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Human thymic T cell repertoire is imprinted with strong convergence to shared sequences

Heikkilä N., et al.
Molecular Immunology
September 2020
Authors and Affiliates
Nelli Heikkilä a,*, Reetta Vanhanen b, Dawit A. Yohannes c, Iivari Kleino d, Ilkka P. Mattila e, Jari Saramäki f, T. Petteri Arstila g; a Research Programs Unit, Translational Immunology and Medicum, Department of Bacteriology and Immunology, University of Helsinki. Haartmaninkatu 3, 00290 Helsinki, Finland b Research Programs Unit, Translational Immunology and Medicum, Department of Bacteriology and Immunology, University of Helsinki. Haartmaninkatu 3, 00290 Helsinki, Finland c Research Programs Unit, Translational Immunology and Medicum, Department of Medical and Clinical Genetics, University of Helsinki. Haartmaninkatu 8, 00290 Helsinki, Finland d Research Programs Unit, Translational Immunology, University of Helsinki. Haartmaninkatu 3, 00290 Helsinki, Finland e Department of Pediatric Cardiac and Transplantation Surgery, Hospital for Children and Adolescents, Helsinki University Central Hospital. Stenbäckinkatu 9, 00290 Helsinki, Finland f Department of Computer Science, Aalto University. Konemiehentie 2, 02150 Espoo, Finland g Research Programs Unit, Translational Immunology and Medicum, Department of Bacteriology and Immunology, University of Helsinki. Haartmaninkatu 3, 00290 Helsinki, Finland

Exhaustion of tumour-infiltrating T-cell receptor repertoirediversity is an age-dependent indicator of immunological fit-ness independently predictive of clinical outcome in Burkittlymphoma

Rieken J., et al.
British Journal of Haematology
September 2020
Authors and Affiliates
Johannes Rieken 1, Veronica Bernard 2, Hanno M Witte 1,3, Wolfgang Peter 4, Hartmut Merz 2, Vito Olschewski 1, Lars Hertel 5, Hendrik Lehnert 6, Harald Biersack 1, Nikolas von Bubnoff 1, Alfred C Feller 2, Niklas Gebauer 1; 1 Department of Haematology and Oncology, University Hospital of Schleswig-Holstein, Luebeck, Germany. 2 Hämatopathologie Lübeck, Reference Centre for Lymph Node Pathology and Haematopathology, Lübeck, Germany. 3 Department of Haematology and Oncology, Federal Armed Hospital Ulm, Ulm, Germany. 4 HLA Typing Laboratory of the Stefan-Morsch-Foundation, Birkenfeld, Germany. 5 Department of Neuro- and Bioinformatics, University Hospital of Schleswig-Holstein, Luebeck, Germany. 6 Department of Internal Medicine I, University Hospital of Schleswig-Holstein, Luebeck, Germany.

CBFB-MYH11 fusion neoantigen enables T cell recognition and killing of acute myeloid leukemia

Biernacki MA., et al.
JCI
Journal of Clinical Investigation
September 2020
Authors and Affiliates
Melinda A Biernacki 1,2, Kimberly A Foster 1, Kyle B Woodward 1, Michael E Coon 1, Carrie Cummings 1, Tanya M Cunningham 1, Robson G Dossa 1, Michelle Brault 1, Jamie Stokke 1,3, Tayla M Olsen 1, Kelda Gardner 2, Elihu Estey 1,2, Soheil Meshinchi 1,3, Anthony Rongvaux 1,4, Marie Bleakley 1,3; 1 Clinical Research Division, Fred Hutchinson Cancer Research Center, Seattle, Washington, USA. 2 Department of Medicine. 3 Department of Pediatrics, and. 4 Department of Immunology, University of Washington, Seattle, Washington, USA.

