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Rigorous benchmarking of T-cell receptor repertoire profiling methods for cancer RNA sequencing

Peng K, et al.
Briefings in Bioinformatics
August 2023
Authors and Affiliates
Kerui Peng 1, Theodore S Nowicki 2,3, Katie Campbell 4, Mohammad Vahed 1, Dandan Peng 5, Yiting Meng 1, Anish Nagareddy 6, Yu-Ning Huang 1, Aaron Karlsberg 1, Zachary Miller 7, Jaqueline Brito 1, Brian Nadel 1,8, Victoria M Pak 9,10, Malak S Abedalthagafi 11,12, Amanda M Burkhardt 1, Houda Alachkar 1, Antoni Ribas 13, Serghei Mangul 1,5; 1 Department of Clinical Pharmacy, USC Alfred E. Mann School of Pharmacy and Pharmaceutical Sciences, University of Southern California, Los Angeles, CA, USA. 2 Department of Pediatrics, Division of Pediatric Hematology/Oncology, University of California, Los Angeles, CA, USA. 3 Department of Microbiology, Immunology, & Molecular Genetics, University of California, Los Angeles, CA, USA. 4 Department of Medicine, Division of Hematology-Oncology, University of California, Los Angeles, CA, USA. 5 Department of Quantitative and Computational Biology, USC Dornsife College of Letters, Arts and Sciences, University of Southern California, Los Angeles, CA, USA. 6 Viterbi School of Engineering, University of Southern California, Los Angeles, CA, USA. 7 Department of Pharmaceutical Sciences, USC Alfred E. Mann School of Pharmacy and Pharmaceutical Sciences, University of Southern California, Los Angeles, CA, USA. 8 Department of Molecular, Cell and Developmental Biology, University of California, Los Angeles, CA, USA. 9 Emory Nell Hodgson School of Nursing, Emory University, Atlanta, GA, USA. 10 Department of Epidemiology, Rollins School of Public Health, Emory University, Atlanta, GA, USA. 11 Department of Pathology & Laboratory Medicine, Emory University Hospital, Atlanta, GA, USA. 12 King Salman Center for Disability Research, Riyadh, Saudi Arabia. 13 Departments of Medicine (Hematology-Oncology), Surgery (Surgical Oncology) and Molecular & Medical Pharmacology, University of California, Los Angeles, CA, USA.

Identification of human exTreg cells as CD16+CD56+ cytotoxic CD4+ T cells

Freuchet A, et al.
Nature Immunology
August 2023
Authors and Affiliates
Antoine Freuchet 1, Payel Roy 1, Sujit Silas Armstrong 1, Mohammad Oliaeimotlagh 2, Sunil Kumar 2, Marco Orecchioni 1,2, Amal J Ali 1, Amir Khan 2, Jeffrey Makings 1, Qingkang Lyu 2, Holger Winkels 3,4, Erpei Wang 1, Christopher Durant 1, Yanal Ghosheh 1, Rishab Gulati 1, Felix Nettersheim 1, Klaus Ley 5,6; 1 La Jolla Institute for Immunology, La Jolla, CA, USA. 2 Immunology Center of Georgia, Augusta University, Augusta, GA, USA. 3 University of Cologne, Faculty of Medicine and University Hospital Cologne, Clinic III for Internal Medicine, Cologne, Germany. 4 Center for Molecular Medicine Cologne (CMMC), University of Cologne, Cologne, Germany. 5 La Jolla Institute for Immunology, La Jolla, CA, USA. kley@augusta.edu. 6 Immunology Center of Georgia, Augusta University, Augusta, GA, USA. kley@augusta.edu.

HLA variants and TCR diversity against SARS-CoV-2 in the pre-COVID-19 era

Buhler S, et al.
HLA
August 2023
Authors and Affiliates
Stéphane Buhler 1, Zuleika Calderin Sollet 1, Florence Bettens 1, Antonia Schäfer 1, Marc Ansari 2,3, Sylvie Ferrari-Lacraz 1, Jean Villard 1; 1 Transplantation Immunology Unit and National Reference Laboratory for Histocompatibility, Department of Diagnostic, Geneva University Hospitals, Geneva, Switzerland. 2 CANSEARCH Research Platform for Pediatric Oncology and Hematology, Faculty of Medicine, Department of Pediatrics, Gynecology and Obstetrics, University of Geneva, Geneva, Switzerland. 3 Division of Pediatric Oncology and Hematology, Department of Women, Child and Adolescent, University Geneva Hospitals, Geneva, Switzerland.

