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Single cell analysis of host response to helminth infection reveals the clonal breadth, heterogeneity, and tissue-specific programming of the responding CD4+ T cell repertoire

Brown IK, et al.
PLOS Pathogens
June 2021
Authors and Affiliates
Ivy K Brown 1, Nathan Dyjack 2, Mindy M Miller 1, Harsha Krovi 3, Cydney Rios 2, Rachel Woolaver 3, Laura Harmacek 2, Ting-Hui Tu 2, Brian P O'Connor 2,3,4, Thomas Danhorn 2, Brian Vestal 2, Laurent Gapin 3, Clemencia Pinilla 5, Max A Seibold 2,4,6, James Scott-Browne 1,2,3, Radleigh G Santos 7, R Lee Reinhardt 1,3; 1 Department of Immunology and Genomic Medicine, National Jewish Health, Denver, Colorado, United States of America. 2 Center for Genes, Environment, and Health, National Jewish Health, Denver, Colorado, United States of America. 3 Department of Immunology and Microbiology, University of Colorado Anschutz Medical Campus, Aurora, Colorado, United States of America. 4 Department of Pediatrics, National Jewish Health, Denver, Colorado, United States of America. 5 Florida International University, Port Saint Lucie, Florida, United States of America. 6 Division of Pulmonary Sciences and Critical Care Medicine, University of Colorado School of Medicine, Aurora, Colorado, United States of America. 7 Department of Mathematics, Nova Southeastern University, Fort Lauderdale, Florida, United States of America.

B cell signatures and tertiary lymphoid structures contribute to outcome in head and neck squamous cell carcinoma

Ruffin AT, et al.
Nature Communications
June 2021
Authors and Affiliates
Ayana T Ruffin 1,2,3,4, Anthony R Cillo 1,2,4, Tracy Tabib 5, Angen Liu 6, Sayali Onkar 1,2,3,4, Sheryl R Kunning 1,2,4, Caleb Lampenfeld 1,2,4, Huda I Atiya 4,7, Irina Abecassis 1,2,4, Cornelius H L Kürten 8, Zengbiao Qi 5, Ryan Soose 6, Umamaheswar Duvvuri 4,5, Seungwon Kim 6, Steffi Oesterrich 4,9,10, Robert Lafyatis 5,6, Lan G Coffman 4,7, Robert L Ferris 1,2,4,6,11, Dario A A Vignali 1,2,4,11, Tullia C Bruno 12,13,14,15; 1 Department of Immunology, University of Pittsburgh, Pittsburgh, PA, USA. 2 Tumor Microenvironment Center, Hillman Cancer Center, University of Pittsburgh, Pittsburgh, PA, USA. 3 Program in Microbiology and Immunology, University of Pittsburgh School of Medicine, Pittsburgh, PA, USA. 4 Hillman Cancer Center, Pittsburgh, PA, USA. 5 Department of Medicine, University of Pittsburgh, Pittsburgh, PA, USA. 6 Department of Otolaryngology, University of Pittsburgh, Pittsburgh, PA, USA. 7 Division of Hematology and Oncology, Department of Medicine, Hillman Cancer Center, Pittsburgh, PA, USA. 8 Department of Otorhinolaryngology, University Duisburg-Essen, Essen, Germany. 9 Department of Pharmacology and Chemical Biology, University of Pittsburgh, Pittsburgh, PA, USA. 10 Women's Cancer Research Center, Magee-Womens Research Institute, University of Pittsburgh, Pittsburgh, PA, USA. 11 Cancer Immunology and Immunotherapy Program, UPMC Hillman Cancer Center, Pittsburgh, PA, USA. 12 Department of Immunology, University of Pittsburgh, Pittsburgh, PA, USA. tbruno@pitt.edu. 13 Tumor Microenvironment Center, Hillman Cancer Center, University of Pittsburgh, Pittsburgh, PA, USA. tbruno@pitt.edu. 14 Hillman Cancer Center, Pittsburgh, PA, USA. tbruno@pitt.edu. 15 Cancer Immunology and Immunotherapy Program, UPMC Hillman Cancer Center, Pittsburgh, PA, USA. tbruno@pitt.edu.

