Interspecies regulatory landscapes and elements revealed by novel joint systematic integration of human and mouse blood cell epigenomes.

Autor: Xiang G; Bioinformatics and Genomics Graduate Program, Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, Pennsylvania 16802, USA.; Department of Data Science, Dana-Farber Cancer Institute, Boston, Massachusetts 02215, USA.; Department of Biostatistics, Harvard T.H. Chan School of Public Health, Boston, Massachusetts 02215, USA., He X; Bioinformatics and Genomics Graduate Program, Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, Pennsylvania 16802, USA., Giardine BM; Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania 16802, USA., Isaac KJ; Department of Biology, Johns Hopkins University, Baltimore, Maryland 21218, USA., Taylor DJ; Department of Biology, Johns Hopkins University, Baltimore, Maryland 21218, USA., McCoy RC; Department of Biology, Johns Hopkins University, Baltimore, Maryland 21218, USA., Jansen C; Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania 16802, USA., Keller CA; Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania 16802, USA., Wixom AQ; Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania 16802, USA., Cockburn A; Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania 16802, USA., Miller A; Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania 16802, USA., Qi Q; Department of Hematology, St. Jude Children's Research Hospital, Memphis, Tennessee 38105, USA., He Y; Department of Hematology, St. Jude Children's Research Hospital, Memphis, Tennessee 38105, USA.; Department of Human Nutrition, Food and Animal Sciences, University of Hawaìi at Mānoa, Honolulu, Hawaii 96822, USA., Li Y; Department of Hematology, St. Jude Children's Research Hospital, Memphis, Tennessee 38105, USA., Lichtenberg J; Genetics and Molecular Biology Branch, National Human Genome Research Institute, Bethesda, Maryland 20892, USA., Heuston EF; Genetics and Molecular Biology Branch, National Human Genome Research Institute, Bethesda, Maryland 20892, USA., Anderson SM; Flow Cytometry Core, National Human Genome Research Institute, Bethesda, Maryland 20892, USA., Luan J; Department of Pediatrics, Children's Hospital of Philadelphia, and Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA., Vermunt MW; Department of Pediatrics, Children's Hospital of Philadelphia, and Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA., Yue F; Department of Biochemistry and Molecular Genetics, Feinberg School of Medicine, Northwestern University, Evanston, Illinois 60611, USA., Sauria MEG; Department of Computer Science, Johns Hopkins University, Baltimore, Maryland 21218, USA., Schatz MC; Department of Computer Science, Johns Hopkins University, Baltimore, Maryland 21218, USA., Taylor J; Department of Biology, Johns Hopkins University, Baltimore, Maryland 21218, USA.; Department of Computer Science, Johns Hopkins University, Baltimore, Maryland 21218, USA., Göttgens B; Wellcome and MRC Cambridge Stem Cell Institute, University of Cambridge, Cambridge CB2 0AW, United Kingdom., Hughes JR; MRC Weatherall Institute of Molecular Medicine, Oxford University, Oxford OX3 9DS, United Kingdom., Higgs DR; MRC Weatherall Institute of Molecular Medicine, Oxford University, Oxford OX3 9DS, United Kingdom., Weiss MJ; Department of Hematology, St. Jude Children's Research Hospital, Memphis, Tennessee 38105, USA., Cheng Y; Department of Hematology, St. Jude Children's Research Hospital, Memphis, Tennessee 38105, USA., Blobel GA; Department of Pediatrics, Children's Hospital of Philadelphia, and Perelman School of Medicine, University of Pennsylvania, Philadelphia, Pennsylvania 19104, USA., Bodine DM; Genetics and Molecular Biology Branch, National Human Genome Research Institute, Bethesda, Maryland 20892, USA., Zhang Y; Department of Statistics, The Pennsylvania State University, University Park, Pennsylvania 16802, USA., Li Q; Department of Statistics, The Pennsylvania State University, University Park, Pennsylvania 16802, USA.; Center for Computational Biology and Bioinformatics, Genome Sciences Institute, Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, Pennsylvania 16802, USA., Mahony S; Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania 16802, USA.; Center for Computational Biology and Bioinformatics, Genome Sciences Institute, Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, Pennsylvania 16802, USA.; Center for Eukaryotic Gene Regulation, The Pennsylvania State University, University Park, Pennsylvania 16802, USA., Hardison RC; Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania 16802, USA; rch8@psu.edu.; Center for Computational Biology and Bioinformatics, Genome Sciences Institute, Huck Institutes of the Life Sciences, The Pennsylvania State University, University Park, Pennsylvania 16802, USA.; Center for Eukaryotic Gene Regulation, The Pennsylvania State University, University Park, Pennsylvania 16802, USA.

