Single-cell meta-analysis of SARS-CoV-2 entry genes across tissues and demographics

Autor: Muus, C, Luecken, MD, Eraslan, G, Sikkema, L, Waghray, A, Heimberg, G, Kobayashi, Y, Vaishnav, ED, Subramanian, A, Smillie, C, Jagadeesh, KA, Duong, ET, Fiskin, E, Triglia, ET, Ansari, M, Cai, P, Lin, B, Buchanan, J, Chen, S, Shu, J, Haber, AL, Chung, H, Montoro, DT, Adams, T, Aliee, H, Allon, SJ, Andrusivova, Z, Angelidis, I, Ashenberg, O, Bassler, K, Bécavin, C, Benhar, I, Bergenstråhle, J, Bergenstråhle, L, Bolt, L, Braun, E, Bui, LT, Callori, S, Chaffin, M, Chichelnitskiy, E, Chiou, J, Conlon, TM, Cuoco, MS, Cuomo, ASE, Deprez, M, Duclos, G, Fine, D, Fischer, DS, Ghazanfar, S, Gillich, A, Giotti, B, Gould, J, Guo, M, Gutierrez, AJ, Habermann, AC, Harvey, T, He, P, Hou, X, Hu, L, Hu, Y, Jaiswal, A, Ji, L, Jiang, P, Kapellos, TS, Kuo, CS, Larsson, L, Leney-Greene, MA, Lim, K, Litviňuková, M, Ludwig, LS, Lukassen, S, Luo, W, Maatz, H, Madissoon, E, Mamanova, L, Manakongtreecheep, K, Leroy, S, Mayr, CH, Mbano, IM, McAdams, AM, Nabhan, AN, Nyquist, SK, Penland, L, Poirion, OB, Poli, S, Qi, C, Queen, R, Reichart, D, Rosas, I, Schupp, JC, Shea, CV, Shi, X, Sinha, R, Sit, RV, Slowikowski, K, Slyper, M, Smith, NP, Sountoulidis, A, Strunz, M, Sullivan, TB, Sun, D, Talavera-López, C, Tan, P, Tantivit, J, Travaglini, KJ, Tucker, NR, Vernon, KA, Wadsworth, MH, Waldman, J, Wang, X, Xu, K, Yan, W, Zhao, W, Ziegler, CGK, NHLBI LungMap Consortium, Human Cell Atlas Lung Biological Network

Angiotensin-converting enzyme 2 (ACE2) and accessory proteases (TMPRSS2 and CTSL) are needed for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) cellular entry, and their expression may shed light on viral tropism and impact across the b

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=od_______363::b0bcc85331e84b5df1d0e1898c3be63e
https://hdl.handle.net/10453/152907

Developmental-status-aware transcriptional decomposition establishes a cell state panorama of human cancers.

Autor: Luo, Yikai^1,2,3 (AUTHOR), Liang, Han^1,2,4,5 (AUTHOR) hliang1@mdanderson.org

Publikováno v: Genome Medicine. 10/28/2024, Vol. 16 Issue 1, p1-21. 21p.

Trajectory-centric framework TrajAtlas reveals multi-scale differentiation heterogeneity among cells, genes, and gene modules in osteogenesis.

Autor: Han, Litian¹ (AUTHOR), Ji, Yaoting¹ (AUTHOR), Yu, Yiqian¹ (AUTHOR), Ni, Yueqi¹ (AUTHOR), Zeng, Hao¹ (AUTHOR), Zhang, Xiaoxin¹ (AUTHOR), Liu, Huan^1,2,3 (AUTHOR) liu.huan@whu.edu.cn, Zhang, Yufeng^1,2,3 (AUTHOR) zyf@whu.edu.cn

Publikováno v: PLoS Genetics. 10/22/2024, Vol. 20 Issue 10, p1-34. 34p.

Single-cell meta-analysis of SARS-CoV-2 entry genes across tissues and demographics.

