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FältnamnIndikatorerMetadata
00022488naa a2201477 4500
001oai:DiVA.org:kth-331444
003SwePub
008230710s2023 | |||||||||||000 ||eng|
024a https://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-3314442 URI
024a https://doi.org/10.1038/s41591-023-02327-22 DOI
040 a (SwePub)kth
041 a engb eng
042 9 SwePub
072 7a ref2 swepub-contenttype
072 7a art2 swepub-publicationtype
100a Sikkema, Lisau Department of Computational Health, Institute of Computational Biology, Helmholtz Center Munich, Munich, Germany; TUM School of Life Sciences, Technical University of Munich, Munich, Germany4 aut
2451 0a An integrated cell atlas of the lung in health and disease
264 1b Springer Nature,c 2023
338 a print2 rdacarrier
500 a QC 20230710
520 a Single-cell technologies have transformed our understanding of human tissues. Yet, studies typically capture only a limited number of donors and disagree on cell type definitions. Integrating many single-cell datasets can address these limitations of individual studies and capture the variability present in the population. Here we present the integrated Human Lung Cell Atlas (HLCA), combining 49 datasets of the human respiratory system into a single atlas spanning over 2.4 million cells from 486 individuals. The HLCA presents a consensus cell type re-annotation with matching marker genes, including annotations of rare and previously undescribed cell types. Leveraging the number and diversity of individuals in the HLCA, we identify gene modules that are associated with demographic covariates such as age, sex and body mass index, as well as gene modules changing expression along the proximal-to-distal axis of the bronchial tree. Mapping new data to the HLCA enables rapid data annotation and interpretation. Using the HLCA as a reference for the study of disease, we identify shared cell states across multiple lung diseases, including SPP1 + profibrotic monocyte-derived macrophages in COVID-19, pulmonary fibrosis and lung carcinoma. Overall, the HLCA serves as an example for the development and use of large-scale, cross-dataset organ atlases within the Human Cell Atlas.
650 7a MEDICIN OCH HÄLSOVETENSKAPx Medicinska och farmaceutiska grundvetenskaperx Medicinsk genetik0 (SwePub)301072 hsv//swe
650 7a MEDICAL AND HEALTH SCIENCESx Basic Medicinex Medical Genetics0 (SwePub)301072 hsv//eng
650 7a MEDICIN OCH HÄLSOVETENSKAPx Medicinska och farmaceutiska grundvetenskaperx Cell- och molekylärbiologi0 (SwePub)301082 hsv//swe
650 7a MEDICAL AND HEALTH SCIENCESx Basic Medicinex Cell and Molecular Biology0 (SwePub)301082 hsv//eng
700a Ramírez-Suástegui, Cirou Department of Computational Health, Institute of Computational Biology, Helmholtz Center Munich, Munich, Germany; La Jolla Institute for Allergy and Immunology, La Jolla, CA, USA, La Jolla4 aut
700a Strobl, Daniel C.u Department of Computational Health, Institute of Computational Biology, Helmholtz Center Munich, Munich, Germany; Institute of Clinical Chemistry and Pathobiochemistry, TUM School of Medicine, Technical University of Munich, Munich, Germany4 aut
700a Gillett, Tessa E.u Experimental Pulmonary and Inflammatory Research, Department of Pathology and Medical Biology, University Medical Centre Groningen, University of Groningen, Groningen, the Netherlands; Groningen Research Institute for Asthma and COPD, University Medical Center Groningen, University of Groningen, Groningen, the Netherlands4 aut
700a Zappia, Lukeu Department of Computational Health, Institute of Computational Biology, Helmholtz Center Munich, Munich, Germany; Department of Mathematics, Technical University of Munich, Garching, Germany4 aut
700a Madissoon, Elou Wellcome Sanger Institute, Hinxton, Cambridge, UK, Cambridge4 aut
