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Shapiro JA, Gaonkar KS, Spielman SJ, Savonen CL, Bethell CJ, Jin R, Rathi KS, Zhu Y, Egolf LE, Farrow BK, Miller DP, Yang Y, Koganti T, Noureen N, Koptyra MP, Duong N, Santi M, Kim J, Robins S, Storm PB, Mack SC, Lilly JV, Xie HM, Jain P, Raman P, Rood BR, Lulla RR, Nazarian J, Kraya AA, Vaksman Z, Heath AP, Kline C, Scolaro L, Viaene AN, Huang X, Way GP, Foltz SM, Zhang B, Poetsch AR, Mueller S, Ennis BM, Prados M, Diskin SJ, Zheng S, Guo Y, Kannan S, Waanders AJ, Margol AS, Kim MC, Hanson D, Van Kuren N, Wong J, Kaufman RS, Coleman N, Blackden C, Cole KA, Mason JL, Madsen PJ, Koschmann CJ, Stewart DR, Wafula E, Brown MA, Resnick AC, Greene CS, Rokita JL, Taroni JN. OpenPBTA: The Open Pediatric Brain Tumor Atlas. Cell Genom 2023;3:100340. [PMID: 37492101 PMCID: PMC10363844 DOI: 10.1016/j.xgen.2023.100340] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/12/2022] [Revised: 02/28/2023] [Accepted: 05/04/2023] [Indexed: 07/27/2023]

Affiliation(s)

Joshua A. Shapiro Childhood Cancer Data Lab, Alex’s Lemonade Stand Foundation, Bala Cynwyd, PA 19004, USA
Krutika S. Gaonkar Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Bioinformatics and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Stephanie J. Spielman Childhood Cancer Data Lab, Alex’s Lemonade Stand Foundation, Bala Cynwyd, PA 19004, USA Rowan University, Glassboro, NJ 08028, USA
Candace L. Savonen Childhood Cancer Data Lab, Alex’s Lemonade Stand Foundation, Bala Cynwyd, PA 19004, USA
Chante J. Bethell Childhood Cancer Data Lab, Alex’s Lemonade Stand Foundation, Bala Cynwyd, PA 19004, USA
Run Jin Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Komal S. Rathi Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Bioinformatics and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Yuankun Zhu Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Laura E. Egolf Cell and Molecular Biology Graduate Group, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA 19104, USA Division of Oncology, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Bailey K. Farrow Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Daniel P. Miller Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Yang Yang Ben May Department for Cancer Research, University of Chicago, Chicago, IL 60637, USA
Tejaswi Koganti Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Nighat Noureen Greehey Children’s Cancer Research Institute, UT Health San Antonio, San Antonio, TX 78229, USA
Mateusz P. Koptyra Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Nhat Duong Department of Bioinformatics and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Mariarita Santi Department of Pathology and Laboratory Medicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Pathology and Laboratory Medicine, University of Pennsylvania Perelman School of Medicine, Philadelphia, PA 19104, USA
Jung Kim Clinical Genetics Branch, Division of Cancer Epidemiology and Genetics, National Cancer Institute, Rockville, MD 20850, USA
Shannon Robins Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Phillip B. Storm Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Stephen C. Mack Department of Developmental Neurobiology, St. Jude Children’s Research Hospital, Memphis, TN 38105, USA
Jena V. Lilly Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Hongbo M. Xie Department of Bioinformatics and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Payal Jain Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Pichai Raman Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Bioinformatics and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Brian R. Rood Children’s National Research Institute, Washington, DC 20012, USA George Washington University School of Medicine and Health Sciences, Washington, DC 20052, USA
Rishi R. Lulla Division of Hematology/Oncology, Hasbro Children’s Hospital, Providence, RI 02903, USA Department of Pediatrics, The Warren Alpert School of Brown University, Providence, RI 02912, USA
Javad Nazarian Children’s National Research Institute, Washington, DC 20012, USA George Washington University School of Medicine and Health Sciences, Washington, DC 20052, USA Department of Pediatrics, University of Zurich, Zurich, Switzerland
