Deep generative models for T cell receptor protein sequences

Davidsen et al.
eLIFE
September 2019
Authors and Affiliates
Davidsen K1,2, Olson BJ1,2, DeWitt WS 3rd1,2, Feng J1,2, Harkins E1,2, Bradley P1,2, Matsen FA 4th1,2.; 1 University of Washington, Seattle, United States. 2 Fred Hutchinson Cancer Research Center, Seattle, United States.

A Public BCR Present in a Unique Dual-Receptor-Expressing Lymphocyte from Type 1 Diabetes Patients Encodes a Potent T Cell Autoantigen

Ahmed et al.
Cell
May 2019
Authors and Affiliates
Ahmed R1, Omidian Z1, Giwa A2, Cornwell B1, Majety N1, Bell DR3, Lee S3, Zhang H4, Michels A5, Desiderio S6, Sadegh-Nasseri S1, Rabb H7, Gritsch S8, Suva ML9, Cahan P10, Zhou R11, Jie C12, Donner T7, Hamad ARA13; Author information 1 Department of Pathology, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA. 2 Department of Pediatrics, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA. 3 Computational Biology Center, IBM Thomas J. Watson Research Center, Yorktown Heights, NY 10598, USA. 4 Department of Molecular Microbiology and Immunology, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD 21205, USA. 5 Barbara Davis Center for Diabetes, University of Colorado, Aurora, CO 80045, USA. 6 Department of Molecular Biology and Genetics and Institute for Cell Engineering, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA. 7 Department of Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA. 8 Department of Pathology and Center for Cancer Research, Massachusetts General Hospital and Harvard Medical School, Boston, MA, 02114, USA. 9 Department of Pathology and Center for Cancer Research, Massachusetts General Hospital and Harvard Medical School, Boston, MA, 02114, USA; Broad Institute of Harvard and MIT, Cambridge, MA 02142, USA. 10 Department of Molecular Biology and Genetics and Institute for Cell Engineering, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA; Department of Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA. 11 Computational Biology Center, IBM Thomas J. Watson Research Center, Yorktown Heights, NY 10598, USA; Department of Chemistry, Columbia University, New York, NY 10027, USA. Electronic address: rz24@columbia.edu. 12 Department of Biochemistry and Nutrition, Des Moines University, Des Moines, IA 50312, USA. 13 Department of Pathology, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA; Department of Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA. Electronic address: ahamad@jhmi.edu.

Persistence of intrathecal oligoclonal B cells and IgG in multiple sclerosis

Tomescu-Baciu et al.
Journal of Neuroimmunology
May 2019
Authors and Affiliates
Tomescu-Baciu A1, Johansen JN1, Holmøy T2, Greiff V3, Stensland M4, de Souza GA4, Vartdal F1, Lossius A5; 1 Department of Immunology and Transfusion Medicine, Faculty of Medicine, University of Oslo and Oslo University Hospital Rikshospitalet, Oslo, Norway. 2 Department of Neurology, Akershus University Hospital, Lørenskog, Norway; Institute of Clinical Medicine, Faculty of Medicine, University of Oslo, Oslo, Norway. 3 Department of Immunology and Transfusion Medicine, Faculty of Medicine, University of Oslo and Oslo University Hospital Rikshospitalet, Oslo, Norway; Institute of Clinical Medicine, Faculty of Medicine, University of Oslo, Oslo, Norway. 4 Department of Immunology and Transfusion Medicine, Faculty of Medicine, University of Oslo and Oslo University Hospital Rikshospitalet, Oslo, Norway; Proteomics Core Facility, Oslo University Hospital Rikshospitalet, NO-0372 Oslo, Norway. 5 Department of Immunology and Transfusion Medicine, Faculty of Medicine, University of Oslo and Oslo University Hospital Rikshospitalet, Oslo, Norway; Department of Neurology, Akershus University Hospital, Lørenskog, Norway. Electronic address: andreas.lossius@medisin.uio.no.