IL-32γ potentiates tumor immunity in melanoma

Gruber T., et al.
JCI Insight
September 2020
Authors and Affiliates
Thomas Gruber 1,2, Mirela Kremenovic 1,2, Hassan Sadozai 1,2, Nives Rombini 1, Lukas Baeriswyl 1, Fabienne Maibach 1, Robert L Modlin 3, Michel Gilliet 4, Diego von Werdt 1,2, Robert E Hunger 5, S Morteza Seyed Jafari 5, Giulia Parisi 6, Gabriel Abril-Rodriguez 6, Antoni Ribas 6, Mirjam Schenk 1; 1 Institute of Pathology, Experimental Pathology, and. 2 Graduate School Cellular and Biomedical Sciences, University of Bern, Bern, Switzerland. 3 Division of Dermatology, Department of Medicine and Department of Microbiology, Immunology and Molecular Genetics, David Geffen School of Medicine at UCLA, Los Angeles, California, USA. 4 Department of Dermatology, Lausanne University Hospital, Lausanne, Switzerland. 5 Department of Dermatology, Inselspital, University Hospital of Bern, University of Bern, Bern, Switzerland. 6 Division of Hematology-Oncology, Department of Medicine, David Geffen School of Medicine at UCLA, and UCLA Jonsson Comprehensive Cancer Center, UCLA, Los Angeles, California, USA.

Long-term robustness of a T-cell system emerging from somatic rescue of a genetic block in T-cell development

Kury P., et al.
EBio Medicine
September 2020
Authors and Affiliates
Patrick Kury 1, Marita Führer 2, Sebastian Fuchs 3, Myriam R Lorenz 4, Orlando Bruno Giorgetti 5, Shahrzad Bakhtiar 6, Andreas P Frei 3, Paul Fisch 7, Thomas Boehm 5, Klaus Schwarz 8, Carsten Speckmann 9, Stephan Ehl 10; 1 Institute for Immunodeficiency, Center for Chronic Immunodeficiency (CCI), Medical Center - University of Freiburg, Faculty of Medicine, University of Freiburg, Breisacher Straße 115, 79106 Freiburg, Germany; Faculty of Biology, University of Freiburg, Schaenzlestrasse 1, D-79104 Freiburg, Germany. 2 Institute for Clinical Transfusion Medicine and Immunogenetics Ulm, German Red Cross Blood Service, Baden-Wuerttemberg - Hessen, Ulm, Germany. 3 Roche Pharma Research and Early Development, Immunology, Infectious Diseases and Ophthalmology (I2O) Discovery and Translational Area, Roche Innovation Center Basel, Basel, Switzerland. 4 Institute for Transfusion Medicine, University of Ulm, Ulm, Germany. 5 Department of Developmental Immunology, Max Planck Institute of Immunobiology and Epigenetics Freiburg, Freiburg, Germany. 6 Division for Pediatric Stem-Cell Transplantation, Immunology and Intensive Medicine, University Hospital Frankfurt, Frankfurt/Main, Germany. 7 Department of Pathology, Faculty of Medicine, University of Freiburg, Freiburg, Germany. 8 Institute for Clinical Transfusion Medicine and Immunogenetics Ulm, German Red Cross Blood Service, Baden-Wuerttemberg - Hessen, Ulm, Germany; Institute for Transfusion Medicine, University of Ulm, Ulm, Germany. 9 Institute for Immunodeficiency, Center for Chronic Immunodeficiency (CCI), Medical Center - University of Freiburg, Faculty of Medicine, University of Freiburg, Breisacher Straße 115, 79106 Freiburg, Germany; Center for Pediatrics, Department of Pediatric Hematology and Oncology, University Medical Center, Faculty of Medicine, University of Freiburg, Freiburg, Germany. 10 Institute for Immunodeficiency, Center for Chronic Immunodeficiency (CCI), Medical Center - University of Freiburg, Faculty of Medicine, University of Freiburg, Breisacher Straße 115, 79106 Freiburg, Germany; CIBBS -Centre for Integrative Biological Signaling Studies, University of Freiburg, Freiburg, Germany. Electronic address: stephan.ehl@uniklinik-freiburg.de.

Radiation induces dynamic changes to the T cell repertoire in renal cell carcinoma patients

Chow J., et al.
PNAS
September 2020
Authors and Affiliates
Jacky Chow 1, Nicholas C Hoffend 1, Scott I Abrams 1, Thomas Schwaab 1,2, Anurag K Singh 3, Jason B Muhitch 4,2; 1 Department of Immunology, Roswell Park Comprehensive Cancer Center, Buffalo, NY 14263. 2 Department of Urology, Roswell Park Comprehensive Cancer Center, Buffalo, NY 14263. 3 Department of Radiation Medicine, Roswell Park Comprehensive Cancer Center, Buffalo, NY 14263. 4 Department of Immunology, Roswell Park Comprehensive Cancer Center, Buffalo, NY 14263; jason.muhitch@roswellpark.org.

