The AIRR Community Diagnostics Working Group is excited to announce “On AIRR” – a new podcast series.
The series aims to disseminate the goals and values of the Community, with a focus on their application to diagnostics and other clinical applications. We are committed to presenting conversations with a diverse group of experts, and gathering the attention of a broad audience, including students, and researchers from both industry and academia.
If you have questions for our next guest, suggestions for guests that you would like us to invite, or interesting topics to discuss, send us an email at onairr@airr-community.org.
If you share podcast-related content in social media, please use the hashtag #onairr.
Upcoming Podcasts
| Podcast | Date | Description |
|---|---|---|
| S01e11 | December 2022 / January 2023 | End of year surprise |
Podcast Episodes
| Podcast | Date | Description |
|---|---|---|
| S01e10 | November 2022 | Title: onAIRR 10: Characterising B Cell Lymphomas or Profiting from a Focus on B Cells in Health and in Disease with Dr. Ralf Küppers Guests: Dr. Ralf Küppers Hosts: Dr. Ulrik Stervbo and Dr. Zhaoqing Ding Summary: Building upon Ralf’s background in B cell differentiation in health and pathogenesis of human B cell lymphomas, we discuss how micro-dissection and Sanger sequencing is still the method of choice when analysing Hodgkin lymphoma and the V-gene usage and mutations in CLL as prognostic indicators before talking about tracking pathogenic clones when surveying for relapse during clinical follow up. |
| S01e09 | October 2022 | Title: onAIRR 9: The ImmunoMind or wielding an AI for repertoire insights with Vadim Nazarov Guests: Vadim Nazarov Hosts: Dr. Ulrik Stervbo and Dr. Zhaoqing Ding Summary: Vadim Nazarov is Co-Founder & CEO of the startup ImmunoMind. The company focuses on improving the design of adoptive T-cell therapies using multi-omics technologies. Vadim's career began at Dr. Dmitry Chudakov’s Laboratory of Adaptive Immunity, where he developed the now discontinued R-package TcR. The replacement package ‘immunarch’ is continuously developed by ImmunoMind. |
| S01e08 | September 2022 | Title: onAIRR 8: Engineering B cells or Giving the immune System an Optimal Starting Point with Dr. Adi Barzel Guests: Dr. Adi Barzel Hosts: Dr. Ulrik Stervbo and Dr. Zhaoqing Ding Summary: Following Adi’s long standing interest in gene editing, we discuss the therapeutic potential based on Adi’s recent paper “In vivo engineered B cells secrete high titers of broadly neutralizing anti-HIV antibodies in mice” (Nat Biotechnol.; 2022; https://doi.org/10.1038/s41587-022-01328-9). We also briefly touch on a second paper on some of the problems with CRISPR-Cas9 gene editing (“Frequent aneuploidy in primary human T cells after CRISPR-Cas9 cleavage”; Nat Biotechnol.; 2022; https://doi.org/10.1038/s41587-022-01377-0) Dr. Adi Barzel is an associate professor in the department of Biochemistry & Molecular Biology at Tel Aviv University, Tel Aviv, Israel. Adi is President at Israeli Society of Gene and Cell Therapy. |
| S01e07 | August 2022 | Title: onAIRR 7: Quality Controls in AIRR-Seq Assays or Handling the Catastrophe with Dr. Encarnita Mariotti-Ferrandiz Guests: Dr. Encarnita Mariotti-Ferrandiz Hosts: Dr. Ulrik Stervbo and Dr. Zhaoqing Ding Summary: The discussion focuses on sample quality and how to assess this. We draw on two papers during the discussion: “Benchmarking of T cell receptor repertoire profiling methods reveals large systematic biases” (Nature Biotechnology; 2021; https://doi.org/10.1038/s41587-020-0656-3) and “Biological controls for standardisation and interpretation of adaptive immune receptor repertoire profiling” (eLife; 2021; https://doi.org/10.7554/eLife.66274). Dr. Encarnita Mariotti-Ferrandiz is an associate professor in Immunology at Sorbonne Université, Paris, France. Encarnita is Chair-Elect of the AIRR-Community. |