Autor: Muus C; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA. muus@broadinstitute.org.; John A. Paulson School of Engineering and Applied Sciences, Harvard University, Cambridge, MA, USA. muus@broadinstitute.org., Luecken MD; Institute of Computational Biology, Helmholtz Zentrum München, Neuherberg, Germany. malte.luecken@helmholtz-muenchen.de., Eraslan G; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Sikkema L; Institute of Computational Biology, Helmholtz Zentrum München, Neuherberg, Germany., Waghray A; Center for Regenerative Medicine, Massachusetts General Hospital, Boston, MA, USA.; Departments of Internal Medicine and Pediatrics, Pulmonary and Critical Care Unit, Massachusetts General Hospital, Boston, MA, USA.; Harvard Stem Cell Institute, Cambridge, MA, USA., Heimberg G; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Kobayashi Y; Department of Cell Biology, Duke University Medical School, Durham, NC, USA., Vaishnav ED; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA, USA., Subramanian A; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Smillie C; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Jagadeesh KA; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Duong ET; Division of Respiratory Medicine, Department of Pediatrics, University of California, San Diego, La Jolla, CA, USA., Fiskin E; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Torlai Triglia E; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Ansari M; Comprehensive Pneumology Center (CPC)/Institute of Lung Biology and Disease (ILBD), Helmholtz Zentrum München, Member of the German Center for Lung Research (DZL), Munich, Germany.; Institute of Computational Biology, Helmholtz Zentrum München, Munich, Germany., Cai P; Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, New York, NY, USA., Lin B; Departments of Internal Medicine and Pediatrics, Pulmonary and Critical Care Unit, Massachusetts General Hospital, Boston, MA, USA.; Harvard Stem Cell Institute, Cambridge, MA, USA.; Center for Regenerative Medicine, Massachusetts General Hospital, Boston, MA, USA., Buchanan J; Center for Epigenomics, University of California San Diego School of Medicine, La Jolla, CA, USA.; Department of Cellular and Molecular Medicine, University of California San Diego School of Medicine, La Jolla, CA, USA., Chen S; Division of Rheumatology, Inflammation, and Immunity, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, USA., Shu J; Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Whitehead Institute for Biomedical Research, Cambridge, MA, USA., Haber AL; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Department of Environmental Health, Harvard T. H. Chan School of Public Health, Boston, MA, USA., Chung H; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Montoro DT; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Adams T; Pulmonary, Critical Care and Sleep Medicine, Yale University School of Medicine, New Haven, CT, USA., Aliee H; Institute of Computational Biology, Helmholtz Zentrum München, Munich, Germany., Allon SJ; Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Institute for Medical Engineering and Science & Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA, USA.; Ragon Institute of MGH, MIT and Harvard, Cambridge, MA, USA., Andrusivova Z; SciLifeLab, Department of Gene Technology, KTH Royal Institute of Technology, Stockolm, Sweden., Angelidis I; Comprehensive Pneumology Center (CPC)/Institute of Lung Biology and Disease (ILBD), Helmholtz Zentrum München, Member of the German Center for Lung Research (DZL), Munich, Germany., Ashenberg O; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Bassler K; Department for Genomics & Immunoregulation, LIMES-Institute, University of Bonn, Bonn, Germany., Bécavin C; Université Côte d'Azur, CNRS, IPMC, Sophia-Antipolis, France., Benhar I; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Bergenstråhle J; SciLifeLab, Department of Gene Technology, KTH Royal Institute of Technology, Stockolm, Sweden., Bergenstråhle L; SciLifeLab, Department of Gene Technology, KTH Royal Institute of Technology, Stockolm, Sweden., Bolt L; Wellcome Sanger Institute, Hinxton, UK., Braun E; Division of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institute, Stockholm, Sweden., Bui LT; Translational Genomics Research Institute, Phoenix, AZ, USA., Callori S; Department of Medicine, Boston University School of Medicine, Boston, MA, USA.; Bioinformatics Program, Boston University School of Medicine, Boston, MA, USA., Chaffin M; Precision Cardiology Laboratory, The Broad Institute, Cambridge, MA, USA., Chichelnitskiy E; Institute of Transplant Immunology, Hannover Medical School, MHH, Hannover, Germany.; German Center for Infectious Diseases (DZIF), Braunschweig, Germany., Chiou J; Biomedical Sciences Graduate Program, University of California, San Diego, La Jolla, CA, USA., Conlon TM; Comprehensive Pneumology Center (CPC)/Institute of Lung Biology and Disease (ILBD), Helmholtz Zentrum München, Member of the German Center for Lung Research (DZL), Munich, Germany., Cuoco MS; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Cuomo