Adam A. Kraya Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Zalman Vaksman Division of Oncology, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Allison P. Heath Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Cassie Kline Division of Oncology, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Laura Scolaro Division of Oncology, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Angela N. Viaene Department of Pathology and Laboratory Medicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Pathology and Laboratory Medicine, University of Pennsylvania Perelman School of Medicine, Philadelphia, PA 19104, USA
Xiaoyan Huang Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Gregory P. Way Department of Biomedical Informatics, University of Colorado School of Medicine, Aurora, CO 80045, USA
Steven M. Foltz Childhood Cancer Data Lab, Alex’s Lemonade Stand Foundation, Bala Cynwyd, PA 19004, USA Department of Systems Pharmacology and Translational Therapeutics, University of Pennsylvania, Philadelphia, PA 19104, USA
Bo Zhang Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Anna R. Poetsch Biotechnology Center, Technical University Dresden, Dresden, Germany National Center for Tumor Diseases, Dresden, Germany
Sabine Mueller Department of Neurology, Neurosurgery and Pediatrics, University of California, San Francisco, San Francisco, CA 94115, USA
Brian M. Ennis Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Michael Prados University of California, San Francisco, San Francisco, CA 94115, USA
Sharon J. Diskin Division of Oncology, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Pediatrics, University of Pennsylvania, Philadelphia, PA 19104, USA
Siyuan Zheng Greehey Children’s Cancer Research Institute, UT Health San Antonio, San Antonio, TX 78229, USA
Yiran Guo Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Shrivats Kannan Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Angela J. Waanders Division of Hematology, Oncology, Neuro-Oncology, and Stem Cell Transplant, Ann & Robert H Lurie Children’s Hospital of Chicago, Chicago, IL 60611, USA Department of Pediatrics, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA
Ashley S. Margol Division of Hematology and Oncology, Children’s Hospital of Los Angeles, Los Angeles, CA 90027, USA Department of Pediatrics, Keck School of Medicine of University of Southern California, Los Angeles, CA 90033, USA
Meen Chul Kim Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Derek Hanson Hackensack Meridian School of Medicine, Nutley, NJ 07110, USA Hackensack University Medical Center, Hackensack, NJ 07601, USA
Nicholas Van Kuren Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Jessica Wong Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Rebecca S. Kaufman Department of Bioinformatics and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Oncology, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Noel Coleman Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Christopher Blackden Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Kristina A. Cole Division of Oncology, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Pediatrics, University of Pennsylvania, Philadelphia, PA 19104, USA Abramson Family Cancer Research Institute, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA 19104, USA
Jennifer L. Mason Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Peter J. Madsen Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Carl J. Koschmann Department of Pediatrics, University of Michigan Health, Ann Arbor, MI 48105, USA Pediatric Hematology Oncology, Mott Children’s Hospital, Ann Arbor, MI 48109, USA
Douglas R. Stewart Clinical Genetics Branch, Division of Cancer Epidemiology and Genetics, National Cancer Institute, Rockville, MD 20850, USA
Eric Wafula Department of Bioinformatics and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Miguel A. Brown Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Adam C. Resnick Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Casey S. Greene Childhood Cancer Data Lab, Alex’s Lemonade Stand Foundation, Bala Cynwyd, PA 19004, USA Department of Biomedical Informatics, University of Colorado School of Medicine, Aurora, CO 80045, USA Department of Systems Pharmacology and Translational Therapeutics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA
