Translating Proteomics

Nautilus Biotechnology
  • 5.0 (6)
  • Life Sciences

‘Translating Proteomics’ explores the science of proteomics and its growing impact on biological research, biomarker discovery, drug development, food and energy security, and a range of other timely topics. Hosts Parag Mallick Ph.D. and Andreas Huhmer Ph.D. of Nautilus Biotechnology aim to share their perspectives on important issues in proteomics, deepen your love of science, and prompt you to question assumptions about what may be possible.

  1. Oct 28

    Intrinsically Disordered Proteins with Professor Priyanka Joshi, Ph.D.

    Unlike “globular” proteins that adopt stable structures that are relatively easy to analyze, intrinsically disordered proteins adopt many context-dependent shapes. These shapes may drive diverse functions, but they are also difficult to capture and study. This represents a large gap in our understanding of biology, given that most proteins may have intrinsically disordered regions. Thankfully, researchers like Professor Priyanka Joshi, Ph.D., from Georgetown University have devoted themselves to studying intrinsically disordered proteins and are developing new approaches and leveraging new technologies like the Nautilus Voyager™ Platform to discover how their dynamic structures influence biological function. Because intrinsically disordered proteins often aggregate in disease, this work is not only essential to our understanding of biology but may also enable the development of effective biomarkers and treatments for diseases like Alzheimer’s. Parag interviews Professor Joshi on this episode of Translating Proteomics to discover: What intrinsically disordered proteins areHow intrinsically disordered proteins influence biology and why they’re hard to studyHow the recently announced SEEDS Consortium is studying intrinsically disordered proteins Chapters:00:00 – Introduction to Prof. Priyanka Joshi, Ph.D. 04:35 – What are intrinsically disordered proteins (IDPs)? 11:41 – When do intrinsically disordered proteins go bad in disease? 23:02 – Archetypal Intrinsically disordered proteins – c-Myc/Max, p53, and Tau 38:26 – Barriers to solving the problems associated with intrinsically disordered proteins 43:30 – The future of intrinsically disordered protein research and introducing the SEEDS Consortium Additional resources featured in the episode:https://pubmed.ncbi.nlm.nih.gov/26923286/ Joshi, Priyanka et al. “A Fragment-Based Method of Creating Small-Molecule Libraries to Target the Aggregation of Intrinsically Disordered Proteins.” ACS combinatorial science vol. 18,3 (2016): 144-53. doi:10.1021/acscombsci.5b00129 Priyanka’s 2016 work developing small-molecule libraries to target IDPs https://www.georgetown.edu/news/georgetown-and-buck-institute-awarded-up-to-51-7m-to-predict-protein-changes-linked-to-alzheimers-and-some-cancers/ Georgetown University press release covering the SEEDS Consortium https://investors.nautilus.bio/news-releases/news-release-details/nautilus-measure-proteoforms-driving-alzheimers-disease-and Nautilus Biotechnology press release covering its involvement in the SEEDS Consortium

    Intrinsically Disordered Proteins with Professor Priyanka Joshi, Ph.D.

  2. Oct 15

    Multiomics and Transplant Medicine

    Professor Brendan Keating’s lab focuses on “advancing the field of organ transplantation” and employs multiomic techniques to improve outcomes for both allo- (human to human) and xeno- (animal to human) transplantation. He’s using multiomics to better understand the mechanisms of rejection and acceptance with a particular focus on immunologic barriers in cross-species transplantation. Professor Keating joins Translating Proteomics to discuss: The current state of transplant medicine including xenotransplantationHow multiomics is changing transplant medicineThe future of transplant medicine. Chapters:00:00 – Introduction 05:00 - Transplantation Today: Outcomes, Challenges, and the Organ Shortage 10:06 - From Genetics to Multiomics 19:53 - Xenotransplantation deep dive 30:42 - Ten‑Year Vision: Transplants and the Role of Multiomics

    Multiomics and Transplant Medicine

  3. Sep 16

    Tau proteoform analysis – Key takeaways from our recent Nature Methods publication

    Translating Proteomics hosts Parag Mallick and Andreas Huhmer discuss our new Nature Methods paper, “Large-scale single-molecule analysis of tau proteoforms.” This publication describes how the Nautilus Voyager™ Platform can be used to quantify proteoforms derived from the neurodegeneration-associated tau protein. These proteoforms are defined by their unique combinations of post-translational modifications and isoform specific sequences. They may make powerful next-generation biomarkers or drug targets, but few technologies can measure them today. In the episode, Parag and Andreas discuss: What proteoforms are and why it’s critical to study them to understand biology.How the Nautilus Voyager™ Platform quantifies proteoforms.The key findings from the tau proteoform analyses in the paper.Potential applications of these findings.The Nautilus Voyager™ Platform as a powerful foundational technology. Access our video series exploring the paper in more detail.