Tissue-specific features of the T cell repertoire after allogeneic hematopoietic cell transplantation in human and mouse

DeWolf S, et al.
Science Translational Medicine
August 2023
Authors and Affiliates
Susan DeWolf 1, Yuval Elhanati 2, Katherine Nichols 3, Nicholas R Waters 3, Chi L Nguyen 3, John B Slingerland 3, Natasia Rodriguez 4, Olga Lyudovyk 2, Paul A Giardina 3, Anastasia I Kousa 3, Hana Andrlová 3, Nick Ceglia 2, Teng Fei 5, Rajya Kappagantula 6,7, Yanyun Li 7, Nathan Aleynick 7, Priscilla Baez 4, Rajmohan Murali 7, Akimasa Hayashi 7,8, Nicole Lee 3, Brianna Gipson 3, Madhumitha Rangesa 4, Zoe Katsamakis 3, Anqi Dai 3, Amanda G Blouin 7, Maria Arcila 7, Ignas Masilionis 9, Ronan Chaligne 9, Doris M Ponce 4,10, Heather J Landau 4,10, Ioannis Politikos 4,10, Roni Tamari 4,10, Alan M Hanash 4,10,11, Robert R Jenq 12, Sergio A Giralt 4,10, Kate A Markey 4,13,14, Yanming Zhang 7, Miguel-Angel Perales 4,10, Nicholas D Socci 15, Benjamin D Greenbaum 2,16, Christine A Iacobuzio-Donahue 6, Travis J Hollmann 7,17, Marcel R M van den Brink 3,4,10, Jonathan U Peled 4,10; 1 Leukemia Service, Department of Medicine, Memorial Sloan Kettering Cancer Center, New York, NY, USA. 2 Computational Oncology, Department of Epidemiology and Biostatistics, Memorial Sloan Kettering Cancer Center, New York, NY, USA. 3 Department of Immunology, Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center, New York, NY, USA. 4 Adult Bone Marrow Transplantation Service, Department of Medicine, Memorial Sloan Kettering Cancer Center, New York, NY, USA. 5 Department of Epidemiology and Biostatistics, Memorial Sloan Kettering Cancer Center, New York, NY, USA. 6 David M. Rubenstein Center for Pancreatic Cancer Research, Memorial Sloan Kettering Cancer Center, New York, NY, USA. 7 Department of Pathology and Laboratory Medicine, Memorial Sloan Kettering Cancer Center, New York, NY, USA. 8 Department of Pathology, Kyorin University, Mitaka City, Tokyo, Japan. 9 Program for Computational and System Biology, Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center, New York, NY, USA. 10 Weill Cornell Medical College, New York, NY, USA. 11 Human Oncology and Pathogenesis Program, Memorial Sloan Kettering Cancer Center, New York, NY, USA. 12 Departments of Genomic Medicine and Stem Cell Transplantation Cellular Therapy, Division of Cancer Medicine, University of Texas MD Anderson Cancer Center, Houston, TX, USA. 13 Clinical Research Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA. 14 Division of Medical Oncology, University of Washington, Seattle, WA, USA. 15 Bioinformatics Core Facility, Memorial Sloan Kettering Cancer Center, New York, NY, USA. 16 Physiology, Biophysics, and Systems Biology, Weill Cornell Medicine, Weill Cornell Medical College, New York, NY, USA. 17 Bristol Myers Squibb, Lawrenceville, NJ 08540, USA.

Health Consequences of Thymus Removal in Adults

Kooshesh KA, et al.
New England Journal of Medicine
August 2023
Authors and Affiliates
Kameron A Kooshesh 1, Brody H Foy 1, David B Sykes 1, Karin Gustafsson 1, David T Scadden 1; 1 From the Centers for Regenerative Medicine (K.A.K., D.B.S., K.G., D.T.S.) and Systems Biology (B.H.F.), Massachusetts General Hospital, the Harvard Stem Cell Institute (K.A.K., K.G., D.T.S.), the Department of Stem Cell and Regenerative Biology, Harvard University (K.A.K., K.G., D.T.S.), and Harvard Medical School (K.A.K., B.H.F., D.B.S., K.G., D.T.S.) - all in Boston.