Jo Lynne Rokita Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Bioinformatics and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA
Jaclyn N. Taroni Childhood Cancer Data Lab, Alex’s Lemonade Stand Foundation, Bala Cynwyd, PA 19004, USA
Children’s Brain Tumor Network Childhood Cancer Data Lab, Alex’s Lemonade Stand Foundation, Bala Cynwyd, PA 19004, USA Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Bioinformatics and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Rowan University, Glassboro, NJ 08028, USA Cell and Molecular Biology Graduate Group, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA 19104, USA Division of Oncology, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Ben May Department for Cancer Research, University of Chicago, Chicago, IL 60637, USA Greehey Children’s Cancer Research Institute, UT Health San Antonio, San Antonio, TX 78229, USA Department of Pathology and Laboratory Medicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Pathology and Laboratory Medicine, University of Pennsylvania Perelman School of Medicine, Philadelphia, PA 19104, USA Clinical Genetics Branch, Division of Cancer Epidemiology and Genetics, National Cancer Institute, Rockville, MD 20850, USA Department of Developmental Neurobiology, St. Jude Children’s Research Hospital, Memphis, TN 38105, USA Children’s National Research Institute, Washington, DC 20012, USA George Washington University School of Medicine and Health Sciences, Washington, DC 20052, USA Division of Hematology/Oncology, Hasbro Children’s Hospital, Providence, RI 02903, USA Department of Pediatrics, The Warren Alpert School of Brown University, Providence, RI 02912, USA Department of Pediatrics, University of Zurich, Zurich, Switzerland Department of Biomedical Informatics, University of Colorado School of Medicine, Aurora, CO 80045, USA Department of Systems Pharmacology and Translational Therapeutics, University of Pennsylvania, Philadelphia, PA 19104, USA Biotechnology Center, Technical University Dresden, Dresden, Germany National Center for Tumor Diseases, Dresden, Germany Department of Neurology, Neurosurgery and Pediatrics, University of California, San Francisco, San Francisco, CA 94115, USA University of California, San Francisco, San Francisco, CA 94115, USA Department of Pediatrics, University of Pennsylvania, Philadelphia, PA 19104, USA Division of Hematology, Oncology, Neuro-Oncology, and Stem Cell Transplant, Ann & Robert H Lurie Children’s Hospital of Chicago, Chicago, IL 60611, USA Department of Pediatrics, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA Division of Hematology and Oncology, Children’s Hospital of Los Angeles, Los Angeles, CA 90027, USA Department of Pediatrics, Keck School of Medicine of University of Southern California, Los Angeles, CA 90033, USA Hackensack Meridian School of Medicine, Nutley, NJ 07110, USA Hackensack University Medical Center, Hackensack, NJ 07601, USA Abramson Family Cancer Research Institute, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA 19104, USA Department of Pediatrics, University of Michigan Health, Ann Arbor, MI 48105, USA Pediatric Hematology Oncology, Mott Children’s Hospital, Ann Arbor, MI 48109, USA Department of Systems Pharmacology and Translational Therapeutics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA
Pacific Pediatric Neuro-Oncology Consortium Childhood Cancer Data Lab, Alex’s Lemonade Stand Foundation, Bala Cynwyd, PA 19004, USA Center for Data-Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Division of Neurosurgery, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Bioinformatics and Health Informatics, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Rowan University, Glassboro, NJ 08028, USA Cell and Molecular Biology Graduate Group, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA 19104, USA Division of Oncology, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Ben May Department for Cancer Research, University of Chicago, Chicago, IL 60637, USA Greehey Children’s Cancer Research Institute, UT Health San Antonio, San Antonio, TX 78229, USA Department of Pathology and Laboratory