700a Markov, Nikolay S.u Division of Pulmonary and Critical Care Medicine, Feinberg School of Medicine, Northwestern University, Chicago, IL, USA4 aut
700a Zaragosi, Laure Emmanuelleu Institut de Pharmacologie Moléculaire et Cellulaire, Université Côte d’Azur and Centre National de la Recherche Scientifique, Valbonne, France4 aut
700a Ji, Yugeu Department of Computational Health, Institute of Computational Biology, Helmholtz Center Munich, Munich, Germany; TUM School of Life Sciences, Technical University of Munich, Munich, Germany4 aut
700a Ansari, Meshalu Department of Computational Health, Institute of Computational Biology, Helmholtz Center Munich, Munich, Germany; Institute of Lung Health and Immunity (a member of the German Center for Lung Research) and Comprehensive Pneumology Center with the CPC-M bioArchive, Helmholtz Center Munich, Munich, Germany4 aut
700a Arguel, Marie Jeanneu Institut de Pharmacologie Moléculaire et Cellulaire, Université Côte d’Azur and Centre National de la Recherche Scientifique, Valbonne, France4 aut
700a Apperloo, Leonieu Groningen Research Institute for Asthma and COPD, University Medical Center Groningen, University of Groningen, Groningen, the Netherlands; Department of Pathology and Medical Biology, University Medical Center Groningen, University of Groningen, Groningen, the Netherlands4 aut
700a Banchero, Martinu Groningen Research Institute for Asthma and COPD, University Medical Center Groningen, University of Groningen, Groningen, the Netherlands; Department of Pathology and Medical Biology, University Medical Center Groningen, University of Groningen, Groningen, the Netherlands4 aut
700a Bécavin, Christopheu Institut de Pharmacologie Moléculaire et Cellulaire, Université Côte d’Azur and Centre National de la Recherche Scientifique, Valbonne, France4 aut
700a Berg, Marijnu Groningen Research Institute for Asthma and COPD, University Medical Center Groningen, University of Groningen, Groningen, the Netherlands; Department of Pathology and Medical Biology, University Medical Center Groningen, University of Groningen, Groningen, the Netherlands4 aut
700a Chichelnitskiy, Evgenyu Institute for Transplant Immunology, Hannover Medical School, Hannover, Germany4 aut
700a Chung, Mei i.u Translational Genomics Research Institute, Phoenix, AZ, USA4 aut
700a Collin, Antoineu Institut de Pharmacologie Moléculaire et Cellulaire, Université Côte d’Azur and Centre National de la Recherche Scientifique, Valbonne, France; 3IA Côte d’Azur, Nice, France4 aut
700a Gay, Aurore C.A.u Groningen Research Institute for Asthma and COPD, University Medical Center Groningen, University of Groningen, Groningen, the Netherlands; Department of Pathology and Medical Biology, University Medical Center Groningen, University of Groningen, Groningen, the Netherlands4 aut
700a Gote-Schniering, Janineu Institute of Lung Health and Immunity (a member of the German Center for Lung Research) and Comprehensive Pneumology Center with the CPC-M bioArchive, Helmholtz Center Munich, Munich, Germany4 aut
700a Hooshiar Kashani, Baharaku Institute of Lung Health and Immunity (a member of the German Center for Lung Research) and Comprehensive Pneumology Center with the CPC-M bioArchive, Helmholtz Center Munich, Munich, Germany4 aut
700a Inecik, Kemalu Department of Computational Health, Institute of Computational Biology, Helmholtz Center Munich, Munich, Germany; TUM School of Life Sciences, Technical University of Munich, Munich, Germany4 aut
700a Jain, Manuu Division of Pulmonary and Critical Care Medicine, Feinberg School of Medicine, Northwestern University, Chicago, IL, USA4 aut
700a Kapellos, Theodore S.u Institute of Lung Health and Immunity (a member of the German Center for Lung Research) and Comprehensive Pneumology Center with the CPC-M bioArchive, Helmholtz Center Munich, Munich, Germany; Department of Genomics and Immunoregulation, Life and Medical Sciences Institute, University of Bonn, Bonn, Germany4 aut