Publikováno v: Genome research [Genome Res] 2024 Aug 20; Vol. 34 (7), pp. 1089-1105. Date of Electronic Publication: 2024 Aug 20.

Universal genome-wide association studies: Powerful joint ancestry and association testing.

Autor: Shriner D; Center for Research on Genomics and Global Health, National Human Genome Research Institute, Bethesda, MD 20892, USA., Bentley AR; Center for Research on Genomics and Global Health, National Human Genome Research Institute, Bethesda, MD 20892, USA., Gouveia MH; Center for Research on Genomics and Global Health, National Human Genome Research Institute, Bethesda, MD 20892, USA., Heuston EF; Center for Research on Genomics and Global Health, National Human Genome Research Institute, Bethesda, MD 20892, USA., Doumatey AP; Center for Research on Genomics and Global Health, National Human Genome Research Institute, Bethesda, MD 20892, USA., Chen G; Center for Research on Genomics and Global Health, National Human Genome Research Institute, Bethesda, MD 20892, USA., Zhou J; Center for Research on Genomics and Global Health, National Human Genome Research Institute, Bethesda, MD 20892, USA., Adeyemo A; Center for Research on Genomics and Global Health, National Human Genome Research Institute, Bethesda, MD 20892, USA., Rotimi CN; Center for Research on Genomics and Global Health, National Human Genome Research Institute, Bethesda, MD 20892, USA. Electronic address: rotimic@mail.nih.gov.

Publikováno v: HGG advances [HGG Adv] 2023 Oct 12; Vol. 4 (4), pp. 100235. Date of Electronic Publication: 2023 Aug 30.

"Stripe" transcription factors provide accessibility to co-binding partners in mammalian genomes.

Autor: Zhao Y; The NIH Regulome Project, National Institutes of Health, Bethesda, MD 20892, USA; Lymphocyte Nuclear Biology, NIAMS-NCI, NIH, Bethesda, MD 20892, USA. Electronic address: im@ybzhao.com., Vartak SV; The NIH Regulome Project, National Institutes of Health, Bethesda, MD 20892, USA; Lymphocyte Nuclear Biology, NIAMS-NCI, NIH, Bethesda, MD 20892, USA., Conte A; The NIH Regulome Project, National Institutes of Health, Bethesda, MD 20892, USA; Lymphocyte Nuclear Biology, NIAMS-NCI, NIH, Bethesda, MD 20892, USA., Wang X; The NIH Regulome Project, National Institutes of Health, Bethesda, MD 20892, USA; Lymphocyte Nuclear Biology, NIAMS-NCI, NIH, Bethesda, MD 20892, USA., Garcia DA; Laboratory of Receptor Biology and Gene Expression, NCI, NIH, Bethesda, MD 20893, USA; Department of Physics, University of Maryland, College Park, MD 20742, USA., Stevens E; Lymphocyte Nuclear Biology, NIAMS-NCI, NIH, Bethesda, MD 20892, USA., Kyoung Jung S; The NIH Regulome Project, National Institutes of Health, Bethesda, MD 20892, USA; Lymphocyte Nuclear Biology, NIAMS-NCI, NIH, Bethesda, MD 20892, USA., Kieffer-Kwon KR; Lymphocyte Nuclear Biology, NIAMS-NCI, NIH, Bethesda, MD 20892, USA., Vian L; Lymphocyte Nuclear Biology, NIAMS-NCI, NIH, Bethesda, MD 20892, USA., Stodola T; Genomic Sciences and Precision Medicine Center (GSPMC), Medical College of Wisconsin, Milwaukee, WI 53226, USA., Moris F; EntreChem S.L., Vivero Ciencias de la Salud, 33011 Oviedo, Spain., Chopp L; Laboratory of Immune Cell Biology, NCI, NIH, Bethesda, MD 20892, USA., Preite S; Laboratory of Immune System Biology, NIAID, NIH, Bethesda, MD 20892, USA., Schwartzberg PL; Laboratory of Immune System Biology, NIAID, NIH, Bethesda, MD 20892, USA., Kulinski JM; Mast cell Biology Section, Laboratory of Allergic Diseases, NIAID, NIH, Bethesda, MD 20892, USA., Olivera A; Mast cell Biology Section, Laboratory of Allergic Diseases, NIAID, NIH, Bethesda, MD 20892, USA., Harly C; Laboratory of Genome Integrity, NCI, NIH, Bethesda, MD 20892, USA., Bhandoola A; Laboratory of Genome Integrity, NCI, NIH, Bethesda, MD 20892, USA., Heuston EF; Genetics and Molecular Biology Branch, NHGRI, NIH, Bethesda, MD 20892, USA., Bodine DM; Genetics and Molecular Biology Branch, NHGRI, NIH, Bethesda, MD 20892, USA., Urrutia R; Genomic Sciences and Precision Medicine Center (GSPMC), Medical College of Wisconsin, Milwaukee, WI 53226, USA., Upadhyaya A; Department of Physics, University of Maryland, College Park, MD 20742, USA., Weirauch MT; Divisions of Biomedical Informatics and Developmental Biology, Center for Autoimmune Genomics and Etiology (CAGE), Cincinnati Children's Hospital Medical Center, Cincinnati, OH 45229, USA; Department of Pediatrics, University of Cincinnati College of Medicine, Cincinnati, OH 45229, USA., Hager G; Laboratory of Receptor Biology and Gene Expression, NCI, NIH, Bethesda, MD 20893, USA., Casellas R; The NIH Regulome Project, National Institutes of Health, Bethesda, MD 20892, USA; Lymphocyte Nuclear Biology, NIAMS-NCI, NIH, Bethesda, MD 20892, USA. Electronic address: rcasellas@mdanderson.org.