Teriflunomide treatment for multiple sclerosis modulates T cell mitochondrial respiration with affinity-dependent effects

Klotz et al.
Science Translational Medicine
May 2019
Authors and Affiliates
Klotz L1, Eschborn M2, Lindner M2, Liebmann M2, Herold M2, Janoschka C2, Torres Garrido B2, Schulte-Mecklenbeck A2, Gross CC2, Breuer J2, Hundehege P2, Posevitz V2, Pignolet B3, Nebel G4, Glander S5, Freise N6, Austermann J6, Wirth T2, Campbell GR7, Schneider-Hohendorf T2, Eveslage M8, Brassat D3, Schwab N2, Loser K9, Roth J6, Busch KB4, Stoll M5,10, Mahad DJ7, Meuth SG2, Turner T11, Bar-Or A12, Wiendl H2,13; 1 University Hospital Münster, Department of Neurology with Institute of Translational Neurology, 48149 Münster, Germany. luisa.klotz@ukmuenster.de. 2 University Hospital Münster, Department of Neurology with Institute of Translational Neurology, 48149 Münster, Germany. 3 CRC-SEP, Neurosciences Department, Toulouse University Hospital and INSERM U1043 - CNRS UMR 5282, Centre de Physiopathologie Toulouse-Purpan, Université Toulouse III, 31300 Toulouse, France. 4 University of Münster, Institute of Molecular Cell Biology, 48149 Münster, Germany. 5 University of Münster, Department of Genetic Epidemiology, 48149 Münster, Germany. 6 University of Münster, Department of Immunology, 48149 Münster, Germany. 7 University of Edinburgh, Centre for Clinical Brain Sciences, EH8 9YL Edinburgh, UK. 8 University of Münster, Institute of Biostatistics and Clinical Research, 48149 Münster, Germany. 9 University Hospital Münster, Department of Dermatology, 48149 Münster, Germany. 10 Department of Biochemistry, Cardiovascular Research Institute Maastricht, Maastricht University, 6229 ER Maastricht, Netherlands. 11 Sanofi Genzyme, Cambridge, MA 02142, USA. 12 Center for Neuroinflammation and Experimental Therapeutics and Department of Neurology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA. 13 Brain and Mind Centre, Medical Faculty, University of Sydney, Sydney, Camperdown, NSW 2050, Australia.

A novel human IL2RB mutation results in T and NK cell-driven immune dysregulation

Fernandez et al.
Journal of Experimental Medicine
April 2019
Authors and Affiliates
Fernandez IZ#1, Baxter RM#1, Garcia-Perez JE1, Vendrame E2, Ranganath T2, Kong DS1, Lundquist K3, Nguyen T4, Ogolla S1, Black J5, Galambos C5, Gumbart JC3, Dawany N6, Kelsen JR7, de Zoeten EF4, Quinones R8, Eissa H8, Verneris MR8, Sullivan KE9, Rochford R1, Blish CA2,10, Kedl RM#11, Dutmer CM#12, Hsieh EWY#13,14; 1 Department of Immunology and Microbiology, University of Colorado School of Medicine, Aurora, CO. 2 Department of Medicine, Stanford University School of Medicine, Stanford, CA. 3 School of Physics, Georgia Institute of Technology, Atlanta, GA. 4 Department of Pediatrics, Division of Gastroenterology, Hepatology and Nutrition, University of Colorado School of Medicine, Digestive Health Institute, Children's Hospital Colorado, Aurora, CO. 5 Department of Pathology and Laboratory Medicine, University of Colorado School of Medicine, Children's Hospital Colorado, Aurora, CO. 6 Department of Biomedical and Health Informatics, Children's Hospital of Philadelphia, Philadelphia, PA. 7 Department of Pediatrics, Division of Gastroenterology, Children's Hospital of Philadelphia, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA. 8 Department of Pediatrics, Division of Hematology/Oncology and Blood and Marrow Transplantation, University of Colorado School of Medicine, Children's Hospital Colorado, Aurora, CO. 9 Department of Pediatrics, Division of Allergy and Immunology, Children's Hospital of Philadelphia, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA. 10 Immunology Program, School of Medicine, Stanford University, Stanford, CA. 11 Department of Immunology and Microbiology, University of Colorado School of Medicine, Aurora, CO ross.kedl@ucdenver.edu. 12 Department of Pediatrics, Section of Allergy and Immunology, University of Colorado School of Medicine, Children's Hospital Colorado, Aurora, CO cullen.dutmer@childrenscolorado.org. 13 Department of Immunology and Microbiology, University of Colorado School of Medicine, Aurora, CO elena.hsieh@ucdenver.edu. 14 Department of Pediatrics, Section of Allergy and Immunology, University of Colorado School of Medicine, Children's Hospital Colorado, Aurora, CO. # Contributed equally