Immunogenicity of Ad26.COV2.S vaccine against SARS-CoV-2 variants in humans

Alter G, et al.
Nature
June 2021
Authors and Affiliates
Galit Alter 1,2,9, Jingyou Yu 1,9, Jinyan Liu 1,9, Abishek Chandrashekar 1,9, Erica N. Borducchi 1,9, Lisa H. Tostanoski 1,9, Katherine McMahan 1,9, Catherine Jacob-Dolan 1,3,9, David R. Martinez 4, Aiquan Chang 1,3, Tochi Anioke 1, Michelle Lifton 1, Joseph Nkolola 1, Kathryn E. Stephenson 1, Caroline Atyeo 2,3, Sally Shin 2, Paul Fields 5, Ian Kaplan 5, Harlan Robins 5, Fatima Amanat 6, Florian Krammer 6, Ralph S. Baric 4, Mathieu Le Gars 7, Jerald Sadoff 7, Anne Marit de Groot 7, Dirk Heerwegh 8, Frank Struyf 8, Macaya Douoguih 7, Johan van Hoof 7, Hanneke Schuitemaker 7 and Dan H. Barouch 1,2,3; 1 Center for Virology and Vaccine Research, Beth Israel Deaconess Medical Center, Boston, MA, USA. 2 Ragon Institute of MGH, MIT and Harvard, Cambridge, MA, USA. 3 Harvard Medical School,Boston, MA, USA. 4 University of North Carolina at Chapel Hill, Chapel Hill, NC, USA. 5 Adaptive Biotechnologies, Seattle, WA, USA. 6 Icahn School of Medicine at Mount Sinai, New York, NY, USA. 7 Janssen Vaccines & Prevention, Leiden, The Netherlands. 8 Janssen Research & Development, Beerse, Belgium. 9 These authors contributed equally: Galit Alter, Jingyou Yu, Jinyan Liu, Abishek Chandrashekar, Erica N. Borducchi, Lisa H. Tostanoski, Katherine McMahan, Catherine Jacob-Dolan.

Shared transcriptional profiles of atypical B cells suggest common drivers of expansion and function in malaria, HIV, and autoimmunity

Holla P, et al.
Science Advances
June 2021
Authors and Affiliates
Prasida Holla 1, Brian Dizon 2, Abhijit A Ambegaonkar 1, Noga Rogel 3, Ella Goldschmidt 3, Arun K Boddapati 4, Haewon Sohn 1, Dan Sturdevant 5, James W Austin 6, Lela Kardava 6, Li Yuesheng 7, Poching Liu 7, Susan Moir 6, Susan K Pierce 8, Asaf Madi 9; 1 Laboratory of Immunogenetics, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Rockville, MD, USA. 2 National Institute of Arthritis and Musculoskeletal and Skin Diseases, National Institutes of Health, Bethesda, MD, USA. 3 Department of Pathology, Sackler School of Medicine, Tel Aviv University, Israel. 4 NIAID Collaborative Bioinformatics Resource, National Institutes of Health, Bethesda, MD, USA. 5 RML Genomics Unit, Research Technologies Section, Rocky Mountain Laboratories, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Hamilton, MT, USA. 6 Laboratory of Immunoregulation, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, USA. 7National Heart, Lung, and Blood Institute, National Institutes of Health, Bethesda, MD, USA. 8Laboratory of Immunogenetics, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Rockville, MD, USA. asafmadi@gmail.com spierce@nih.gov. 9Department of Pathology, Sackler School of Medicine, Tel Aviv University, Israel. asafmadi@gmail.com spierce@nih.gov.

Identification of antigen-specific TCR sequences based on biological and statistical enrichment in unselected subjects

Smith NP, et al.
JCI Insight
June 2021
Authors and Affiliates
Neal P Smith 1, Bert Ruiter 1, Yamini V Virkud 1, Ang A Tu 2, Brinda Monian 2, James J Moon 1, J Christopher Love 2, Wayne G Shreffler 1; 1 Center for Immunology and Inflammatory Diseases, Massachusetts General Hospital, Boston, United States of America. 2 Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, United States of America.

Clonal analysis of immunodominance and cross-reactivity of the CD4 T cell response to SARS-CoV-2