Publikováno v: Molecular cell [Mol Cell] 2022 Sep 15; Vol. 82 (18), pp. 3398-3411.e11. Date of Electronic Publication: 2022 Jul 20.

Single-cell profiling of human bone marrow progenitors reveals mechanisms of failing erythropoiesis in Diamond-Blackfan anemia.

Autor: Iskander D; Centre for Haematology, Department of Immunology and Inflammation, Imperial College London, London W12 0NN, UK., Wang G; Medical Research Council (MRC) Weatherall Institute of Molecular Medicine (WIMM) Centre for Computational Biology, University of Oxford, Oxford OX3 9DS, UK.; Medical Research Council (MRC) Molecular Haematology Unit, MRC Weatherall Institute of Molecular Medicine, NIHR Biomedical Research Centre, University of Oxford, Oxford OX3 9DS, UK., Heuston EF; Hematopoiesis Section, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892-442, USA., Christodoulidou C; Centre for Haematology, Department of Immunology and Inflammation, Imperial College London, London W12 0NN, UK., Psaila B; Medical Research Council (MRC) Molecular Haematology Unit, MRC Weatherall Institute of Molecular Medicine, NIHR Biomedical Research Centre, University of Oxford, Oxford OX3 9DS, UK., Ponnusamy K; Centre for Haematology, Department of Immunology and Inflammation, Imperial College London, London W12 0NN, UK., Ren H; Centre for Haematology, Department of Immunology and Inflammation, Imperial College London, London W12 0NN, UK., Mokhtari Z; Ottawa Hospital Research Institute, 501 Smyth Box 511, Ottawa, ON K1H 8L6, Canada.; Department of Medicine II, Würzburg University Hospital, Interdisciplinary Center for Clinical Research (IZKF), Laboratory for Experimental Stem Cell Transplantation, Würzburg, Germany., Robinson M; Centre for Haematology, Department of Immunology and Inflammation, Imperial College London, London W12 0NN, UK., Chaidos A; Centre for Haematology, Department of Immunology and Inflammation, Imperial College London, London W12 0NN, UK., Trivedi P; Department of Histopathology, Imperial College Healthcare Trust, Du Cane Road, London W12 0HS, UK., Trasanidis N; Centre for Haematology, Department of Immunology and Inflammation, Imperial College London, London W12 0NN, UK., Katsarou A; Centre for Haematology, Department of Immunology and Inflammation, Imperial College London, London W12 0NN, UK., Szydlo R; Centre for Haematology, Department of Immunology and Inflammation, Imperial College London, London W12 0NN, UK., Palii CG; Ottawa Hospital Research Institute, 501 Smyth Box 511, Ottawa, ON K1H 8L6, Canada., Zaidi MH; Centre for Haematology, Department of Immunology and Inflammation, Imperial College London, London W12 0NN, UK., Al-Oqaily Q; Centre for Haematology, Department of Immunology and Inflammation, Imperial College London, London W12 0NN, UK., Caputo VS; Centre for Haematology, Department of Immunology and Inflammation, Imperial College London, London W12 0NN, UK.; School of Applied Sciences, London South Bank University, London SE1 0AA, UK., Roy A; Medical Research Council (MRC) Molecular Haematology Unit, MRC Weatherall Institute of Molecular Medicine, NIHR Biomedical Research Centre, University of Oxford, Oxford OX3 9DS, UK.; Department of Paediatrics, Children's Hospital, John Radcliffe, University of Oxford, Oxford OX3 9DU, UK., Harrington Y; Department of Paediatrics, Imperial College Healthcare Trust, St Mary's Hospital, Praed Street, London W2 1NY, UK., Karnik L; Department of Paediatrics, Imperial College Healthcare Trust, St Mary's Hospital, Praed Street, London W2 1NY, UK., Naresh K; Department of Histopathology, Imperial College Healthcare Trust, Du Cane Road, London W12 0HS, UK., Mead AJ; Medical Research Council (MRC) Molecular Haematology Unit, MRC Weatherall Institute of Molecular Medicine, NIHR Biomedical Research Centre, University of Oxford, Oxford OX3 9DS, UK., Thongjuea S; Medical Research Council (MRC) Weatherall Institute of Molecular Medicine (WIMM) Centre for Computational Biology, University of Oxford, Oxford OX3 9DS, UK., Brand M; Ottawa Hospital Research Institute, 501 Smyth Box 511, Ottawa, ON K1H 8L6, Canada.; Department of Cellular and Molecular Medicine, University of Ottawa, 501 Smyth Road, Ottawa, ON K1H 8L6, Canada., de la Fuente J; Centre for Haematology, Department of Immunology and Inflammation, Imperial College London, London W12 0NN, UK.; Department of Paediatrics, Imperial College Healthcare Trust, St Mary's Hospital, Praed Street, London W2 1NY, UK., Bodine DM; Hematopoiesis Section, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892-442, USA., Roberts I; Medical Research Council (MRC) Molecular Haematology Unit, MRC Weatherall Institute of Molecular Medicine, NIHR Biomedical Research Centre, University of Oxford, Oxford OX3 9DS, UK.; Department of Paediatrics, Children's Hospital, John Radcliffe, University of Oxford, Oxford OX3 9DU, UK., Karadimitris A; Centre for Haematology, Department of Immunology and Inflammation, Imperial College London, London W12 0NN, UK.

Publikováno v: Science translational medicine [Sci Transl Med] 2021 Sep 08; Vol. 13 (610), pp. eabf0113. Date of Electronic Publication: 2021 Sep 08.

Single-Cell Analyses Reveal Megakaryocyte-Biased Hematopoiesis in Myelofibrosis and Identify Mutant Clone-Specific Targets.