700a Kole, Tessa M.u Groningen Research Institute for Asthma and COPD, University Medical Center Groningen, University of Groningen, Groningen, the Netherlands; Department of Pulmonary Diseases, University Medical Center Groningen, University of Groningen, Groningen, the Netherlands4 aut
700a Leroy, Sylvieu Pulmonology Department, Fédération Hospitalo-Universitaire OncoAge, Centre Hospitalier Universitaire de Nice, Université Côte d’Azur, Nice, France4 aut
700a Mayr, Christoph H.u Institute of Lung Health and Immunity (a member of the German Center for Lung Research) and Comprehensive Pneumology Center with the CPC-M bioArchive, Helmholtz Center Munich, Munich, Germany4 aut
700a Oliver, Amanda J.u Wellcome Sanger Institute, Hinxton, Cambridge, UK, Cambridge4 aut
700a von Papen, Michaelu Research, Development and Innovation, Comma Soft, Bonn, Germany4 aut
700a Peter, Lanceu Translational Genomics Research Institute, Phoenix, AZ, USA4 aut
700a Taylor, Chase J.u Division of Allergy, Pulmonary, and Critical Care Medicine, Department of Medicine, Vanderbilt University Medical Center, Nashville, TN, USA4 aut
700a Walzthoeni, Thomasu Core Facility Genomics, Helmholtz Center Munich, Munich, Germany4 aut
700a Xu, Chuanu Wellcome Sanger Institute, Hinxton, Cambridge, UK, Cambridge4 aut
700a Bui, Linh T.u Translational Genomics Research Institute, Phoenix, AZ, USA4 aut
700a De Donno, Carlou Department of Computational Health, Institute of Computational Biology, Helmholtz Center Munich, Munich, Germany4 aut
700a Dony, Leanderu Department of Computational Health, Institute of Computational Biology, Helmholtz Center Munich, Munich, Germany; TUM School of Life Sciences, Technical University of Munich, Munich, Germany; Department of Translational Psychiatry, Max Planck Institute of Psychiatry and International Max Planck Research School for Translational Psychiatry, Munich, Germany4 aut
700a Faiz, Alenu Groningen Research Institute for Asthma and COPD, University Medical Center Groningen, University of Groningen, Groningen, the Netherlands; School of Life Sciences, Respiratory Bioinformatics and Molecular Biology, University of Technology Sydney, Sydney, Australia4 aut
700a Guo, Minzheu Division of Neonatology and Pulmonary Biology, Cincinnati Children’s Hospital Medical Center, University of Cincinnati College of Medicine, Cincinnati, OH, USA; Department of Pediatrics, University of Cincinnati College of Medicine, Cincinnati, OH, US4 aut
700a Gutierrez, Austin J.u Translational Genomics Research Institute, Phoenix, AZ, USA4 aut
700a Heumos, Lukasu Department of Computational Health, Institute of Computational Biology, Helmholtz Center Munich, Munich, Germany; TUM School of Life Sciences, Technical University of Munich, Munich, Germany; Institute of Lung Health and Immunity (a member of the German Center for Lung Research) and Comprehensive Pneumology Center with the CPC-M bioArchive, Helmholtz Center Munich, Munich, Germany4 aut
700a Huang, Niu Wellcome Sanger Institute, Hinxton, Cambridge, UK, Cambridge4 aut
700a Ibarra, Ignacio L.u Department of Computational Health, Institute of Computational Biology, Helmholtz Center Munich, Munich, Germany4 aut
700a Jackson, Nathan D.u Center for Genes, Environment, and Health, National Jewish Health, Denver, CO, USA4 aut
700a Kadur Lakshminarasimha Murthy, Preetishu Department of Cell Biology, Duke University School of Medicine, Durham, NC, USA; Department of Pharmacology and Regenerative Medicine, University of Illinois Chicago, Chicago, IL, USA4 aut
700a Lotfollahi, Mohammadu Department of Computational Health, Institute of Computational Biology, Helmholtz Center Munich, Munich, Germany; Wellcome Sanger Institute, Hinxton, Cambridge, UK, Cambridge4 aut