    Tau proteoform analysis – Key takeaways from our recent Nature Methods publication

  4. Jul 22

    Proteomics Hot Takes with Sheri Wilcox, Andreas Huhmer, and Parag Mallick

    On the latest episode of the Translating Proteomics podcast, Nautilus VP of Scientific Engagement and proteomics industry expert Sheri Wilcox joins hosts Parag Mallick and Andreas Huhmer for a thought-provoking discussion of their proteomics "hot takes.” Each “hot take” is a provocative opinion on a topic in proteomics. Specifically, they cover: Insufficient biological validation is one of the biggest problems in proteomics.Antibody validation remains a distributed, inconsistent, lab-by-lab responsibility, and this model for validation may not be sustainable going forward.AI cell models are overhyped. Check out the episode for deep explorations of each of these hot takes and their potential remedies. After listening, be sure to let us know whether you agree, disagree, or have your own hot take to share!

    Proteomics Hot Takes with Sheri Wilcox, Andreas Huhmer, and Parag Mallick

  5. Feb 25

    AI and Statistics in Proteomics and Systems Biology

    Professor Olga Vitek has a deep understanding of statistics, machine learning, and computational biology. She puts her know-how to work to develop computational tools enabling high-quality proteomic analysis and systems biology approaches. She hopes to apply these tools to the quantitative analysis of large-scale mass spectrometry-based investigations and thereby advance our understanding of organismal function. In this episode, Parag and Professor Vitek discuss: Why statistics is important for experimental designHow statistics and AI can help researchers understand biologyGaps keeping us from using AI and statistics to their maximum potential in biology ResourcesStatistical methods for studies of biomolecular systems website Olga’s personal lab website Beyond protein lists: AI-assisted interpretation of proteomic investigations in the context of evolving scientific knowledge Gyori and Vitek, 2024 discuss how AI can be used to interpret proteomics data and its biological meaning. A Bayesian Active Learning Experimental Design for Inferring Signaling Networks Ness et al., 2018 show how statistical methods can guide the selection of experiments that optimally enhance understanding

    AI and Statistics in Proteomics and Systems Biology

  6. Feb 4

    OMICS IN SPACE

    Host Parag Mallick chats with Professor Afshin Beheshti who is a Professor of Surgery, Director of the Center for Space Biomedicine, and Associate Director of the McGowan Institute for Regenerative Medicine at the University of Pittsburgh. In addition, Professor Beheshti has a visiting researcher appointment at the Broad Institute of MIT and Harvard and is president of two non-profits – the COVID-19 International Research Team and Kwaai. The latter aims to democratize access to artificial intelligence through the design, construction, and maintenance of a free personal AI called Kwaai. Professor Beheshti’s research covers a range of topics focused on how circulating mirco RNAs and mitochondria impact health, but this conversation focuses primarily on Professor Beheshti’s work advancing our understanding of how spaceflight impacts biology. We cover: How research on spaceflight and biology is doneGaps that remain in our understanding of spaceflight and biologyOmics studies of spaceflight and biologyHow studying spaceflight and biology enhances our understanding of human health more broadly ResourcesTrivedi Institute for Space and Global Biomedicine New Institute at the University of Pittsburgh focused on “advancing human health through space-driven innovation” NASA Open Science Data Repository "Provides open access to biological and physical science datasets from spaceflight and ground studies, enabling data reuse for discovery and innovation." Camera et al., 2024. Agining and putative frailty biomarkers are altered by spaceflight Study on molecular biomarkers and frailty phenotypes in space Overbey et al., 2024. The Space Omics and Medical Atlas (SOMA) and international astronaut biobank An “integrated data and sample repository for clinical, cellular, and multi-omic research profiles” from a variety of space missionsSpace Omics and Medical Atlas (SOMA) website Corti et al., 2024. To boldly go where no microRNAs have gone before: spaceflight impact on risk for small-for-gestational-age infants Explores how miRNA signatures of “small-for-gestational-age” are impacted by the space environment Beheshti et al., 2013. Age and space irradiation modulate tumor progression: implications for carcinogenesis risk Some of Professor Beheshti’s early work studying connections between spaceflight and cancer progression. Kwaai Nonprofit "building a no-cost open source Personal AI assistant"

