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A single-nucleus and spatial transcriptomic atlas of the COVID-19 liver reveals topological, functional, and regenerative organ disruption in patients.

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Title: A single-nucleus and spatial transcriptomic atlas of the COVID-19 liver reveals topological, functional, and regenerative organ disruption in patients.
Authors: Pita-Juarez Y; Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Harvard Medical School, Boston, MA, USA.; Broad Institute of MIT and Harvard, Cambridge, MA, USA., Karagkouni D; Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Harvard Medical School, Boston, MA, USA.; Broad Institute of MIT and Harvard, Cambridge, MA, USA., Kalavros N; Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Spatial Technologies Unit, HMS Initiative for RNA Medicine / Beth Israel Deaconess Medical Center, Boston, MA, USA., Melms JC; Department of Medicine, Division of Hematology/Oncology, Columbia University Irving Medical Center, New York, NY, USA.; Columbia Center for Translational Immunology, New York, NY, USA., Niezen S; Harvard Medical School, Boston, MA, USA.; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Gastroenterology, Hepatology and Nutrition, Beth Israel Deaconess Medical Center, Boston, MA, USA., Delorey TM; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Essene AL; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Endocrinology, Diabetes, and Metabolism, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Boston Nutrition and Obesity Research Center Functional Genomics and Bioinformatics Core, Boston, MA, USA., Brook OR; Department of Radiology, Beth Israel Deaconess Medical Center, Boston, MA, USA., Pant D; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Endocrinology, Diabetes, and Metabolism, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Boston Nutrition and Obesity Research Center Functional Genomics and Bioinformatics Core, Boston, MA, USA., Skelton-Badlani D; Harvard Medical School, Boston, MA, USA.; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Gastroenterology, Hepatology and Nutrition, Beth Israel Deaconess Medical Center, Boston, MA, USA., Naderi P; Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Harvard Medical School, Boston, MA, USA., Huang P; Harvard Medical School, Boston, MA, USA.; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Gastroenterology, Hepatology and Nutrition, Beth Israel Deaconess Medical Center, Boston, MA, USA., Pan L; NanoString Technologies, Inc., Seattle, WA, USA., Hether T; NanoString Technologies, Inc., Seattle, WA, USA., Andrews TS; Ajmera Transplant Centre, Toronto General Research Institute, University Health Network, Toronto, ON, Canada., Ziegler CGK; Harvard Medical School, Boston, MA, USA.; Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Program in Health Sciences & Technology, Harvard Medical School & Massachusetts Institute of Technology, Boston, MA, USA.; Institute for Medical Engineering & Science, Massachusetts Institute of Technology, Cambridge, MA, USA.; Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA, USA.; Ragon Institute of MGH, MIT, and Harvard, Cambridge, MA, USA.; Harvard Graduate Program in Biophysics, Harvard University, Cambridge, MA, USA.; Harvard Stem Cell Institute, Cambridge, MA, USA.; Program in Computational & Systems Biology, Massachusetts Institute of Technology, Cambridge, MA, USA.; Program in Immunology, Harvard Medical School, Boston, MA, USA.; Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA, USA., Reeves J; NanoString Technologies, Inc., Seattle, WA, USA., Myloserdnyy A; Harvard Medical School, Boston, MA, USA.; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Gastroenterology, Hepatology and Nutrition, Beth Israel Deaconess Medical Center, Boston, MA, USA., Chen R; Harvard Medical School, Boston, MA, USA.; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Gastroenterology, Hepatology and Nutrition, Beth Israel Deaconess Medical Center, Boston, MA, USA., Nam A; NanoString Technologies, Inc., Seattle, WA, USA., Phelan S; NanoString Technologies, Inc., Seattle, WA, USA., Liang Y; NanoString Technologies, Inc., Seattle, WA, USA., Gregory M; NanoString Technologies, Inc., Seattle, WA, USA., He S; NanoString Technologies, Inc., Seattle, WA, USA., Patrick