ASE; European Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, UK., Deprez M; Université Côte d'Azur, CNRS, IPMC, Sophia-Antipolis, France., Duclos G; Boston University School of Medicine, Boston, MA, USA., Fine D; Boston University Medical Center, Boston, MA, USA., Fischer DS; Institute of Computational Biology, Helmholtz Zentrum München, Munich, Germany.; TUM School of Life Sciences Weihenstephan, Technical University of Munich, Freising, Germany., Ghazanfar S; Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK., Gillich A; Department of Biochemistry and Wall Center for Pulmonary Vascular Disease, Stanford, CA, USA., Giotti B; Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, New York, NY, USA., Gould J; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Guo M; Divisions of Pulmonary Biology; Perinatal Institute, Cincinnati Children's Hospital Medical Center, Cincinnati, OH, USA., Gutierrez AJ; Translational Genomics Research Institute, Phoenix, AZ, USA., Habermann AC; Division of Allergy, Pulmonary and Critical Care Medicine, Department of Medicine, Vanderbilt University Medical Center, Nashville, TN, USA., Harvey T; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., He P; Wellcome Sanger Institute, Hinxton, UK., Hou X; Center for Epigenomics, University of California-San Diego School of Medicine, La Jolla, CA, USA.; Department of Cellular and Molecular Medicine, University of California-San Diego School of Medicine, La Jolla, CA, USA., Hu L; Division of Molecular Neurobiology, Department of Medical Biochemistry and Biophysics, Karolinska Institute, Stockholm, Sweden., Hu Y; Division of Pulmonary Sciences and Critical Care Medicine, School of Medicine, University of Colorado, Aurora, CO, USA., Jaiswal A; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Ji L; Li Ka Shing Institute of Health Sciences, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong, SAR, China., Jiang P; Li Ka Shing Institute of Health Sciences, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong, SAR, China., Kapellos TS; Genomics and Immunoregulation, Life & Medical Sciences (LIMES) Institute, University of Bonn, Bonn, Germany., Kuo CS; Division of Pulmonary Medicine, Department of Pediatrics, Stanford University, Stanford, CA, USA., Larsson L; SciLifeLab, Department of Gene Technology, KTH Royal Institute of Technology, Stockholm, Sweden., Leney-Greene MA; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Lim K; Gurdon Institute, University of Cambridge, Cambridge, UK., Litviňuková M; Cellular Genetics Programme, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, UK.; Cardiovascular and Metabolic Sciences, Max Delbrück Center for Molecular Medicine in the Helmholtz Association (MDC), Berlin, Germany., Ludwig LS; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Division of Hematology/Oncology, Boston Children's Hospital and Department of Pediatric Oncology, Dana-Farber Cancer Institute, Harvard Medical School, Boston, MA, USA., Lukassen S; Charité-Universitätsmedizin Berlin, corporate member of Freie Universität Berlin, Humboldt-Universität zu Berlin, and Berlin Institute of Health, Berlin, Germany.; Berlin Institute of Health (BIH), Center for Digital Health, Berlin, Germany., Luo W; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Maatz H; Cardiovascular and Metabolic Sciences, Max Delbrück Center for Molecular Medicine in the Helmholtz Association (MDC), Berlin, Germany., Madissoon E; European Molecular Biology Laboratory-European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, UK.; Wellcome Sanger Institute, Cellular Genetics Programme Wellcome Genome Campus, Hinxton, UK., Mamanova L; Wellcome Sanger Institute, Hinxton, UK., Manakongtreecheep K; Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Center for Cancer Research, Department of Medicine, Massachusetts General Hospital, Boston, MA, USA.; Center for Immunology and Inflammatory Diseases, Massachusetts General Hospital, Charlestown, MA, USA., Leroy S; Pulmonology Department, Université Côte d'Azur, CHU Nice, Nice, France.; CNRS, Institut de Pharmacologie Moléculaire et Cellulaire, Sophia-Antipolis, France., Mayr CH; Helmholtz Zentrum München, Institute of Lung Biology and Disease, Group Systems Medicine of Chronic Lung Disease, Member of the German Center for Lung Research (DZL), Munich, Germany., Mbano IM; Africa Health Research Institute, Durban, South Africa.; School of Laboratory Medicine and Medical Sciences, College of Health Sciences, University of Kwazulu Natal, Durban, South Africa., McAdams AM; Department of Ophthalmology, Harvard Medical School and Massachusetts Eye and Ear, Boston, MA, USA., Nabhan AN; Department of Biochemistry and Wall Center for Pulmonary Vascular Disease, Stanford, CA, USA., Nyquist SK; Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Ragon Institute of MGH, MIT and Harvard, Cambridge, MA, USA.; Computational and Systems Biology, CSAIL, Institute for Medical Engineering and Science & Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA, USA., Penland L; Department of Biochemistry and Wall Center for Pulmonary Vascular Disease, Stanford, CA, USA., Poirion OB; Center for Epigenomics, University of California-San