Autor: Psaila B; Haematopoietic Stem Cell Biology Laboratory, Medical Research Council (MRC) Weatherall Institute of Molecular Medicine (WIMM), University of Oxford, Oxford OX3 9DS, UK; MRC Molecular Haematology Unit, MRC WIMM, University of Oxford, Oxford OX3 9DS, UK; NIHR Biomedical Research Centre, University of Oxford, Oxford OX4 2PG, UK; Hematopoiesis Section, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892-4442, USA. Electronic address: bethan.psaila@ndcls.ox.ac.uk., Wang G; Haematopoietic Stem Cell Biology Laboratory, Medical Research Council (MRC) Weatherall Institute of Molecular Medicine (WIMM), University of Oxford, Oxford OX3 9DS, UK; MRC Molecular Haematology Unit, MRC WIMM, University of Oxford, Oxford OX3 9DS, UK; NIHR Biomedical Research Centre, University of Oxford, Oxford OX4 2PG, UK; MRC WIMM Centre for Computational Biology, MRC WIMM, University of Oxford, Oxford OX3 9DS, UK., Rodriguez-Meira A; Haematopoietic Stem Cell Biology Laboratory, Medical Research Council (MRC) Weatherall Institute of Molecular Medicine (WIMM), University of Oxford, Oxford OX3 9DS, UK; MRC Molecular Haematology Unit, MRC WIMM, University of Oxford, Oxford OX3 9DS, UK; NIHR Biomedical Research Centre, University of Oxford, Oxford OX4 2PG, UK; MRC WIMM Centre for Computational Biology, MRC WIMM, University of Oxford, Oxford OX3 9DS, UK., Li R; Haematopoietic Stem Cell Biology Laboratory, Medical Research Council (MRC) Weatherall Institute of Molecular Medicine (WIMM), University of Oxford, Oxford OX3 9DS, UK; MRC Molecular Haematology Unit, MRC WIMM, University of Oxford, Oxford OX3 9DS, UK; NIHR Biomedical Research Centre, University of Oxford, Oxford OX4 2PG, UK., Heuston EF; Hematopoiesis Section, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892-4442, USA., Murphy L; Haematopoietic Stem Cell Biology Laboratory, Medical Research Council (MRC) Weatherall Institute of Molecular Medicine (WIMM), University of Oxford, Oxford OX3 9DS, UK; MRC Molecular Haematology Unit, MRC WIMM, University of Oxford, Oxford OX3 9DS, UK; NIHR Biomedical Research Centre, University of Oxford, Oxford OX4 2PG, UK., Yee D; York Biomedical Research Institute and Department of Biology, University of York, Heslington, York YO10 5DD, UK., Hitchcock IS; York Biomedical Research Institute and Department of Biology, University of York, Heslington, York YO10 5DD, UK., Sousos N; Haematopoietic Stem Cell Biology Laboratory, Medical Research