700a Tabib, Tracyu Division of Rheumatology and Clinical Immunology, Department of Medicine, University of Pittsburgh, Pittsburgh, PA, USA4 aut
700a Talavera-López, Carlosu Department of Computational Health, Institute of Computational Biology, Helmholtz Center Munich, Munich, Germany; Division of Infectious Diseases and Tropical Medicine, Klinikum der Lüdwig-Maximilians-Universität, Munich, Germany4 aut
700a Travaglini, Kyle J.u Department of Biochemistry, Stanford University School of Medicine, Stanford, CA, USA; Howard Hughes Medical Institute, Chevy Chase, MD, USA; Allen Institute for Brain Science, Seattle, WA, USA4 aut
700a Wilbrey-Clark, Annau Wellcome Sanger Institute, Hinxton, Cambridge, UK, Cambridge4 aut
700a Worlock, Kaylee B.u Department of Respiratory Medicine, Division of Medicine, University College London, London, UK4 aut
700a Yoshida, Masahirou Department of Respiratory Medicine, Division of Medicine, University College London, London, UK4 aut
700a Chen, Yuexinu Institute of Lung Health and Immunity (a member of the German Center for Lung Research) and Comprehensive Pneumology Center with the CPC-M bioArchive, Helmholtz Center Munich, Munich, Germany4 aut
700a Hagood, James S.u Department of Pediatrics (Pulmonology), University of North Carolina at Chapel Hill, Chapel Hill, NC, USA4 aut
700a Agami, Ahmedu Institute of Lung Health and Immunity (a member of the German Center for Lung Research) and Comprehensive Pneumology Center with the CPC-M bioArchive, Helmholtz Center Munich, Munich, Germany4 aut
700a Horvath, Peteru Biological Research Centre, Szeged, Hungary; Institute for Molecular Medicine Finland, University of Helsinki, Helsinki, Finland4 aut
700a Lundeberg, Joakimu KTH,Genteknologi4 aut0 (Swepub:kth)u1qkn9kw
700a Marquette, Charles Hugou Pulmonology Department, Fédération Hospitalo-Universitaire OncoAge, Centre Hospitalier Universitaire de Nice, Université Côte d’Azur, Nice, France4 aut
700a Pryhuber, Gloriau Department of Pediatrics, University of Rochester Medical Center, Rochester, NY, USA4 aut
700a Samakovlis, Chistosu Lab and Department of Molecular Bioscience, Stockholm University, Stockholm, Sweden4 aut
700a Sun, Xinu University of California, San Diego, La Jolla, CA, USA, La Jolla4 aut
700a Ware, Lorraine B.u Division of Allergy, Pulmonary, and Critical Care Medicine, Department of Medicine, Vanderbilt University Medical Center, Nashville, TN, USA4 aut
700a Zhang, Kunu University of California, San Diego, La Jolla, CA, USA, La Jolla4 aut
700a van den Berge, Maartenu Groningen Research Institute for Asthma and COPD, University Medical Center Groningen, University of Groningen, Groningen, the Netherlands; Department of Pulmonary Diseases, University Medical Center Groningen, University of Groningen, Groningen, the Netherlands4 aut
700a Bossé, Yohanu Institut Universitaire de Cardiologie et de Pneumologie de Québec, Department of Molecular Medicine, Laval University, Quebec City, Quebec, Canada4 aut
700a Desai, Tushar J.u Department of Medicine, Stanford University School of Medicine, Stanford, CA, USA4 aut
700a Eickelberg, Oliveru Division of Pulmonary, Allergy, and Critical Care Medicine, University of Pittsburgh, Pittsburgh, PA, USA4 aut
700a Kaminski, Naftaliu Pulmonary, Critical Care and Sleep Medicine, Yale School of Medicine, New Haven, CT, USA4 aut
700a Krasnow, Mark A.u Department of Biochemistry, Stanford University School of Medicine, Stanford, CA, USA; Howard Hughes Medical Institute, Chevy Chase, MD, USA4 aut
700a Lafyatis, Robertu Division of Rheumatology and Clinical Immunology, Department of Medicine, University of Pittsburgh, Pittsburgh, PA, USA4 aut
700a Nikolic, Marko Z.u Department of Respiratory Medicine, Division of Medicine, University College London, London, UK4 aut