M; NanoString Technologies, Inc., Seattle, WA, USA., Rane T; NanoString Technologies, Inc., Seattle, WA, USA., Wardhani A; NanoString Technologies, Inc., Seattle, WA, USA., Amin AD; Department of Medicine, Division of Hematology/Oncology, Columbia University Irving Medical Center, New York, NY, USA.; Columbia Center for Translational Immunology, New York, NY, USA., Biermann J; Department of Medicine, Division of Hematology/Oncology, Columbia University Irving Medical Center, New York, NY, USA.; Columbia Center for Translational Immunology, New York, NY, USA., Hibshoosh H; Department of Pathology and Cell Biology, Columbia University Irving Medical Center, New York, NY, USA., Veregge M; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Endocrinology, Diabetes, and Metabolism, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Boston Nutrition and Obesity Research Center Functional Genomics and Bioinformatics Core, Boston, MA, USA., Kramer Z; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Endocrinology, Diabetes, and Metabolism, Beth Israel Deaconess Medical Center, Boston, MA, USA., Jacobs C; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Endocrinology, Diabetes, and Metabolism, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Boston Nutrition and Obesity Research Center Functional Genomics and Bioinformatics Core, Boston, MA, USA., Yalcin Y; Harvard Medical School, Boston, MA, USA.; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Gastroenterology, Hepatology and Nutrition, Beth Israel Deaconess Medical Center, Boston, MA, USA., Phillips D; Present Address: Genentech, 1 DNA Way, South San Francisco, CA, USA., Slyper M; Present Address: Genentech, 1 DNA Way, South San Francisco, CA, USA., Subramanian A; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Ashenberg O; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Bloom-Ackermann Z; Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Tran VM; Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Gomez J; Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Sturm A; Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Zhang S; Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Fleming SJ; Data Sciences Platform, Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Precision Cardiology Laboratory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Warren S; NanoString Technologies, Inc., Seattle, WA, USA., Beechem J; NanoString Technologies, Inc., Seattle, WA, USA., Hung D; Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Department of Genetics, Harvard Medical School, Boston, MA, USA.; Department of Molecular Biology and Center for Computational and Integrative Biology, Massachusetts General Hospital, Boston, MA, USA., Babadi M; Data Sciences Platform, Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Precision Cardiology Laboratory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Padera RF Jr; Department of Pathology, Brigham and Women's Hospital, Boston, MA, USA., MacParland SA; Program in Health Sciences & Technology, Harvard Medical School & Massachusetts Institute of Technology, Boston, MA, USA.; Department of Immunology, University of Toronto, Medical Sciences Building, 1 King's College Circle, Toronto, ON, Canada.; Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, ON, Canada., Bader GD; Department of Molecular Genetics, University of Toronto, Toronto, ON, Canada.; The Donnelly Centre, Toronto, ON, Canada., Imad N; Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA, USA., Solomon IH; Department of Pathology, Brigham and Women's Hospital, Boston, MA, USA., Miller E; NanoString Technologies, Inc., Seattle, WA, USA., Riedel S; Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Harvard Medical School, Boston, MA, USA., Porter CBM; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Villani AC; Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Center for Immunology and Inflammatory Diseases, Department of Medicine, Massachusetts General Hospital, Boston, MA, USA.; Center for Cancer Research, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA.; Department of Medicine, Harvard Medical School, Boston, MA, USA., Tsai LT; Harvard Medical School, Boston, MA, USA.; Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Endocrinology, Diabetes, and