Benchmarking of T cell receptor repertoire profiling methods reveals large systematic biases

Barennes P., et al.
Nature Biotechnology
September 2020
Authors and Affiliates
Pierre Barennes 1,2, Valentin Quiniou 1,2, Mikhail Shugay 3,4,5, Evgeniy S Egorov 4, Alexey N Davydov 6, Dmitriy M Chudakov 3,4,5,6, Imran Uddin 7, Mazlina Ismail 7, Theres Oakes 7, Benny Chain 7, Anne Eugster 8, Karl Kashofer 9, Peter P Rainer 10,11, Samuel Darko 12, Amy Ransier 12, Daniel C Douek 12, David Klatzmann 1,2, Encarnita Mariotti-Ferrandiz 13,14; 1 Sorbonne Université, INSERM, Immunology-Immunopathology-Immunotherapy (i3), Paris, France. 2 AP-HP, Hôpital Pitié-Salpêtrière, Biotherapy (CIC-BTi) and Inflammation-Immunopathology-Biotherapy Department (i2B), Paris, France. 3 Center of Life Sciences, Skoltech, Moscow, Russia. 4 Genomics of Adaptive Immunity Department, Shemyakin and Ovchinnikov Institute of Bioorganic Chemistry, Moscow, Russia. 5 Center for Precision Genome Editing and Genetic Technologies for Biomedicine, Pirogov Russian National Research Medical University, Moscow, Russia. 6 Adaptive Immunity Group, Central European Institute of Technology, Brno, Czechia. 7 Division of Infection and Immunity, University College London, London, UK. 8 DFG-Centre for Regenerative Therapies Dresden, Faculty of Medicine Carl Gustav Carus, Technische Universität Dresden, Dresden, Germany. 9 Diagnostic and Research Institute of Pathology, Medical University of Graz, Graz, Austria. 10 Division of Cardiology, Medical University of Graz, Graz, Austria. 11 BioTechMed-Graz, Graz, Austria. 12 Vaccine Research Center, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, USA. 13 Sorbonne Université, INSERM, Immunology-Immunopathology-Immunotherapy (i3), Paris, France. encarnita.mariotti@sorbonne-universite.fr. 14 AP-HP, Hôpital Pitié-Salpêtrière, Biotherapy (CIC-BTi) and Inflammation-Immunopathology-Biotherapy Department (i2B), Paris, France. encarnita.mariotti@sorbonne-universite.fr.

Ultra-efficient sequencing of T Cell receptor repertoires reveals shared responses in muscle from patients with Myositis

Montagne JM., et al.
EBio Medicine
September 2020
Authors and Affiliates
Janelle M Montagne 1, Xuwen Alice Zheng 1, Iago Pinal-Fernandez 2, Jose C Milisenda 3, Lisa Christopher-Stine 4, Thomas E Lloyd 5, Andrew L Mammen 2, H Benjamin Larman 6; 1 Division of Immunology, Pathology Department, Johns Hopkins University School of Medicine, Baltimore, MD, USA; Institute for Cell Engineering, Johns Hopkins University School of Medicine, Baltimore, MD, USA. 2 Muscle Disease Unit, Laboratory of Muscle Stem Cells and Gene Regulations, National Institute of Arthritis and Musculoskeletal and Skin Diseases, National Institutes of Health, Bethesda, MD, USA; Department of Neurology, Johns Hopkins University School of Medicine, Baltimore, MD, USA. 3 Internal Medicine Department, Hospital Clinic, Universitat de Barcelona, Barcelona, Spain and Centro de Investigación Médica en Red Enfermedades Raras. 4 Division of Rheumatology, Johns Hopkins University School of Medicine, Baltimore, MD, USA. 5 Department of Neurology, Johns Hopkins University School of Medicine, Baltimore, MD, USA. 6 Division of Immunology, Pathology Department, Johns Hopkins University School of Medicine, Baltimore, MD, USA; Institute for Cell Engineering, Johns Hopkins University School of Medicine, Baltimore, MD, USA. Electronic address: hlarman1@jhmi.edu.