Diego School of Medicine, La Jolla, CA, USA.; Department of Cellular and Molecular Medicine, University of California-San Diego School of Medicine, La Jolla, CA, USA., Poli S; Pulmonary, Critical Care and Sleep Medicine, Yale University School of Medicine, New Haven, CT, USA., Qi C; Department of Pediatric Pulmonology and Pediatric Allergology, Beatrix Children's Hospital, University of Groningen, University Medical Center Groningen, Groningen, the Netherlands.; GRIAC Research Institute, University of Groningen, University Medical Center Groningen, Groningen, the Netherlands., Queen R; Biosciences Institute, Faculty of Medical Sciences, Newcastle University, International Centre for Life, Newcastle upon Tyne, UK., Reichart D; Department of Genetics, Harvard Medical School, Boston, MA, USA.; Department of Cardiology, University Heart & Vascular Center, University of Hamburg, Hamburg, Germany., Rosas I; Pulmonary, Critical Care and Sleep Medicine, Yale University School of Medicine, New Haven, CT, USA., Schupp JC; Section of Pulmonary, Critical Care, and Sleep Medicine, Yale University School of Medicine, New Haven, CT, USA., Shea CV; Division of Computational Biomedicine, Department of Medicine, Boston University School of Medicine, Boston, MA, USA., Shi X; Division of Computational Biomedicine, Department of Medicine, Boston University School of Medicine, Boston, MA, USA.; Bioinformatics Program, Boston University, Boston, MA, USA., Sinha R; Institute for Stem Cell Biology and Regenerative Medicine, Stanford Medicine, Stanford, CA, USA., Sit RV; Department of Biochemistry and Wall Center for Pulmonary Vascular Disease, Stanford, CA, USA., Slowikowski K; Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Center for Cancer Research, Department of Medicine, Massachusetts General Hospital, Boston, MA, USA.; Center for Immunology and Inflammatory Diseases, Massachusetts General Hospital, Charlestown, MA, USA., Slyper M; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Smith NP; Center for Immunology and Inflammatory Diseases, Massachusetts General Hospital, Boston, MA, USA., Sountoulidis A; Department of Molecular Biosciences, The Wenner-Gren Institute, Stockholm University, Stockholm, Sweden., Strunz M; Comprehensive Pneumology Center (CPC) and Institute of Lung Biology and Disease (ILBD), Helmholtz Zentrum München, Member of the German Center for Lung Research (DZL), Munich, Germany., Sullivan TB; Lahey Hospital & Medical Center, Burlington, MA, USA., Sun D; Gurdon Institute, University of Cambridge, Cambridge, UK., Talavera-López C; Cellular Genetics Programme, Wellcome Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge, UK., Tan P; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Tantivit J; Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Center for Cancer Research, Department of Medicine, Massachusetts General Hospital, Boston, MA, USA.; Center for Immunology and Inflammatory Diseases, Massachusetts General Hospital, Charlestown, MA, USA., Travaglini KJ; Department of Biochemistry and Wall Center for Pulmonary Vascular Disease, Stanford, CA, USA., Tucker NR; Precision Cardiology Laboratory, The Broad Institute, Cambridge, MA, USA.; Masonic Medical Research Institute, Utica, NY, USA., Vernon KA; Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Department of Medicine, Brigham and Women's Hospital and Harvard Medical School, Boston, MA, USA., Wadsworth MH; Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Ragon Institute of MGH, MIT and Harvard, Cambridge, MA, USA.; Institute for Medical Engineering and Science, Department of Chemistry & Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA, USA., Waldman J; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Wang X; Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, New York, NY, USA., Xu K; Division of Computational Biomedicine, Department of Medicine, Boston University School of Medicine, Boston, MA, USA., Yan W; Center for Brain Science, Harvard University, Cambridge, MA, USA.; Department of Molecular and Cellular Biology, Harvard University, Cambridge, MA, USA., Zhao W; Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, New York, NY, USA., Ziegler CGK; Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Ragon Institute of MGH, MIT and Harvard, Cambridge, MA, USA.; Harvard-MIT Health Sciences and Technology, Institute for Medical Engineering and Science, Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA, USA.

Publikováno v: Nature medicine [Nat Med] 2021 Mar; Vol. 27 (3), pp. 546-559. Date of Electronic Publication: 2021 Mar 02.

Single-cell transcriptomics reveals e-cigarette vapor-induced airway epithelial remodeling and injury.

Autor: Cao, Weitao^1,2,3,4 (AUTHOR), Li, Jia^1,2,5 (AUTHOR), Che, Li^1,2,3,4 (AUTHOR), Yang, Ruixue^1,2,3,4 (AUTHOR), Wu, Zehong⁶ (AUTHOR), Hu, Guoping⁷ (AUTHOR), Zou, Weifeng⁸ (AUTHOR), Zhao, Zehang¹ (AUTHOR), Zhou, Yumin¹ (AUTHOR), Jiang, Xingtao⁶ (AUTHOR), Zhang, Tiejun^1,9 (AUTHOR) zhang_tiejun@gzhmu.edu.cn, Yin, Wenguang^1,2,3,4 (AUTHOR) yin_wenguang@gzhmu.edu.cn, Ran, Pixin^1,2 (AUTHOR) pxran@gzhmu.edu.cn

Publikováno v: Respiratory Research. 9/28/2024, Vol. 25 Issue 1, p1-19. 19p.