Metabolism, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Boston Nutrition and Obesity Research Center Functional Genomics and Bioinformatics Core, Boston, MA, USA., Hide W; Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Harvard Medical School, Boston, MA, USA., Szabo G; Harvard Medical School, Boston, MA, USA.; Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Gastroenterology, Hepatology and Nutrition, Beth Israel Deaconess Medical Center, Boston, MA, USA., Hecht J; Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Harvard Medical School, Boston, MA, USA., Rozenblatt-Rosen O; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Present Address: Genentech, 1 DNA Way, South San Francisco, CA, USA., Shalek AK; Harvard Medical School, Boston, MA, USA. shalek@mit.edu.; Broad Institute of MIT and Harvard, Cambridge, MA, USA. shalek@mit.edu.; Program in Health Sciences & Technology, Harvard Medical School & Massachusetts Institute of Technology, Boston, MA, USA. shalek@mit.edu.; Institute for Medical Engineering & Science, Massachusetts Institute of Technology, Cambridge, MA, USA. shalek@mit.edu.; Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA, USA. shalek@mit.edu.; Ragon Institute of MGH, MIT, and Harvard, Cambridge, MA, USA. shalek@mit.edu.; Harvard Graduate Program in Biophysics, Harvard University, Cambridge, MA, USA. shalek@mit.edu.; Harvard Stem Cell Institute, Cambridge, MA, USA. shalek@mit.edu.; Program in Computational & Systems Biology, Massachusetts Institute of Technology, Cambridge, MA, USA. shalek@mit.edu.; Program in Immunology, Harvard Medical School, Boston, MA, USA. shalek@mit.edu.; Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA, USA. shalek@mit.edu., Izar B; Department of Medicine, Division of Hematology/Oncology, Columbia University Irving Medical Center, New York, NY, USA. bi2175@cumc.columbia.edu.; Columbia Center for Translational Immunology, New York, NY, USA. bi2175@cumc.columbia.edu.; Herbert Irving Comprehensive Cancer Center, Columbia University Irving Medical Center, New York, NY, USA. bi2175@cumc.columbia.edu.; Program for Mathematical Genomics, Columbia University Irving Medical Center, New York, NY, USA. bi2175@cumc.columbia.edu.; Department of Systems Biology, Columbia University Irving Medical Center, New York, NY, USA. bi2175@cumc.columbia.edu., Regev A; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA. aviv.regev.sc@gmail.com.; Present Address: Genentech, 1 DNA Way, South San Francisco, CA, USA. aviv.regev.sc@gmail.com., Popov YV; Harvard Medical School, Boston, MA, USA. ypopov@bidmc.harvard.edu.; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA. ypopov@bidmc.harvard.edu.; Division of Gastroenterology, Hepatology and Nutrition, Beth Israel Deaconess Medical Center, Boston, MA, USA. ypopov@bidmc.harvard.edu., Jiang ZG; Harvard Medical School, Boston, MA, USA. zgjiang@bidmc.harvard.edu.; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA. zgjiang@bidmc.harvard.edu.; Division of Gastroenterology, Hepatology and Nutrition, Beth Israel Deaconess Medical Center, Boston, MA, USA. zgjiang@bidmc.harvard.edu., Vlachos IS; Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA, USA. ivlachos@bidmc.harvard.edu.; Harvard Medical School, Boston, MA, USA. ivlachos@bidmc.harvard.edu.; Broad Institute of MIT and Harvard, Cambridge, MA, USA. ivlachos@bidmc.harvard.edu.; Spatial Technologies Unit, HMS Initiative for RNA Medicine / Beth Israel Deaconess Medical Center, Boston, MA, USA. ivlachos@bidmc.harvard.edu.; Cancer Research Institute, Beth Israel Deaconess Medical Center, Boston, MA, USA. ivlachos@bidmc.harvard.edu.; Harvard Medical School Initiative for RNA Medicine, Boston, MA, USA. ivlachos@bidmc.harvard.edu.
Source: Genome biology [Genome Biol] 2025 Mar 14; Vol. 26 (1), pp. 56. Date of Electronic Publication: 2025 Mar 14.
Publication Type: Journal Article
Journal Info: Publisher: BioMed Central Ltd Country of Publication: England NLM ID: 100960660 Publication Model: Electronic Cited Medium: Internet ISSN: 1474-760X (Electronic) Linking ISSN: 14747596 NLM ISO Abbreviation: Genome Biol Subsets: MEDLINE
Database: MEDLINE Ultimate
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  Data: A single-nucleus and spatial transcriptomic atlas of the COVID-19 liver reveals topological, functional, and regenerative organ disruption in patients.