Impact of age and telomere length on circulating T cells and rejection risk after lung transplantation for idiopathic pulmonary fibrosis

Snyder ME, et al.
Journal of Heart and Lung Transplantation
August 2023
Authors and Affiliates
Mark E Snyder 1, Michaela R Anderson 2, Luke J Benvenuto 3, Rachel M Sutton 4, Anna Bondonese 4, Ritchie Koshy 4, Robin Burke 4, Sarah Clifford 4, Andrew Craig 4, Carlo J Iasella 5, Stefanie J Hannan 4, Iulia Popescu 4, Yingze Zhang 4, Pablo G Sanchez 6, Jonathan K Alder 4, John F McDyer 7; 1 Department of Medicine, University of Pittsburgh; Department of Immunology, University of Pittsburgh; Starzl Transplantation Institute, Pittsburgh, PA. Electronic address: snyderme2@upmc.edu. 2 Department of Medicine, University of Pennsylvania, Philadelphia, PA. 3 Department of Medicine, Columbia University Irving Medical Center, New York, NY. 4 Department of Medicine, University of Pittsburgh. 5 Department of Medicine, University of Pittsburgh; Department of Pharmacology, University of Pittsburgh. 6 Department of Cardiothoracic Surgery, University of Pittsburgh. 7 Department of Medicine, University of Pittsburgh; Starzl Transplantation Institute, Pittsburgh, PA. Electronic address: mcdyerjf@upmc.edu.

Mesothelin-targeting T cell receptor fusion construct cell therapy in refractory solid tumors: phase 1/2 trial interim results

Hassan R, et al.
Nature Medicine
August 2023
Authors and Affiliates
Raffit Hassan 1, Marcus Butler 2, Roisin E O'Cearbhaill 3, David Y Oh 4, Melissa Johnson 5, Kevin Zikaras 6, Munisha Smalley 6, Michael Ross 6, Janos L Tanyi 7, Azam Ghafoor 8, Nirali N Shah 9, Babak Saboury 10, Liang Cao 11, Alfonso Quintás-Cardama 12, David Hong 13; 1 Thoracic and GI Malignancies Branch, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA. hassanr@mail.nih.gov. 2 Princess Margaret Cancer Centre, Toronto, ON, Canada. 3 Department of Medical Oncology, Memorial Sloan Kettering Cancer Center, Weill Cornell Medical College, New York, NY, USA. 4 Division of Hematology/Oncology, Department of Medicine, University of California, San Francisco, San Francisco, CA, USA. 5 Sarah Cannon Cancer Center, Nashville, TN, USA. 6 TCR2 Therapeutics, Cambridge, MA, USA. 7 Hospital of the University of Pennsylvania, Abramson Cancer Center, Philadelphia, PA, USA. 8 Thoracic and GI Malignancies Branch, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA. 9 Pediatric Oncology Branch, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA. 10 Department of Radiology and Imaging Sciences, Clinical Center, National Institutes of Health, Bethesda, MD, USA. 11 Genetics Branch, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA. 12 TCR2 Therapeutics, Cambridge, MA, USA. alfonso.quintas@tcr2.com. 13 Department of Investigational Cancer Therapeutics, The University of Texas MD Anderson Cancer Center, Houston, TX, USA. dshong@mdanderson.org.

Combination oncolytic virus, radiation therapy, and immune checkpoint inhibitor treatment in anti-PD-1-refractory cancer