| S01e06 | July 2022 | Title: onAIRR 6: Data Sharing or Finding Glory, Fame and a Big Pile of Gold with Dr. Brian Corrie and Dr. Scott Christley Guests: Dr. Brian Corrie and Dr. Scott Christley Hosts: Dr. Ulrik Stervbo and Dr. Zhaoqing Ding Summary: In this episode we discuss possibilities for sharing AIRR-Seq data - repositories and metadata standards describing the samples and experimental process. We discuss AIRR Standards which includes MiAIRR Standard for dataset metadata and AIRR Data Commons, which is an API to query and download data from AIRR-Seq repositories. Complete and proper data annotation will bring fame and glory. Dr. Brian Corrie is a computer scientist from Simon Fraser University in British Columbia, Canada. Brian is the Technical Director for the iReceptor Plus Project, and architect behind the iReceptor repository. Dr. Scott Christley is a computational biologist from UT Southwestern, Texas, USA. Scott is the software development manager for VDJServer. |
| S01e05 | May 2022 | Title: onAIRR 5: Machine learning and AIRR or Looking for the needle in a needle stack with Dr. Lindsay Cowell and Dr. Victor Greiff Guests: Dr. Lindsay Cowell and Dr. Victor Greiff Hosts: Dr. Ulrik Stervbo and Dr. Zhaoqing Ding Summary: Today we discuss machine learning with Dr. Lindsay Cowell and Dr. Victor Greiff. Machine learning is about pattern recognition and in AIRR-seq these patterns link repertoires to diseases and antigen binding. AIRR is nearly a perfect machine learning problem because the underlying patterns are unclear and complex - it is essentially looking for the needle in a needle stack. Dr. Cowell is from the Biomedical Informatics Division in the Department of Clinical Sciences, UT Southwestern, USA and Dr. Greiff heads the Laboratory for Computational and Systems Immunology at the Department of Immunology of University of Oslo, Norway. |
| S01e04 | April 2022 | Title: onAIRR 4: Understanding and engineering immune repertoires with Dr. Jacob Glanville Guest: Dr. Jacob Glanville Hosts: Ulrik Stervbo and Zhaoqing Ding Summary: Dr. Jacob Glanville is founder and CEO of Centivax and founder of Distributed Bio, acquired by Charles River in 2021. His work focuses on understanding and engineering the repertoires of T and B cells to improve the response to pathogens. In this episode we discuss how to analyze receptor specificity and use this to create therapeutic antibodies and optimize vaccine response. |
| s01e03 | March 2022 | Title: onAIRR 3: Outlining chronic lymphocytic leukemia with Dr. Anton Langerak Guest: Dr. Anton Langerak Hosts: Ulrik Stervbo and Zhaoqing Ding Summary: Anton Langerak is Professor and head of Laboratory Medical Immunology at Erasmus MC in Rotterdam, Netherlands and chair of coordination of the EuroClonality-NGS working group. He has been working on chronic lymphocytic leukemia (CLL) for many years and in this episode we discuss the signatures of B cell receptors in CLL. |
| s01e02 | February 2022 | Title: onAIRR 2: Establishing an AIRR-Seq framework with Dr. Lindsay Cowell Guest: Dr. Lindsay Cowell, PhD., Division of Biomedical Informatics, University of Texas Southwestern Medical Center at Dallas Hosts: Ulrik Stervbo and Nidhi Gupta Summary: In this episode, we discuss the interest of Lindsay Cowell from UT Southwestern in creating a framework to enable deeper understanding of AIRR-Seq in health and disease. |
| s01e01 | January 2022 | Title: onAIRR 1: MRD with Dr. Luning Prak Guest: Dr. Eline T. Luning Prak, MD, PhD. Professor of Pathology and Laboratory Medicine at the Hospital of the University of Pennsylvania Hosts: Ulrik Stervbo and Nidhi Gupta Summary: We talk a bit about the AIRR-Community but mostly we discuss diagnosis of B or T cell malignancies and minimal residual disease evaluation and tracking of B cell clones in autoimmunity. |