– Name: Author
  Label: Authors
  Group: Au
  Data: <searchLink fieldCode="AU" term="%22Pita-Juarez+Y%22">Pita-Juarez Y</searchLink>; Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Harvard Medical School, Boston, MA, USA.; Broad Institute of MIT and Harvard, Cambridge, MA, USA.<br /><searchLink fieldCode="AU" term="%22Karagkouni+D%22">Karagkouni D</searchLink>; Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Harvard Medical School, Boston, MA, USA.; Broad Institute of MIT and Harvard, Cambridge, MA, USA.<br /><searchLink fieldCode="AU" term="%22Kalavros+N%22">Kalavros N</searchLink>; Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Spatial Technologies Unit, HMS Initiative for RNA Medicine / Beth Israel Deaconess Medical Center, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Melms+JC%22">Melms JC</searchLink>; Department of Medicine, Division of Hematology/Oncology, Columbia University Irving Medical Center, New York, NY, USA.; Columbia Center for Translational Immunology, New York, NY, USA.<br /><searchLink fieldCode="AU" term="%22Niezen+S%22">Niezen S</searchLink>; Harvard Medical School, Boston, MA, USA.; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Gastroenterology, Hepatology and Nutrition, Beth Israel Deaconess Medical Center, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Delorey+TM%22">Delorey TM</searchLink>; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA.<br /><searchLink fieldCode="AU" term="%22Essene+AL%22">Essene AL</searchLink>; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Endocrinology, Diabetes, and Metabolism, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Boston Nutrition and Obesity Research Center Functional Genomics and Bioinformatics Core, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Brook+OR%22">Brook OR</searchLink>; Department of Radiology, Beth Israel Deaconess Medical Center, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Pant+D%22">Pant D</searchLink>; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Endocrinology, Diabetes, and Metabolism, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Boston Nutrition and Obesity Research Center Functional Genomics and Bioinformatics Core, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Skelton-Badlani+D%22">Skelton-Badlani D</searchLink>; Harvard Medical School, Boston, MA, USA.; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Gastroenterology, Hepatology and Nutrition, Beth Israel Deaconess Medical Center, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Naderi+P%22">Naderi P</searchLink>; Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Harvard Medical School, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Huang+P%22">Huang P</searchLink>; Harvard Medical School, Boston, MA, USA.; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Gastroenterology, Hepatology and Nutrition, Beth Israel Deaconess Medical Center, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Pan+L%22">Pan L</searchLink>; NanoString Technologies, Inc., Seattle, WA, USA.<br /><searchLink fieldCode="AU" term="%22Hether+T%22">Hether T</searchLink>; NanoString Technologies, Inc., Seattle, WA, USA.<br /><searchLink fieldCode="AU" term="%22Andrews+TS%22">Andrews TS</searchLink>; Ajmera Transplant Centre, Toronto General Research Institute, University Health Network, Toronto, ON, Canada.<br /><searchLink fieldCode="AU" term="%22Ziegler+CGK%22">Ziegler CGK</searchLink>; Harvard Medical School, Boston, MA, USA.; Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Program in Health Sciences & Technology, Harvard Medical School & Massachusetts Institute of Technology, Boston, MA, USA.; Institute for Medical Engineering & Science, Massachusetts Institute of Technology, Cambridge, MA, USA.; Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA, USA.; Ragon Institute of MGH, MIT, and Harvard, Cambridge, MA, USA.; Harvard Graduate Program in Biophysics, Harvard University, Cambridge, MA, USA.; Harvard Stem Cell Institute, Cambridge, MA, USA.; Program in Computational & Systems Biology, Massachusetts Institute of Technology, Cambridge, MA, USA.; Program in Immunology, Harvard Medical School, Boston, MA, USA.; Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA, USA.