Jhawar SR, et al.
Journal for ImmunoTherapy of Cancer
August 2023
Authors and Affiliates
Sachin R Jhawar 1, Shang-Jui Wang 1, Aditya Thandoni 2, Praveen K Bommareddy 3, Jenna H Newman 3, Amanda L Marzo 4, Timothy M Kuzel 4, Vineet Gupta 4, Jochen Reiser 4, Preston Daniels 4, Devora Schiff 3, Darrion Mitchell 1, Nicole R LeBoeuf 5,6, Christopher Simmons 7, Sharad Goyal 8, Ahmed Lasfar 3,9, Jose A Guevara-Patino 10, Bruce G Haffty 3, Howard L Kaufman 11, Ann W Silk 12,7, Andrew Zloza 13; 1 Department of Radiation Oncology, The Ohio State University Wexner Medical Center, Columbus, Ohio, USA. 2 Department of Orthopedic Surgery, Allegheny Health Network, Pittsburgh, Pennsylvania, USA. 3 Rutgers Cancer Institute of New Jersey, Rutgers, The State University of New Jersey, New Brunswick, New Jersey, USA. 4 Department of Internal Medicine, Rush University Medical Center, Chicago, Illinois, USA. 5 Harvard Medical School, Boston, Massachusetts, USA. 6 Department of Dermatology, Brigham and Women's Hospital, Boston, Massachusetts, USA. 7 Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, Massachusetts, USA. 8 Department of Radiology, The George Washington University School of Medicine and Health Sciences, Washington, District of Columbia, USA. 9 Department of Pharmacology and Toxicology, Ernest School of Pharmacy, Rutgers, The State University of New Jersey, Piscataway, New Jersey, USA. 10 Department of Immunology, Moffitt Cancer Center, Tampa, Florida, USA. 11 Department of Surgery, Massachusetts General Hospital, Boston, Massachusetts, USA. 12 Harvard Medical School, Boston, Massachusetts, USA andrewzloza@gmail.com ann_silk@dfci.harvard.edu. 13 Department of Internal Medicine, Rush University Medical Center, Chicago, Illinois, USA andrewzloza@gmail.com ann_silk@dfci.harvard.edu.

Clonal dynamics of alloreactive T cells in kidney allograft rejection after anti-PD-1 therapy

Dunlap GS, et al.
Nature Communications
August 2023
Authors and Affiliates
Garrett S Dunlap 1,2, Daniel DiToro 2,3, Joel Henderson 4, Sujal I Shah 2,3, Mike Manos 5, Mariano Severgnini 5, Astrid Weins 2,3, Indira Guleria 2,3, Patrick A Ott 2,5,6,7,8, Naoka Murakami # 9,10, Deepak A Rao # 11,12; 1 Division of Rheumatology, Inflammation, and Immunity, Brigham and Women's Hospital, Boston, MA, USA. 2 Harvard Medical School, Boston, MA, USA. 3 Department of Pathology, Brigham and Women's Hospital, Boston, MA, USA. 4 Department of Pathology, Boston Medical Center and Boston University, Boston, MA, USA. 5 Center for Immuno-Oncology, Dana-Farber Cancer Institute, Boston, MA, USA. 6 Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, MA, USA. 7 Broad Institute of MIT and Harvard, Cambridge, MA, USA. 8 Department of Medicine, Brigham and Women's Hospital, Boston, MA, USA. 9 Harvard Medical School, Boston, MA, USA. nmurakami1@bwh.harvard.edu. 10 Division of Renal Medicine, Brigham and Women's Hospital, Boston, MA, USA. nmurakami1@bwh.harvard.edu. 11 Division of Rheumatology, Inflammation, and Immunity, Brigham and Women's Hospital, Boston, MA, USA. darao@bwh.harvard.edu. 12 Harvard Medical School, Boston, MA, USA. darao@bwh.harvard.edu.

Intratumoral IFN-γ or topical TLR7 agonist promotes infiltration of melanoma metastases by T lymphocytes expanded in the blood after cancer vaccine

Tran CA, et al.
Journal of immunoTherapy of Cancer
August 2023
Authors and Affiliates
Christine A Tran 1, Kevin T Lynch 1, Max O Meneveau 1, Priya Katyal 2, Walter C Olson 1, Craig L Slingluff Jr 3,4; 1 Department of Surgery, University of Virginia Health, Charlottesville, Virginia, USA. 2 University of Virginia College and Graduate School of Arts and Sciences, Charlottesville, Virginia, USA. 3 Department of Surgery, University of Virginia Health, Charlottesville, Virginia, USA cls8h@virginia.edu. 4 Beirne Carter Center for Immunology Research, University of Virginia, Charlottesville, Virginia, USA.
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