Medicine, Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USA Department of Pathology and Laboratory Medicine, University of Pennsylvania Perelman School of Medicine, Philadelphia, PA 19104, USA Clinical Genetics Branch, Division of Cancer Epidemiology and Genetics, National Cancer Institute, Rockville, MD 20850, USA Department of Developmental Neurobiology, St. Jude Children’s Research Hospital, Memphis, TN 38105, USA Children’s National Research Institute, Washington, DC 20012, USA George Washington University School of Medicine and Health Sciences, Washington, DC 20052, USA Division of Hematology/Oncology, Hasbro Children’s Hospital, Providence, RI 02903, USA Department of Pediatrics, The Warren Alpert School of Brown University, Providence, RI 02912, USA Department of Pediatrics, University of Zurich, Zurich, Switzerland Department of Biomedical Informatics, University of Colorado School of Medicine, Aurora, CO 80045, USA Department of Systems Pharmacology and Translational Therapeutics, University of Pennsylvania, Philadelphia, PA 19104, USA Biotechnology Center, Technical University Dresden, Dresden, Germany National Center for Tumor Diseases, Dresden, Germany Department of Neurology, Neurosurgery and Pediatrics, University of California, San Francisco, San Francisco, CA 94115, USA University of California, San Francisco, San Francisco, CA 94115, USA Department of Pediatrics, University of Pennsylvania, Philadelphia, PA 19104, USA Division of Hematology, Oncology, Neuro-Oncology, and Stem Cell Transplant, Ann & Robert H Lurie Children’s Hospital of Chicago, Chicago, IL 60611, USA Department of Pediatrics, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, USA Division of Hematology and Oncology, Children’s Hospital of Los Angeles, Los Angeles, CA 90027, USA Department of Pediatrics, Keck School of Medicine of University of Southern California, Los Angeles, CA 90033, USA Hackensack Meridian School of Medicine, Nutley, NJ 07110, USA Hackensack University Medical Center, Hackensack, NJ 07601, USA Abramson Family Cancer Research Institute, Perelman School of Medicine at the University of Pennsylvania, Philadelphia, PA 19104, USA Department of Pediatrics, University of Michigan Health, Ann Arbor, MI 48105, USA Pediatric Hematology Oncology, Mott Children’s Hospital, Ann Arbor, MI 48109, USA Department of Systems Pharmacology and Translational Therapeutics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA

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Lin JR, Wang S, Coy S, Chen YA, Yapp C, Tyler M, Nariya MK, Heiser CN, Lau KS, Santagata S, Sorger PK. Multiplexed 3D atlas of state transitions and immune interaction in colorectal cancer. Cell 2023;186:363-381.e19. [PMID: 36669472 PMCID: PMC10019067 DOI: 10.1016/j.cell.2022.12.028] [Citation(s) in RCA: 55] [Impact Index Per Article: 55.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2021] [Revised: 09/26/2022] [Accepted: 12/16/2022] [Indexed: 01/20/2023]

Chan JM, Quintanal-Villalonga Á, Gao VR, Xie Y, Allaj V, Chaudhary O, Masilionis I, Egger J, Chow A, Walle T, Mattar M, Yarlagadda DVK, Wang JL, Uddin F, Offin M, Ciampricotti M, Qeriqi B, Bahr A, de Stanchina E, Bhanot UK, Lai WV, Bott MJ, Jones DR, Ruiz A, Baine MK, Li Y, Rekhtman N, Poirier JT, Nawy T, Sen T, Mazutis L, Hollmann TJ, Pe'er D, Rudin CM. Signatures of plasticity, metastasis, and immunosuppression in an atlas of human small cell lung cancer. Cancer Cell 2021;39:1479-1496.e18. [PMID: 34653364 PMCID: PMC8628860 DOI: 10.1016/j.ccell.2021.09.008] [Citation(s) in RCA: 128] [Impact Index Per Article: 42.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 11/30/2020] [Revised: 07/26/2021] [Accepted: 09/15/2021] [Indexed: 12/11/2022]

Affiliation(s)

Joseph M Chan Department of Medicine, Thoracic Oncology Service, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA; Program for Computational and Systems Biology, Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center, New York, NY 10016, USA
Álvaro Quintanal-Villalonga Department of Medicine, Thoracic Oncology Service, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
Vianne Ran Gao Program for Computational and Systems Biology, Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center, New York, NY 10016, USA; Weill Cornell Medical College, New York, NY 10065, USA