<br /><searchLink fieldCode="AU" term="%22Reeves+J%22">Reeves J</searchLink>; NanoString Technologies, Inc., Seattle, WA, USA.<br /><searchLink fieldCode="AU" term="%22Myloserdnyy+A%22">Myloserdnyy A</searchLink>; Harvard Medical School, Boston, MA, USA.; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Gastroenterology, Hepatology and Nutrition, Beth Israel Deaconess Medical Center, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Chen+R%22">Chen R</searchLink>; Harvard Medical School, Boston, MA, USA.; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Gastroenterology, Hepatology and Nutrition, Beth Israel Deaconess Medical Center, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Nam+A%22">Nam A</searchLink>; NanoString Technologies, Inc., Seattle, WA, USA.<br /><searchLink fieldCode="AU" term="%22Phelan+S%22">Phelan S</searchLink>; NanoString Technologies, Inc., Seattle, WA, USA.<br /><searchLink fieldCode="AU" term="%22Liang+Y%22">Liang Y</searchLink>; NanoString Technologies, Inc., Seattle, WA, USA.<br /><searchLink fieldCode="AU" term="%22Gregory+M%22">Gregory M</searchLink>; NanoString Technologies, Inc., Seattle, WA, USA.<br /><searchLink fieldCode="AU" term="%22He+S%22">He S</searchLink>; NanoString Technologies, Inc., Seattle, WA, USA.<br /><searchLink fieldCode="AU" term="%22Patrick+M%22">Patrick M</searchLink>; NanoString Technologies, Inc., Seattle, WA, USA.<br /><searchLink fieldCode="AU" term="%22Rane+T%22">Rane T</searchLink>; NanoString Technologies, Inc., Seattle, WA, USA.<br /><searchLink fieldCode="AU" term="%22Wardhani+A%22">Wardhani A</searchLink>; NanoString Technologies, Inc., Seattle, WA, USA.<br /><searchLink fieldCode="AU" term="%22Amin+AD%22">Amin AD</searchLink>; Department of Medicine, Division of Hematology/Oncology, Columbia University Irving Medical Center, New York, NY, USA.; Columbia Center for Translational Immunology, New York, NY, USA.<br /><searchLink fieldCode="AU" term="%22Biermann+J%22">Biermann J</searchLink>; Department of Medicine, Division of Hematology/Oncology, Columbia University Irving Medical Center, New York, NY, USA.; Columbia Center for Translational Immunology, New York, NY, USA.<br /><searchLink fieldCode="AU" term="%22Hibshoosh+H%22">Hibshoosh H</searchLink>; Department of Pathology and Cell Biology, Columbia University Irving Medical Center, New York, NY, USA.<br /><searchLink fieldCode="AU" term="%22Veregge+M%22">Veregge M</searchLink>; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Endocrinology, Diabetes, and Metabolism, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Boston Nutrition and Obesity Research Center Functional Genomics and Bioinformatics Core, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Kramer+Z%22">Kramer Z</searchLink>; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Endocrinology, Diabetes, and Metabolism, Beth Israel Deaconess Medical Center, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Jacobs+C%22">Jacobs C</searchLink>; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Endocrinology, Diabetes, and Metabolism, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Boston Nutrition and Obesity Research Center Functional Genomics and Bioinformatics Core, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Yalcin+Y%22">Yalcin Y</searchLink>; Harvard Medical School, Boston, MA, USA.; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Gastroenterology, Hepatology and Nutrition, Beth Israel Deaconess Medical Center, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Phillips+D%22">Phillips D</searchLink>; Present Address: Genentech, 1 DNA Way, South San Francisco, CA, USA.<br /><searchLink fieldCode="AU" term="%22Slyper+M%22">Slyper M</searchLink>; Present Address: Genentech, 1 DNA Way, South San Francisco, CA, USA.<br /><searchLink fieldCode="AU" term="%22Subramanian+A%22">Subramanian A</searchLink>; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA.<br /><searchLink fieldCode="AU" term="%22Ashenberg+O%22">Ashenberg O</searchLink>; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA.<br /><searchLink fieldCode="AU" term="%22Bloom-Ackermann+Z%22">Bloom-Ackermann Z</searchLink>; Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA, USA.