands., van Voorthuijsen L; Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Radboud University Nijmegen, The Netherlands., Karemaker ID; Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Radboud University Nijmegen, The Netherlands., Santanach A; Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology, Barcelona, Spain.; Department of Biomedical Genetics, Universitat Pompeu Fabra (UPF), Barcelona, Spain., Jansen PWTC; Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Radboud University Nijmegen, The Netherlands., Di Croce L; Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology, Barcelona, Spain.; Department of Biomedical Genetics, Universitat Pompeu Fabra (UPF), Barcelona, Spain.; Institució Catalana de Recerca i Estudis Avançats, Barcelona, Spain., Vermeulen M; Department of Molecular Biology, Faculty of Science, Radboud Institute for Molecular Life Sciences, Radboud University Nijmegen, The Netherlands.; Cancer GenomiCs.nl (CGC.nl) Consortium, Center for Molecular Medicine, UMC Utrecht, The Netherlands.

Publikováno v: Nature structural & molecular biology [Nat Struct Mol Biol] 2016 Jul; Vol. 23 (7), pp. 682-690. Date of Electronic Publication: 2016 Jun 13.