Low JS, et al.
Science
June 2021
Authors and Affiliates
Jun Siong Low 1, Daniela Vaqueirinho 1, Federico Mele 1, Mathilde Foglierini 1, Josipa Jerak 1, Michela Perotti 1, David Jarrossay 1, Sandra Jovic 1, Laurent Perez 1, Rosalia Cacciatore 2, Tatiana Terrot 3, Alessandra Franzetti Pellanda 4, Maira Biggiogero 4, Christian Garzoni 4, Paolo Ferrari 5,6,7, Alessandro Ceschi 3,5,8,9, Antonio Lanzavecchia 10, Federica Sallusto 11,12, Antonino Cassotta 11; 1 Institute for Research in Biomedicine, Università della Svizzera Italiana, 6500 Bellinzona, Switzerland. 2 Laboratory of Immunogenetics, Department of Transfusion Medicine and Immuno-Hematology, Fondazione I.R.C.C.S. Policlinico S. Matteo, 27100 Pavia, Italy. 3 Clinical Trial Unit, Ente Ospedaliero Cantonale, 6500 Bellinzona, Switzerland. 4 Clinic of Internal Medicine and Infectious Diseases, Clinica Luganese Moncucco, 6900 Lugano, Switzerland. 5 Faculty of Biomedical Sciences, Università della Svizzera italiana, 6900 Lugano, Switzerland. 6 Department of Internal Medicine, Ente Ospedaliero Cantonale, 6500 Bellinzona, Switzerland. 7 Prince of Wales Hospital Clinical School, University of New South Wales, Sydney, New South Wales 2052, Australia. 8 Division of Clinical Pharmacology and Toxicology, Institute of Pharmacological Sciences of Southern Switzerland, Ente Ospedaliero Cantonale, 6900 Lugano, Switzerland. 9 Department of Clinical Pharmacology and Toxicology, University Hospital Zurich, 8091 Zurich, Switzerland. 10 National Institute of Molecular Genetics, 20122 Milano, Italy. 11 Institute for Research in Biomedicine, Università della Svizzera Italiana, 6500 Bellinzona, Switzerland. federica.sallusto@irb.usi.ch antonino.cassotta@irb.usi.ch. 12 Institute of Microbiology, ETH Zürich, 8093 Zurich, Switzerland.

Distinct immune signatures in chronic lymphocytic leukemia and Richter syndrome

Wang Y, et al.
Blood Cancer Journal
May 2021
Authors and Affiliates
Yucai Wang 1, Sutapa Sinha 1, Linda E Wellik 1, Charla R Secreto 1, Karen L Rech 2, Timothy G Call 1, Sameer A Parikh 1, Saad S Kenderian 1, Eli Muchtar 1, Suzanne R Hayman 1, Amber B Koehler 1, Daniel L Van Dyke 3, Jose F Leis 4, Susan L Slager 5, Haidong Dong 6, Neil E Kay 1, Rong He 7, Wei Ding 8; 1 Division of Hematology, Mayo Clinic, Rochester, MN, USA. 2 Division of Hematopathology, Mayo Clinic, Rochester, MN, USA. 3 Division of Laboratory Genetics and Genomics, Mayo Clinic, Rochester, MN, USA. 4 Division of Hematology and Medical Oncology, Mayo Clinic, Phoenix, AZ, USA. 5 Division of Biomedical Statistics and Informatics, Mayo Clinic, Rochester, MN, USA. 6 Department of Immunology, Mayo Clinic, Rochester, MN, USA. 7 Division of Hematopathology, Mayo Clinic, Rochester, MN, USA. He.Rong@mayo.edu. 8 Division of Hematology, Mayo Clinic, Rochester, MN, USA. Ding.Wei@mayo.edu.

Engineered red blood cells as an off-the-shelf allogeneic anti-tumor therapeutic

Zhang X, et al.
Nature Communications
May 2021
Authors and Affiliates
Xuqing Zhang 1, Mengyao Luo 1, Shamael R Dastagir 1, Mellissa Nixon 1, Annie Khamhoung 1, Andrea Schmidt 1, Albert Lee 1, Naren Subbiah 1, Douglas C McLaughlin 1, Christopher L Moore 1, Mary Gribble 1, Nicholas Bayhi 1, Viral Amin 1, Ryan Pepi 1, Sneha Pawar 1, Timothy J Lyford 1, Vikram Soman 1, Jennifer Mellen 1, Christopher L Carpenter 1, Laurence A Turka 1, Thomas J Wickham 1, Tiffany F Chen 2; 1 Rubius Therapeutics, Inc., Cambridge, MA, USA. 2 Rubius Therapeutics, Inc., Cambridge, MA, USA. tiffany.chen@rubiustx.com.