Integrated genomic analysis reveals mutated ELF3 as a potential gallbladder cancer vaccine candidate

Pandey A., et al.
Nature Communications
September 2020
Authors and Affiliates
Akhilesh Pandey 1,2,3, Eric W Stawiski 4,5,6, Steffen Durinck 7,8, Harsha Gowda 9,10, Leonard D Goldstein 7,8, Mustafa A Barbhuiya 9,11, Markus S Schröder 8,12, Sreelakshmi K Sreenivasamurthy 9, Sun-Whe Kim 13, Sameer Phalke 14, Kushal Suryamohan 15, Kayla Lee 15, Papia Chakraborty 15, Vasumathi Kode 15, Xiaoshan Shi 15, Aditi Chatterjee 9, Keshava Datta 9, Aafaque A Khan 9, Tejaswini Subbannayya 9, Jing Wang 15, Subhra Chaudhuri 8, Sanjiv Gupta 16, Braj Raj Shrivastav 17, Bijay S Jaiswal 8, Satish S Poojary 18, Shushruta Bhunia 18, Patricia Garcia 19, Carolina Bizama 19, Lorena Rosa 20, Wooil Kwon 13, Hongbeom Kim 13, Youngmin Han 13, Thakur Deen Yadav 21, Vedam L Ramprasad 14, Amitabha Chaudhuri 15, Zora Modrusan 8, Juan Carlos Roa 19, Pramod Kumar Tiwari 18, Jin-Young Jang 22, Somasekar Seshagiri 23,24; 1 Institute of Bioinformatics, Bangalore, Karnataka, 560066, India. pandey.akhilesh@mayo.edu. 2 Manipal Academy of Higher Education (MAHE), Manipal, Karnataka, 576104, India. pandey.akhilesh@mayo.edu. 3 Center for Individualized Medicine and Department of Laboratory Medicine and Pathology, Mayo Clinic, Rochester, MN, 55905, USA. pandey.akhilesh@mayo.edu. 4 Bioinformatics and Computational Biology Department, Genentech Inc, South San Francisco, CA, 94080, USA. eric.s@medgenome.com. 5 Molecular Biology Department, Genentech Inc., South San Francisco, CA, 94080, USA. eric.s@medgenome.com. 6 Research and Development Department, MedGenome Inc, Foster City, CA, 94404, USA. eric.s@medgenome.com. 7 Bioinformatics and Computational Biology Department, Genentech Inc, South San Francisco, CA, 94080, USA. 8 Molecular Biology Department, Genentech Inc., South San Francisco, CA, 94080, USA. 9 Institute of Bioinformatics, Bangalore, Karnataka, 560066, India. 10 QIMR Berghofer Medical Research Institute, Brisbane, QLD, 4006, Australia. 11 Department of Pathology and Laboratory Medicine, Pennsylvania State University College of Medicine, Hershey, PA, 17033, USA. 12 SciGenom Labs, Cochin, Kerala, 682037, India. 13 Department of Surgery, Division of Hepatobiliary and Pancreatic Surgery, Seoul National University Hospital, Seoul National University College of Medicine, Seoul, 08826, South Korea. 14 Research and Development Department, MedGenome Labs Pvt. Ltd., Bangalore, Karnataka, 560099, India. 15 Research and Development Department, MedGenome Inc, Foster City, CA, 94404, USA. 16 Department of Pathology, Cancer Hospital and Research Institute, Gwalior, Madhya Pradesh, 474009, India. 17 Department of Surgical Oncology, Cancer Hospital and Research Institute, Gwalior, Madhya Pradesh, 474009, India. 18 Jiwaji University, Gwalior, Madhya Pradesh, 474011, India. 19 Department of Pathology, Millennium Institute on Immunology and Immunotherapy, School of Medicine, Pontificia Universidad Católica de Chile, Santiago, Chile. 20 Applied Molecular and Cellular Biology PhD Program Universidad De la Frontera, Temuco, Chile. 21 Department of Surgery, Postgraduate Institute of Medical Education and Research, Chandigarh, 160012, India. 22 Department of Surgery, Division of Hepatobiliary and Pancreatic Surgery, Seoul National University Hospital, Seoul National University College of Medicine, Seoul, 08826, South Korea. jangjy4@snu.ac.kr. 23 Molecular Biology Department, Genentech Inc., South San Francisco, CA, 94080, USA. sekar@sgrf.org. 24 SciGenom Research Foundation, 3rd Floor, Narayana Nethralaya Building, Narayana Health City, #258/A, Bommasandra, Hosur Road, Bangalore, Karnataka, 560099, India. sekar@sgrf.org.
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