AIRE expression controls the peripheral selection of autoreactive B cells

Sng et al.
Science Immunology
April 2019
Authors and Affiliates
Sng J1, Ayoglu B2, Chen JW1, Schickel JN1, Ferre EMN3, Glauzy S1, Romberg N4,5, Hoenig M6, Cunningham-Rundles C7, Utz PJ2,8, Lionakis MS3, Meffre E9 1 Department of Immunobiology, Yale University School of Medicine, New Haven, CT 06511, USA. 2 School of Medicine, Division of Immunology and Rheumatology, Stanford University, Stanford, CA 94305, USA. 3 Laboratory of Clinical Immunology and Microbiology, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD USA. 4 Division of Immunology and Allergy, Children's Hospital of Philadelphia, Philadelphia, PA, USA. 5 Department of Pediatrics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA. 6 Department of Pediatrics, University Medical Centre Ulm, Ulm, Germany. 7 Division of Allergy and Immunology, Department of Medicine, Icahn School of Medicine, Mount Sinai, New York, NY 10029, USA. 8 Institute for Immunity, Transplantation, and Infection (ITI), Stanford University, Stanford, CA 94305, USA. 9 Department of Immunobiology, Yale University School of Medicine, New Haven, CT 06511, USA. eric.meffre@yale.edu.

Immune profiling of a patient with alemtuzumab-associated progressive multifocal leukoencephalopathy

Gerevini et al.
Multiple Sclerosis
April 2019
Authors and Affiliates
Gerevini S1, Capra R2, Bertoli D3, Sottini A4, Imberti L4; Department of Neuroradiology, IRCCS San Raffaele Hospital, Milan, Italy. 2 Multiple Sclerosis Center, ASST Spedali Civili di Brescia, Brescia, Italy. 3 Department of Molecular and Translational Medicine, University of Brescia, Brescia, Italy/Centro di Ricerca Emato-oncologica AIL (CREA), Diagnostic Department, ASST Spedali Civili di Brescia, Brescia, Italy. 4 Centro di Ricerca Emato-oncologica AIL (CREA), Diagnostic Department, ASST Spedali Civili di Brescia, Brescia, Italy.

Crossreactive public TCR sequences undergo positive selection in the human thymic repertoire

Khosravi-Maharlooei et al.
Journal of Clinical Investigation
March 2019
Authors and Affiliates
Khosravi-Maharlooei M1, Obradovic A1, Misra A1, Motwani K2, Holzl M1, Seay HR2, DeWolf S1, Nauman G1,3, Danzl N1, Li H1, Ho SH1, Winchester R4, Shen Y5, Brusko TM2, Sykes M1,3,6; Columbia Center for Translational Immunology, Department of Medicine, Columbia University Medical Center, Columbia University, New York, New York, USA. 2 Department of Pathology, Immunology and Laboratory Medicine, University of Florida, Gainesville, Florida, USA. 3 Department of Microbiology and Immunology, Columbia University Medical Center, Columbia University, New York, New York, USA. 4 Division of Rheumatology, Department of Medicine. 5 Center for Computational Biology and Bioinformatics, and. 6 Department of Surgery, Columbia University Medical Center, Columbia University, New York, New York, USA.

A late B lymphocyte action in dysfunctional tissue repair following kidney injury and transplantation

Cippà et al.
Nature Communications
March 2019
Authors and Affiliates
Cippà PE1,2, Liu J3, Sun B4, Kumar S3, Naesens M5,6, McMahon AP7. 1 Department of Stem Cell Biology and Regenerative Medicine, Eli and Edythe Broad Center for Regenerative Medicine and Stem Cell Research, University of Southern California, Los Angeles, 90033-9080, CA, USA. pietro.cippa@eoc.ch. 2 Division of Nephrology, Regional Hospital Lugano, Lugano, 6900, Switzerland. pietro.cippa@eoc.ch. 3 Department of Stem Cell Biology and Regenerative Medicine, Eli and Edythe Broad Center for Regenerative Medicine and Stem Cell Research, University of Southern California, Los Angeles, 90033-9080, CA, USA. 4 Molecular and Computational Biology, University of Southern California, Los Angeles, 90089-2910, CA, USA. 5 Department of Microbiology and Immunology, KU Leuven, Leuven, 3000, Belgium. 6 Department of Nephrology and Kidney Transplantation, University Hospitals Leuven, Leuven, 3000, Belgium. 7 Department of Stem Cell Biology and Regenerative Medicine, Eli and Edythe Broad Center for Regenerative Medicine and Stem Cell Research, University of Southern California, Los Angeles, 90033-9080, CA, USA. amcmahon@med.usc.edu.