Multi-omic profiling of lung and liver tumor microenvironments of metastatic pancreatic cancer reveals site-specific immune regulatory pathways

Ho WJ, et al.
Genome Biology
May 2021
Authors and Affiliates
Won Jin Ho 1,2,3, Rossin Erbe 1,4, Ludmila Danilova 1, Zaw Phyo 1, Emma Bigelow 1, Genevieve Stein-O'Brien 4, Dwayne L Thomas 2nd 1,5, Soren Charmsaz 1, Nicole Gross 1, Skylar Woolman 1, Kayla Cruz 1, Rebecca M Munday 1,4, Neeha Zaidi 1,3, Todd D Armstrong 1, Marcelo B Sztein 6, Mark Yarchoan 1, Elizabeth D Thompson 1,3,4, Elizabeth M Jaffee 7,8,9, Elana J Fertig 10,11,12,13; 1 Department of Oncology, Sidney Kimmel Comprehensive Cancer Center, Johns Hopkins School of Medicine, 550 N Broadway Suite 1101E, Baltimore, MD, 21209, USA. 2 The Johns Hopkins Cancer Convergence Institute, Baltimore, USA. 3 Skip Viragh Center for Pancreatic Cancer, Bloomberg-Kimmel Institute for Cancer Immunotherapy, Johns Hopkins University School of Medicine, 4M07 Bunting Blaustein Cancer Research Building, 1650 Orleans Street, Baltimore, MD, 21287, USA. 4 McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University, Baltimore, USA. 5 Department of Pathology, Johns Hopkins University School of Medicine, Baltimore, USA. 6 Center for Vaccine Development and Global Health, University of Maryland School of Medicine, Baltimore, MD, USA. 7 Department of Oncology, Sidney Kimmel Comprehensive Cancer Center, Johns Hopkins School of Medicine, 550 N Broadway Suite 1101E, Baltimore, MD, 21209, USA. ejaffee@jhmi.edu. 8 The Johns Hopkins Cancer Convergence Institute, Baltimore, USA. ejaffee@jhmi.edu. 9 Skip Viragh Center for Pancreatic Cancer, Bloomberg-Kimmel Institute for Cancer Immunotherapy, Johns Hopkins University School of Medicine, 4M07 Bunting Blaustein Cancer Research Building, 1650 Orleans Street, Baltimore, MD, 21287, USA. ejaffee@jhmi.edu. 10 Department of Oncology, Sidney Kimmel Comprehensive Cancer Center, Johns Hopkins School of Medicine, 550 N Broadway Suite 1101E, Baltimore, MD, 21209, USA. ejfertig@jhmi.edu. 11 McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University, Baltimore, USA. ejfertig@jhmi.edu. 12 Department of Applied Mathematics and Statistics, Johns Hopkins University Whiting School of Engineering, Baltimore, MD, USA. ejfertig@jhmi.edu. 13 Department of Biomedical Engineering, Johns Hopkins University School of Medicine, Baltimore, USA. ejfertig@jhmi.edu.

A subset of cytotoxic effector memory T cells enhances CAR T cell efficacy in a model of pancreatic ductal adenocarcinoma

Konduri V, et al.
Science Translational Medicine
May 2021
Authors and Affiliates
Vanaja Konduri 1, Sujith K Joseph 2,3, Tiara T Byrd 2,3, Zeid Nawas 2,3, Jonathan Vazquez-Perez 1, Colby J Hofferek 1, Matthew M Halpert 1, Dongliang Liu 4, Zhengdong Liang 4, Yunyu Baig 1, Vita S Salsman 2,3, Damilola Oyewole-Said 1, Anna Tsimelzon 5, Briana A Burns 1, Changyi Chen , 6, Jonathan M Levitt 1,5,7, Qizhi Yao 1,4,8,9, Nabil M Ahmed 2,3,8, Meenakshi Hegde 2,3,8, William K Decker 10,2,8; 1 Department of Pathology and Immunology, Baylor College of Medicine, Houston, TX 77030, USA. 2 Center for Cell and Gene Therapy, Baylor College of Medicine, Houston, TX 77030, USA. 3 Department of Pediatrics, Division of Hematology and Oncology, Baylor College of Medicine, Houston, TX 77030, USA. 4 Michael E. DeBakey Department of Surgery, Baylor College of Medicine, Houston, TX 77030, USA. 5 Lester and Sue Smith Breast Center, Baylor College of Medicine, Houston, TX 77030, USA. 6 Department of Molecular and Cellular Biology, Baylor College of Medicine, Houston, TX 77030, USA. 7 Scott Department of Urology, Baylor College of Medicine, Houston, TX 77030, USA. 8 Dan L. Duncan Comprehensive Cancer Center, Baylor College of Medicine, Houston, TX 77030, USA. 9 Michael E. DeBakey VA Medical Center, Center for Translational Research on Inflammatory Diseases (CTRID), Houston, TX 77030, USA. 10 Department of Pathology and Immunology, Baylor College of Medicine, Houston, TX 77030, USA. decker@bcm.edu.
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