Yubin Xie Program for Computational and Systems Biology, Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center, New York, NY 10016, USA; Weill Cornell Medical College, New York, NY 10065, USA
Viola Allaj Department of Medicine, Thoracic Oncology Service, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
Ojasvi Chaudhary Program for Computational and Systems Biology, Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center, New York, NY 10016, USA
Ignas Masilionis Program for Computational and Systems Biology, Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center, New York, NY 10016, USA
Jacklynn Egger Department of Medicine, Thoracic Oncology Service, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
Andrew Chow Department of Medicine, Thoracic Oncology Service, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
Thomas Walle Department of Medical Oncology; German Cancer Consortium (DKTK), German Cancer Research Center (DKFZ), Clinical Cooperation Unit Virotherapy; National Center for Tumor Diseases (NCT), Heidelberg, Germany
Marissa Mattar Antitumor Assessment Core Facility, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
Dig V K Yarlagadda Program for Computational and Systems Biology, Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center, New York, NY 10016, USA
James L Wang Department of Computer Science, Columbia University, New York, NY 10027, USA
Fathema Uddin Department of Medicine, Thoracic Oncology Service, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
Michael Offin Department of Medicine, Thoracic Oncology Service, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
Metamia Ciampricotti Department of Medicine, Thoracic Oncology Service, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
Besnik Qeriqi Antitumor Assessment Core Facility, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
Amber Bahr Antitumor Assessment Core Facility, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
Elisa de Stanchina Antitumor Assessment Core Facility, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA; Molecular Pharmacology Program, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
Umesh K Bhanot Precision Pathology Center, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
W Victoria Lai Department of Medicine, Thoracic Oncology Service, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
Matthew J Bott Thoracic Service, Department of Surgery, Fiona and Stanley Druckenmiller Center for Lung Cancer Research, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
David R Jones Thoracic Service, Department of Surgery, Fiona and Stanley Druckenmiller Center for Lung Cancer Research, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
Arvin Ruiz Department of Pathology, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
Marina K Baine Department of Pathology, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
Yanyun Li Department of Pathology, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
Natasha Rekhtman Department of Pathology, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
John T Poirier Perlmutter Cancer Center, New York University Langone Health, New York, NY 10065, USA
Tal Nawy Program for Computational and Systems Biology, Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center, New York, NY 10016, USA
Triparna Sen Department of Medicine, Thoracic Oncology Service, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA; Weill Cornell Medical College, New York, NY 10065, USA
Linas Mazutis Institute of Biotechnology, Vilnius University, Vilnius, Lithuania
Travis J Hollmann Department of Pathology, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
Dana Pe'er Program for Computational and Systems Biology, Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center, New York, NY 10016, USA; Parker Institute for Cancer Immunotherapy, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA.
Charles M Rudin Department of Medicine, Thoracic Oncology Service, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA; Molecular Pharmacology Program, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA; Weill Cornell Medical College, New York, NY 10065, USA.