<br /><searchLink fieldCode="AU" term="%22Tran+VM%22">Tran VM</searchLink>; Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA, USA.<br /><searchLink fieldCode="AU" term="%22Gomez+J%22">Gomez J</searchLink>; Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA, USA.<br /><searchLink fieldCode="AU" term="%22Sturm+A%22">Sturm A</searchLink>; Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA, USA.<br /><searchLink fieldCode="AU" term="%22Zhang+S%22">Zhang S</searchLink>; Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA, USA.<br /><searchLink fieldCode="AU" term="%22Fleming+SJ%22">Fleming SJ</searchLink>; Data Sciences Platform, Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Precision Cardiology Laboratory, Broad Institute of MIT and Harvard, Cambridge, MA, USA.<br /><searchLink fieldCode="AU" term="%22Warren+S%22">Warren S</searchLink>; NanoString Technologies, Inc., Seattle, WA, USA.<br /><searchLink fieldCode="AU" term="%22Beechem+J%22">Beechem J</searchLink>; NanoString Technologies, Inc., Seattle, WA, USA.<br /><searchLink fieldCode="AU" term="%22Hung+D%22">Hung D</searchLink>; Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Department of Genetics, Harvard Medical School, Boston, MA, USA.; Department of Molecular Biology and Center for Computational and Integrative Biology, Massachusetts General Hospital, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Babadi+M%22">Babadi M</searchLink>; Data Sciences Platform, Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Precision Cardiology Laboratory, Broad Institute of MIT and Harvard, Cambridge, MA, USA.<br /><searchLink fieldCode="AU" term="%22Padera+RF+Jr%22">Padera RF Jr</searchLink>; Department of Pathology, Brigham and Women's Hospital, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22MacParland+SA%22">MacParland SA</searchLink>; Program in Health Sciences & Technology, Harvard Medical School & Massachusetts Institute of Technology, Boston, MA, USA.; Department of Immunology, University of Toronto, Medical Sciences Building, 1 King's College Circle, Toronto, ON, Canada.; Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, ON, Canada.<br /><searchLink fieldCode="AU" term="%22Bader+GD%22">Bader GD</searchLink>; Department of Molecular Genetics, University of Toronto, Toronto, ON, Canada.; The Donnelly Centre, Toronto, ON, Canada.<br /><searchLink fieldCode="AU" term="%22Imad+N%22">Imad N</searchLink>; Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Solomon+IH%22">Solomon IH</searchLink>; Department of Pathology, Brigham and Women's Hospital, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Miller+E%22">Miller E</searchLink>; NanoString Technologies, Inc., Seattle, WA, USA.<br /><searchLink fieldCode="AU" term="%22Riedel+S%22">Riedel S</searchLink>; Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Harvard Medical School, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Porter+CBM%22">Porter CBM</searchLink>; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA.<br /><searchLink fieldCode="AU" term="%22Villani+AC%22">Villani AC</searchLink>; Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Center for Immunology and Inflammatory Diseases, Department of Medicine, Massachusetts General Hospital, Boston, MA, USA.; Center for Cancer Research, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA.; Department of Medicine, Harvard Medical School, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Tsai+LT%22">Tsai LT</searchLink>; Harvard Medical School, Boston, MA, USA.; Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Endocrinology, Diabetes, and Metabolism, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Boston Nutrition and Obesity Research Center Functional Genomics and Bioinformatics Core, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Hide+W%22">Hide W</searchLink>; Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Harvard Medical School, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Szabo+G%22">Szabo G</searchLink>; Harvard Medical School, Boston, MA, USA.; Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Division of Gastroenterology, Hepatology and Nutrition, Beth Israel Deaconess Medical Center, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Hecht+J%22">Hecht J</searchLink>; Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA, USA.; Harvard Medical School, Boston, MA, USA.