    OMICS IN SPACE

  7. 12/22/2025

    Reflections on Proteomics - 2025 Yea-End Wrap-Up

    On this episode of Translating Proteomics, Parag and Andreas share their reflections on proteomics developments in 2025 largely inspired by their observations at the World HUPO 2025 conference in Toronto. Whether you agree, disagree, or simply want to share some of your own observations on proteomics, please post your thoughts in the comments. We look forward to even more exciting developments in 2026! Chapters00:00 - 00:35 – Intro 00:36 – 07:00 - Increased focus on applications of proteomics and less on method development Learn more about One Health from our conversation with Professor Jennifer Geddes-McAlister https://youtu.be/JFwvTdkb5bw 07:01 – 12:47 - Increase in people talking about the importance of proteoforms Learn more about proteoforms in our episode featuring proteoform pioneer Professor Neil Kelleher https://youtu.be/3pPuxVrMxpw 12:47 – 17:26 - An increase in multiomics studies 17:27 – 20:03 - A shift to larger scale proteomics studies For a great example of a multi-platform comparison study, check out Kirsher et al., 2025 https://www.nature.com/articles/s42004-025-01665-1 20:03 – 25:07 - Increased integration of AI into proteomics workflows For an example of how proteomics workflows can be modified with multiomic data, check out Suhre et al., 2025 https://www.nature.com/articles/s41588-025-02413-w 25:08 – 30:05 – Recognition of the need to assess quality across proteomics workflows 30:06 – 32:19 – Less of a focus on spatial proteomics this year than in past years 32:20 – 35: 13 - Parag and Andreas share their predictions for 2026 35:14 – End – Outro

    Reflections on Proteomics - 2025 Yea-End Wrap-Up

  8. 11/06/2025

    Hosts, Microbes, Molecular Pharming, and More with Professor Jennifer Geddes-McAlister

    On this episode of Translating Proteomics, Parag speaks with Professor Jennifer Geddes-McAlister from the University of Guelph. Professor Geddes-McAlister is an expert at using proteomics to study host-microbe interactions from a systems biology perspective. Her exciting work spans studies of pathogenic fungi all the way to engineering plants to produce pharmaceutics (so-called “molecular pharming"). On top of all that, Professor Geddes-McAlister also founded “Moms in Proteomics” to support and encourage an intentional focus on the inherently unique physical, emotional, and biological commitments of Mothers, and the ensuing balance required to excel within the diverse STEM fields encompassing Mass-Spectrometry-based proteomics. Dive into this episode to: Learn why it’s critical to study hosts, pathogens, and molecular pharming from a systems point of viewDiscover what Professor Geddes-McAlister is excited about for the upcoming Human Proteome Organization (HUPO) conferenceFind out what “Moms in Proteomics” has planned for HUPO Chapters00:00 - Intro 01:39 - Professor Geddes-McAlister's initial interest in host-microbe interactions 06:13 - Why it's important to study host-microbe interactions 08:10 - Pathogens vs helpful microbes 10:06 - Thinking about microbes through the lens of "One Health" 14:34 - Why Professor Geddes-McAlister works primarily in proteomics as opposed to other omes 19:44 - Professor Geddes-McAlister's favorite thing that she's learned from the proteome and couldn't learn from the other omes 24:56 - Molecular pharming 29:35 - The need for accessibility in proteomics 34:09 - The need for all-in-one workflows in proteomics 36:08 - HUPO 2025 39:56 - Moms in Proteomics 42:36 - The future of proteomics 43:59 - Outro ResourcesGeddes et al., 2015. Secretome profiling of Cryptococcus neoformans reveals regulation of a subset of virulence-associated proteins and potential biomarkers by protein kinase A https://pubmed.ncbi.nlm.nih.gov/26453029/ Some of Professor Geddes-McAlister’s early work using proteomics to study pathogenic fungi Prudhomme et al., 2024. Bacterial growth-mediated systems remodelling of Nicotiana benthamiana defines unique signatures of target protein production in molecular pharming https://onlinelibrary.wiley.com/doi/10.1111/pbi.14342 Researchers from Professor Geddes-McAlister’s lab use multiomic techniques to discover factors impacting the production of a pharmaceutical in an engineered plant Woods et al., 2023. A One Health approach to overcoming fungal disease and antifungal resistance https://wires.onlinelibrary.wiley.com/doi/full/10.1002/wsbm.1610 Review on the importance of incorporating “One Health” principals into efforts to fight pathogenic fungi Moms in Proteomics website https://momsinproteomics.ca Learn all about the Moms in Proteomics initiative and its international community

    Hosts, Microbes, Molecular Pharming, and More with Professor Jennifer Geddes-McAlister
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Ratings & Reviews

5
out of 5
6 Ratings

About

‘Translating Proteomics’ explores the science of proteomics and its growing impact on biological research, biomarker discovery, drug development, food and energy security, and a range of other timely topics. Hosts Parag Mallick Ph.D. and Andreas Huhmer Ph.D. of Nautilus Biotechnology aim to share their perspectives on important issues in proteomics, deepen your love of science, and prompt you to question assumptions about what may be possible.

Information

  • Creator
    Nautilus Biotechnology
  • Years Active
    2024 - 2026
  • Episodes
    31
  • Rating
    Clean
  • Copyright
    © Copyright 2026 Nautilus Biotechnology
  • Show Website
    Translating Proteomics

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