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Pelka K, Hofree M, Chen JH, Sarkizova S, Pirl JD, Jorgji V, Bejnood A, Dionne D, Ge WH, Xu KH, Chao SX, Zollinger DR, Lieb DJ, Reeves JW, Fuhrman CA, Hoang ML, Delorey T, Nguyen LT, Waldman J, Klapholz M, Wakiro I, Cohen O, Albers J, Smillie CS, Cuoco MS, Wu J, Su MJ, Yeung J, Vijaykumar B, Magnuson AM, Asinovski N, Moll T, Goder-Reiser MN, Applebaum AS, Brais LK, DelloStritto LK, Denning SL, Phillips ST, Hill EK, Meehan JK, Frederick DT, Sharova T, Kanodia A, Todres EZ, Jané-Valbuena J, Biton M, Izar B, Lambden CD, Clancy TE, Bleday R, Melnitchouk N, Irani J, Kunitake H, Berger DL, Srivastava A, Hornick JL, Ogino S, Rotem A, Vigneau S, Johnson BE, Corcoran RB, Sharpe AH, Kuchroo VK, Ng K, Giannakis M, Nieman LT, Boland GM, Aguirre AJ, Anderson AC, Rozenblatt-Rosen O, Regev A, Hacohen N. Spatially organized multicellular immune hubs in human colorectal cancer. Cell 2021;184:4734-4752.e20. [PMID: 34450029 PMCID: PMC8772395 DOI: 10.1016/j.cell.2021.08.003] [Citation(s) in RCA: 212] [Impact Index Per Article: 70.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2020] [Revised: 05/28/2021] [Accepted: 08/03/2021] [Indexed: 12/11/2022]

Affiliation(s)

Karin Pelka Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, USA; Massachusetts General Hospital (MGH) Cancer Center, Harvard Medical School (HMS), Boston, MA, USA
Matan Hofree Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Jonathan H Chen Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, USA; Massachusetts General Hospital (MGH) Cancer Center, Harvard Medical School (HMS), Boston, MA, USA; Department of Pathology, MGH, Boston, MA, USA
Siranush Sarkizova Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, USA
Joshua D Pirl Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, USA
Vjola Jorgji Massachusetts General Hospital (MGH) Cancer Center, Harvard Medical School (HMS), Boston, MA, USA; Department of Pathology, MGH, Boston, MA, USA
Alborz Bejnood Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Danielle Dionne Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA
William H Ge Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, USA
Katherine H Xu Massachusetts General Hospital (MGH) Cancer Center, Harvard Medical School (HMS), Boston, MA, USA
Sherry X Chao Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, USA; Department of Biomedical Informatics, HMS, Boston, MA, USA
Daniel R Zollinger NanoString Technologies Inc., Seattle, WA, USA
David J Lieb Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, USA
Jason W Reeves NanoString Technologies Inc., Seattle, WA, USA
Christopher A Fuhrman NanoString Technologies Inc., Seattle, WA, USA
Margaret L Hoang NanoString Technologies Inc., Seattle, WA, USA
Toni Delorey Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Lan T Nguyen Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Julia Waldman Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Max Klapholz Evergrande Center for Immunologic Diseases, HMS and Brigham and Women's Hospital (BWH), Boston, MA, USA
Isaac Wakiro Center for Cancer Genomics, Department of Medical Oncology, Dana-Farber Cancer Institute (DFCI), Boston, MA, USA
Ofir Cohen Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, USA; Center for Cancer Genomics, Department of Medical Oncology, Dana-Farber Cancer Institute (DFCI), Boston, MA, USA; Department of Medical Oncology, DFCI, Boston, MA, USA
Julian Albers Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, USA
Christopher S Smillie Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Michael S Cuoco Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Jingyi Wu Center for Cancer Genomics, Department of Medical Oncology, Dana-Farber Cancer Institute (DFCI), Boston, MA, USA
Mei-Ju Su Center for Cancer Genomics, Department of Medical Oncology, Dana-Farber Cancer Institute (DFCI), Boston, MA, USA
Jason Yeung Center for Cancer Genomics, Department of Medical Oncology, Dana-Farber Cancer Institute (DFCI), Boston, MA, USA
Brinda Vijaykumar Department of Immunology, HMS, Boston, MA, USA
Angela M Magnuson Department of Immunology, HMS, Boston, MA, USA
Natasha Asinovski Department of Immunology, HMS, Boston, MA, USA
Tabea Moll Clinical Research Center, MGH, Boston, MA, USA
Max N Goder-Reiser Clinical Research Center, MGH, Boston, MA, USA