<br /><searchLink fieldCode="AU" term="%22Rozenblatt-Rosen+O%22">Rozenblatt-Rosen O</searchLink>; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Present Address: Genentech, 1 DNA Way, South San Francisco, CA, USA.<br /><searchLink fieldCode="AU" term="%22Shalek+AK%22">Shalek AK</searchLink>; Harvard Medical School, Boston, MA, USA. shalek@mit.edu.; Broad Institute of MIT and Harvard, Cambridge, MA, USA. shalek@mit.edu.; Program in Health Sciences & Technology, Harvard Medical School & Massachusetts Institute of Technology, Boston, MA, USA. shalek@mit.edu.; Institute for Medical Engineering & Science, Massachusetts Institute of Technology, Cambridge, MA, USA. shalek@mit.edu.; Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA, USA. shalek@mit.edu.; Ragon Institute of MGH, MIT, and Harvard, Cambridge, MA, USA. shalek@mit.edu.; Harvard Graduate Program in Biophysics, Harvard University, Cambridge, MA, USA. shalek@mit.edu.; Harvard Stem Cell Institute, Cambridge, MA, USA. shalek@mit.edu.; Program in Computational & Systems Biology, Massachusetts Institute of Technology, Cambridge, MA, USA. shalek@mit.edu.; Program in Immunology, Harvard Medical School, Boston, MA, USA. shalek@mit.edu.; Department of Chemistry, Massachusetts Institute of Technology, Cambridge, MA, USA. shalek@mit.edu.<br /><searchLink fieldCode="AU" term="%22Izar+B%22">Izar B</searchLink>; Department of Medicine, Division of Hematology/Oncology, Columbia University Irving Medical Center, New York, NY, USA. bi2175@cumc.columbia.edu.; Columbia Center for Translational Immunology, New York, NY, USA. bi2175@cumc.columbia.edu.; Herbert Irving Comprehensive Cancer Center, Columbia University Irving Medical Center, New York, NY, USA. bi2175@cumc.columbia.edu.; Program for Mathematical Genomics, Columbia University Irving Medical Center, New York, NY, USA. bi2175@cumc.columbia.edu.; Department of Systems Biology, Columbia University Irving Medical Center, New York, NY, USA. bi2175@cumc.columbia.edu.<br /><searchLink fieldCode="AU" term="%22Regev+A%22">Regev A</searchLink>; Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA. aviv.regev.sc@gmail.com.; Present Address: Genentech, 1 DNA Way, South San Francisco, CA, USA. aviv.regev.sc@gmail.com.<br /><searchLink fieldCode="AU" term="%22Popov+YV%22">Popov YV</searchLink>; Harvard Medical School, Boston, MA, USA. ypopov@bidmc.harvard.edu.; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA. ypopov@bidmc.harvard.edu.; Division of Gastroenterology, Hepatology and Nutrition, Beth Israel Deaconess Medical Center, Boston, MA, USA. ypopov@bidmc.harvard.edu.<br /><searchLink fieldCode="AU" term="%22Jiang+ZG%22">Jiang ZG</searchLink>; Harvard Medical School, Boston, MA, USA. zgjiang@bidmc.harvard.edu.; Department of Medicine, Beth Israel Deaconess Medical Center, Boston, MA, USA. zgjiang@bidmc.harvard.edu.; Division of Gastroenterology, Hepatology and Nutrition, Beth Israel Deaconess Medical Center, Boston, MA, USA. zgjiang@bidmc.harvard.edu.<br /><searchLink fieldCode="AU" term="%22Vlachos+IS%22">Vlachos IS</searchLink>; Department of Pathology, Beth Israel Deaconess Medical Center, Boston, MA, USA. ivlachos@bidmc.harvard.edu.; Harvard Medical School, Boston, MA, USA. ivlachos@bidmc.harvard.edu.; Broad Institute of MIT and Harvard, Cambridge, MA, USA. ivlachos@bidmc.harvard.edu.; Spatial Technologies Unit, HMS Initiative for RNA Medicine / Beth Israel Deaconess Medical Center, Boston, MA, USA. ivlachos@bidmc.harvard.edu.; Cancer Research Institute, Beth Israel Deaconess Medical Center, Boston, MA, USA. ivlachos@bidmc.harvard.edu.; Harvard Medical School Initiative for RNA Medicine, Boston, MA, USA. ivlachos@bidmc.harvard.edu.
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  Data: <searchLink fieldCode="JN" term="%22100960660%22">Genome biology</searchLink> [Genome Biol] 2025 Mar 14; Vol. 26 (1), pp. 56. <i>Date of Electronic Publication: </i>2025 Mar 14.
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