700a Powell, Joseph E.u Garvan Institute of Medical Research, Sydney, New South Wales, Australia; Cellular Genomics Futures Institute, University of New South Wales, Sydney, New South Wales, Australia4 aut
700a Rajagopal, Jayaraju Center for Regenerative Medicine, Massachusetts General Hospital, Harvard Medical School, Cambridge, MA, USA4 aut
700a Rojas, Mauriciou Department of Internal Medicine, Division of Pulmonary, Critical Care and Sleep Medicine, The Ohio State University, Columbus, OH, USA4 aut
700a Rozenblatt-Rosen, Oritu Klarman Cell Observatory, Broad Institute of Harvard and MIT, Cambridge, MA, USA; Cellular and Tissue Genomics, Genentech, South San Francisco, CA, USA4 aut
700a Seibold, Max A.u Center for Genes, Environment, and Health, National Jewish Health, Denver, CO, USA; Department of Pediatrics, National Jewish Health, Denver, CO, USA; Division of Pulmonary Sciences and Critical Care Medicine, University of Colorado School of Medicine, Aurora, CO, USA4 aut
700a Sheppard, Deanu Division of Pulmonary, Critical Care, Allergy and Sleep Medicine, University of California, San Francisco, San Francisco, CA, USA4 aut
700a Shepherd, Douglas P.u Department of Physics and Center for Biological Physics, Arizona State University, Tempe, AZ, USA4 aut
700a Sin, Don D.u Centre for Heart Lung Innovation, St. Paul’s Hospital, University of British Columbia, Vancouver, British Columbia, Canada4 aut
700a Timens, Wimu Groningen Research Institute for Asthma and COPD, University Medical Center Groningen, University of Groningen, Groningen, the Netherlands; Department of Pathology and Medical Biology, University Medical Center Groningen, University of Groningen, Groningen, the Netherlands4 aut
700a Tsankov, Alexander M.u Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, New York, NY, USA4 aut
700a Whitsett, Jeffreyu Division of Neonatology and Pulmonary Biology, Cincinnati Children’s Hospital Medical Center, University of Cincinnati College of Medicine, Cincinnati, OH, USA4 aut
700a Xu, Yanu Division of Neonatology and Pulmonary Biology, Cincinnati Children’s Hospital Medical Center, University of Cincinnati College of Medicine, Cincinnati, OH, USA4 aut
700a Banovich, Nicholas E.u Translational Genomics Research Institute, Phoenix, AZ, USA4 aut
700a Barbry, Pascalu Institut de Pharmacologie Moléculaire et Cellulaire, Université Côte d’Azur and Centre National de la Recherche Scientifique, Valbonne, France; 3IA Côte d’Azur, Nice, France4 aut
700a Duong, Thu Elizabethu Department of Pediatrics, Division of Respiratory Medicine, University of California, San Diego, La Jolla, CA, USA, La Jolla4 aut
700a Falk, Christine S.u Institute for Transplant Immunology, Hannover Medical School, Hannover, Germany4 aut
700a Meyer, Kerstin B.u Wellcome Sanger Institute, Hinxton, Cambridge, UK, Cambridge4 aut
700a Kropski, Jonathan A.u Division of Allergy, Pulmonary, and Critical Care Medicine, Department of Medicine, Vanderbilt University Medical Center, Nashville, TN, USA; Department of Cell and Developmental Biology, Vanderbilt University, Nashville, TN, USA4 aut
700a Pe’er, Danau Howard Hughes Medical Institute, Chevy Chase, MD, USA; Computational and Systems Biology Program, Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center, New York, NY, USA4 aut
700a Schiller, Herbert B.u Institute of Lung Health and Immunity (a member of the German Center for Lung Research) and Comprehensive Pneumology Center with the CPC-M bioArchive, Helmholtz Center Munich, Munich, Germany4 aut
700a Tata, Purushothama Raou Department of Cell Biology, Duke University School of Medicine, Durham, NC, USA4 aut
700a Schultze, Joachim L.u Department of Genomics and Immunoregulation, Life and Medical Sciences Institute, University of Bonn, Bonn, Germany; PRECISE Platform for Single Cell Genomics and Epigenomics, Deutsches Zentrum für Neurodegenerative Erkrankungen and University of Bonn, Bonn, Germany4 aut