Anise S Applebaum Clinical Research Center, MGH, Boston, MA, USA
Lauren K Brais Clinical Research Center, DFCI, Boston, MA, USA
Laura K DelloStritto Center for Cancer Genomics, Department of Medical Oncology, Dana-Farber Cancer Institute (DFCI), Boston, MA, USA
Sarah L Denning Clinical Research Center, DFCI, Boston, MA, USA
Susannah T Phillips Clinical Research Center, MGH, Boston, MA, USA
Emma K Hill Clinical Research Center, DFCI, Boston, MA, USA
Julia K Meehan Clinical Research Center, DFCI, Boston, MA, USA
Dennie T Frederick Clinical Research Center, MGH, Boston, MA, USA
Tatyana Sharova Clinical Research Center, MGH, Boston, MA, USA
Abhay Kanodia Center for Cancer Genomics, Department of Medical Oncology, Dana-Farber Cancer Institute (DFCI), Boston, MA, USA
Ellen Z Todres Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, USA
Judit Jané-Valbuena Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA
Moshe Biton Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA; Department of Molecular Biology, MGH, Boston, MA, USA
Benjamin Izar Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA; Center for Cancer Genomics, Department of Medical Oncology, Dana-Farber Cancer Institute (DFCI), Boston, MA, USA; Department of Medical Oncology, DFCI, Boston, MA, USA
Conner D Lambden Evergrande Center for Immunologic Diseases, HMS and Brigham and Women's Hospital (BWH), Boston, MA, USA
Thomas E Clancy Department of Surgery, BWH, Boston, MA, USA
Ronald Bleday Department of Surgery, BWH, Boston, MA, USA
Nelya Melnitchouk Department of Surgery, BWH, Boston, MA, USA
Jennifer Irani Department of Surgery, BWH, Boston, MA, USA
Hiroko Kunitake Department of Surgery, MGH, Boston, MA, USA
David L Berger Department of Surgery, MGH, Boston, MA, USA
Amitabh Srivastava Department of Pathology, BWH, Boston, MA, USA
Jason L Hornick Department of Pathology, BWH, Boston, MA, USA
Shuji Ogino Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, USA; Department of Pathology, BWH, Boston, MA, USA
Asaf Rotem Center for Cancer Genomics, Department of Medical Oncology, Dana-Farber Cancer Institute (DFCI), Boston, MA, USA
Sébastien Vigneau Center for Cancer Genomics, Department of Medical Oncology, Dana-Farber Cancer Institute (DFCI), Boston, MA, USA
Bruce E Johnson Center for Cancer Genomics, Department of Medical Oncology, Dana-Farber Cancer Institute (DFCI), Boston, MA, USA; Department of Medical Oncology, DFCI, Boston, MA, USA
Ryan B Corcoran Massachusetts General Hospital (MGH) Cancer Center, Harvard Medical School (HMS), Boston, MA, USA; Department of Medicine, HMS, Boston, MA, USA
Arlene H Sharpe Evergrande Center for Immunologic Diseases, HMS and Brigham and Women's Hospital (BWH), Boston, MA, USA; Department of Immunology, Blavatnik Institute, HMS, Boston, MA, USA
Vijay K Kuchroo Evergrande Center for Immunologic Diseases, HMS and Brigham and Women's Hospital (BWH), Boston, MA, USA
Kimmie Ng Department of Medical Oncology, DFCI, Boston, MA, USA
Marios Giannakis Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, USA; Department of Medical Oncology, DFCI, Boston, MA, USA
Linda T Nieman Massachusetts General Hospital (MGH) Cancer Center, Harvard Medical School (HMS), Boston, MA, USA
Genevieve M Boland Massachusetts General Hospital (MGH) Cancer Center, Harvard Medical School (HMS), Boston, MA, USA; Department of Surgery, MGH, Boston, MA, USA
Andrew J Aguirre Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, USA; Department of Medical Oncology, DFCI, Boston, MA, USA
Ana C Anderson Evergrande Center for Immunologic Diseases, HMS and Brigham and Women's Hospital (BWH), Boston, MA, USA.
Orit Rozenblatt-Rosen Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA.
Aviv Regev Klarman Cell Observatory, Broad Institute of MIT and Harvard, Cambridge, MA, USA; Howard Hughes Medical Institute and Koch Institute for Integrative Cancer Research, Department of Biology, MIT, Cambridge, MA, USA.
Nir Hacohen Broad Institute of Massachusetts Institute of Technology (MIT) and Harvard, Cambridge, MA, USA; Massachusetts General Hospital (MGH) Cancer Center, Harvard Medical School (HMS), Boston, MA, USA; Department of Immunology, HMS, Boston, MA, USA.

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