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Sex- and age-specific aspects of human peripheral T-cell dynamics

Mika J, et al.
Frontiers in Immunology
November 2023
Authors and Affiliates
Justyna Mika 1, Kengo Yoshida 2, Yoichiro Kusunoki 2, Serge M Candéias 3, Joanna Polanska 1; 1 Department of Data Science and Engineering, Silesian University of Technology, Gliwice, Poland. 2 Department of Molecular Biosciences, Radiation Effects Research Foundation, Hiroshima, Japan. 3 Université Grenoble Alpes, Commissariat à l'Energie Atomique et aux Energies Alternatives (CEA), Centre National de la Recherche Scientifique (CNRS), Interdisciplinary Research Institute of Grenoble (IRIG), Laboratory of Chemistry and Biology of Metals (LCBM), Grenoble, France.

Renal tubular epithelial cells are constitutive non-cognate stimulators of resident T cells

Sadasivam M, et al.
Cell Reports
November 2023
Authors and Affiliates
Mohanraj Sadasivam 1, Chunfa Jie 2, Abdel Rahim A Hamad 3; 1 Department of Pathology, Johns Hopkins University School of Medicine, 720 Rutland Avenue, Ross 664G, Baltimore, MD 21205, USA. 2 Department of Biochemistry and Nutrition, Des Moines University, 3200 Grand Avenue, Ryan Hall 230, Des Moines, IA 50266, USA. 3 Department of Pathology, Johns Hopkins University School of Medicine, 720 Rutland Avenue, Ross 664G, Baltimore, MD 21205, USA; Department of Medicine, Johns Hopkins University School of Medicine, 720 Rutland Avenue, Ross 664G, Baltimore, MD 21205, USA. Electronic address: ahamad@jhmi.edu.

Analysis of CDR3 Sequences from T-Cell Receptor β in Acute Respiratory Distress Syndrome

Hey S, et al.
Biomolecules
October 2023
Authors and Affiliates
Sara Hey 1, Dayjah Whyte 1, Minh-Chau Hoang 1, Nick Le 1, Joseph Natvig 1, Claire Wingfield 1, Charles Onyeama 2, Judie Howrylak 3, Inimary T Toby 1; 1 Department of Biology, University of Dallas, Irving, TX 75062, USA. 2 T.C Pediatrics, Bedford, TX 76021, USA. 3 Pulmonary, Allergy and Critical Care Division, Penn State Milton S. Hershey Medical Center, Hershey, PA 17033, USA.

Immunophenotypic correlates of sustained MRD negativity in patients with multiple myeloma

Coffey DG, et al.
Nature Communications
October 2023
immuneAccess
Authors and Affiliates
David G Coffey 1,2, Francesco Maura 3, Edgar Gonzalez-Kozlova 4, J Javier Diaz-Mejia 5, Ping Luo 5, Yong Zhang 6, Yuexin Xu 7, Edus H Warren 7, Travis Dawson 4, Brian Lee 4, Hui Xie 4, Eric Smith 8, Amanda Ciardiello 9, Hearn J Cho 4,10, Adeeb Rahman 4, Seunghee Kim-Schulze 4, Benjamin Diamond 3, Alexander Lesokhin 9, Dickran Kazandjian 3, Trevor J Pugh 5,11,12, Damian J Green 7, Sacha Gnjatic 4, Ola Landgren 13; 1 Division of Myeloma, Sylvester Comprehensive Cancer Center, University of Miami, Miami, FL, USA. davidcoffey@miami.edu. 2 Clinical Research Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA. davidcoffey@miami.edu. 3 Division of Myeloma, Sylvester Comprehensive Cancer Center, University of Miami, Miami, FL, USA. 4 Icahn School of Medicine at Mount Sinai, New York, NY, USA. 5 Princess Margaret Cancer Centre, University Health Network, Toronto, ON, Canada. 6 Office of Oncologic Diseases, Center for Drug Evaluation and Research, U.S. Food and Drug Administration, Silver Spring, MD, USA. 7 Clinical Research Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA. 8 Dana-Farber Cancer Institute, Boston, MA, USA. 9 Myeloma Service, Department of Medicine, Memorial Sloan Kettering Cancer Center, New York, NY, USA. 10 Multiple Myeloma Research Foundation, Norwalk, USA. 11 Ontario Institute for Cancer Research, Toronto, ON, Canada. 12 Department of Medical Biophysics, University of Toronto, Toronto, ON, Canada. 13 Division of Myeloma, Sylvester Comprehensive Cancer Center, University of Miami, Miami, FL, USA. col15@miami.edu.

The overlap of skin and blood T-cell clones in early-stage mycosis fungoides

Joffe D, et al.
Blood Advances
August 2023
Authors and Affiliates
Daniel Joffe 1, Safiyyah Bhatti 1, Lauren Banner 1, Romsin Zaya 1, Laura Gleason 1, Anjali Mishra 2, Ilan R Kirsch 3, Pierluigi Porcu 4, Neda Nikbakht 1; 1 Thomas Jefferson University, Philadelphia, Pennsylvania, United States. 2 Thomas Jefferson University and Sidney Kimmel Cancer Center, Philadelphia, Pennsylvania, United States. 3 Adaptive Biotechnologies, Seattle, Washington, United States. 4 Sidney Kimmel Cancer Center, Philadelphia, Pennsylvania, United States.

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.

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
immuneAccess
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.

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.

A novel statistical method for decontaminating T-cell receptor sequencing data

Li R, et al.
Briefings in Bioinformatics
August 2023
Authors and Affiliates
Ruoxing Li 1,2, Mehmet Altan 3, Alexandre Reuben 3, Ruitao Lin 2, John V Heymach 3, Hai Tran 3, Runzhe Chen 3, Latasha Little 4, Shawna Hubert 3, Jianjun Zhang 3, Ziyi Li 2; 1 Department of Biostatistics and Data Science, The University of Texas Health Science Center at Houston, 77030, Texas, Houston, USA. 2 Department of Biostatistics, The University of Texas MD Anderson Cancer Center, 77030, Texas, Houston, USA. 3 Department of Thoracic-Head & Neck Medical Oncology, The University of Texas MD Anderson Cancer Center, 77030, Texas, Houston, USA. 4 Department of Genomic Medicine, The University of Texas MD Anderson Cancer Center, 77030, Texas, Houston, USA.

Statistical inference reveals the role of length, GC content, and local sequence in V(D)J nucleotide trimming

Russell ML, et al.
eLIFE
August 2023
Authors and Affiliates
Magdalena L Russell 1,2, Noah Simon 3, Philip Bradley 1,4, Frederick A Matsen 4th 1,5,6,7; 1 Computational Biology Program, Fred Hutchinson Cancer Center, Seattle, United States. 2 Molecular and Cellular Biology Program, University of Washington, Seattle, United States. 3 Department of Biostatistics, University of Washington, Seattle, United States. 4 Institute for Protein Design, Department of Biochemistry, University of Washington, Seattle, United States. 5 Department of Genome Sciences, University of Washington, Seattle, United States. 6 Department of Statistics, University of Washington, Seattle, United States. 7 Howard Hughes Medical Institute, Seattle, United States.
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