Council (MRC) Weatherall Institute of Molecular Medicine (WIMM), University of Oxford, Oxford OX3 9DS, UK; MRC Molecular Haematology Unit, MRC WIMM, University of Oxford, Oxford OX3 9DS, UK; NIHR Biomedical Research Centre, University of Oxford, Oxford OX4 2PG, UK., O'Sullivan J; Haematopoietic Stem Cell Biology Laboratory, Medical Research Council (MRC) Weatherall Institute of Molecular Medicine (WIMM), University of Oxford, Oxford OX3 9DS, UK; MRC Molecular Haematology Unit, MRC WIMM, University of Oxford, Oxford OX3 9DS, UK; NIHR Biomedical Research Centre, University of Oxford, Oxford OX4 2PG, UK., Anderson S; NHGRI Flow Cytometry Core, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892-4442, USA., Senis YA; Institut National de la Santé et de la Recherche Médicale Unité Mixte de Recherche-S 1255, Etablissement Français du Sang Grand Est, Strasbourg 67065, France., Weinberg OK; Department of Pathology, Boston Children's Hospital, Boston, MA 02115, USA., Calicchio ML; Department of Pathology, Boston Children's Hospital, Boston, MA 02115, USA., Iskander D; Centre for Haematology, Hammersmith Hospital, Imperial College of Medicine, London W12 OHS, UK., Royston D; Nuffield Division of Clinical Laboratory Sciences, Radcliffe Department of Medicine, University of Oxford, Oxford OX3 9DS, UK., Milojkovic D; Centre for Haematology, Hammersmith Hospital, Imperial College of Medicine, London W12 OHS, UK., Roberts I; MRC Molecular Haematology Unit, MRC WIMM, University of Oxford, Oxford OX3 9DS, UK; NIHR Biomedical Research Centre, University of Oxford, Oxford OX4 2PG, UK; Department of Paediatrics, University of Oxford, Oxford OX3 9DU, UK., Bodine DM; Hematopoiesis Section, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892-4442, USA., Thongjuea S; NIHR Biomedical Research Centre, University of Oxford, Oxford OX4 2PG, UK; MRC WIMM Centre for Computational Biology, MRC WIMM, University of Oxford, Oxford OX3 9DS, UK. Electronic address: supat.thongjuea@imm.ox.ac.uk., Mead AJ; Haematopoietic Stem Cell Biology Laboratory, Medical Research Council (MRC) Weatherall Institute of Molecular Medicine (WIMM), University of Oxford, Oxford OX3 9DS, UK; MRC Molecular Haematology Unit, MRC WIMM, University of Oxford, Oxford OX3 9DS, UK; NIHR Biomedical Research Centre, University of Oxford, Oxford OX4 2PG, UK. Electronic address: adam.mead@imm.ox.ac.uk.

Publikováno v: Molecular cell [Mol Cell] 2020 May 07; Vol. 78 (3), pp. 477-492.e8.