700a Teichmann, Sara A.u Wellcome Sanger Institute, Hinxton, Cambridge, UK, Cambridge; Department of Physics, Cavendish Laboratory, University of Cambridge, Cambridge, UK4 aut
700a Misharin, Alexander V.u Division of Pulmonary and Critical Care Medicine, Feinberg School of Medicine, Northwestern University, Chicago, IL, USA4 aut
700a Nawijn, Martijn C.u Groningen Research Institute for Asthma and COPD, University Medical Center Groningen, University of Groningen, Groningen, the Netherlands; Department of Pathology and Medical Biology, University Medical Center Groningen, University of Groningen, Groningen, the Netherlands4 aut
700a Luecken, Malte D.u Department of Computational Health, Institute of Computational Biology, Helmholtz Center Munich, Munich, Germany; Institute of Lung Health and Immunity (a member of the German Center for Lung Research) and Comprehensive Pneumology Center with the CPC-M bioArchive, Helmholtz Center Munich, Munich, Germany4 aut
700a Theis, Fabian J.u Department of Computational Health, Institute of Computational Biology, Helmholtz Center Munich, Munich, Germany; TUM School of Life Sciences, Technical University of Munich, Munich, Germany; Department of Mathematics, Technical University of Munich, Garching, Germany4 aut
710a Department of Computational Health, Institute of Computational Biology, Helmholtz Center Munich, Munich, Germany; TUM School of Life Sciences, Technical University of Munich, Munich, Germanyb Department of Computational Health, Institute of Computational Biology, Helmholtz Center Munich, Munich, Germany; La Jolla Institute for Allergy and Immunology, La Jolla, CA, USA, La Jolla4 org
773t Nature Medicined : Springer Natureg 29:6, s. 1563-1577q 29:6<1563-1577x 1078-8956x 1546-170X
856u https://doi.org/10.1038/s41591-023-02327-2y Fulltext
8564 8u https://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-331444
8564 8u https://doi.org/10.1038/s41591-023-02327-2

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Sikkema, Lisa
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Strobl, Daniel C ...
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Zaragosi, Laure ...
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Ansari, Meshal
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Apperloo, Leonie
Banchero, Martin
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Berg, Marijn
Chichelnitskiy, ...
Chung, Mei i.
Collin, Antoine
Gay, Aurore C.A.
Gote-Schniering, ...
Hooshiar Kashani ...
Inecik, Kemal
Jain, Manu
Kapellos, Theodo ...
Kole, Tessa M.
Leroy, Sylvie
Mayr, Christoph ...
Oliver, Amanda J ...
von Papen, Micha ...
Peter, Lance
Taylor, Chase J.
Walzthoeni, Thom ...
Xu, Chuan
Bui, Linh T.
De Donno, Carlo
Dony, Leander
Faiz, Alen
Guo, Minzhe
Gutierrez, Austi ...
Heumos, Lukas
Huang, Ni
Ibarra, Ignacio ...
Jackson, Nathan ...
Kadur Lakshminar ...
Lotfollahi, Moha ...
Tabib, Tracy
Talavera-López, ...
Travaglini, Kyle ...
Wilbrey-Clark, A ...
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Yoshida, Masahir ...
Chen, Yuexin
Hagood, James S.
Agami, Ahmed
Horvath, Peter
Lundeberg, Joaki ...
Marquette, Charl ...
Pryhuber, Gloria
Samakovlis, Chis ...
Sun, Xin
Ware, Lorraine B ...
Zhang, Kun
van den Berge, M ...
Bossé, Yohan
Desai, Tushar J.
Eickelberg, Oliv ...
Kaminski, Naftal ...
Krasnow, Mark A.
Lafyatis, Robert
Nikolic, Marko Z ...
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Rajagopal, Jayar ...
Rojas, Mauricio
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Seibold, Max A.
Sheppard, Dean
Shepherd, Dougla ...
Sin, Don D.
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Xu, Yan
Banovich, Nichol ...
Barbry, Pascal
Duong, Thu Eliza ...
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