On this episode of Translating Proteomics, host Parag Mallick discusses Spatial Proteomics with special guest Fiona Ginty Ph.D. Fiona is a Senior Principal Scientist in Precision Diagnostics at the GE Healthcare Technology & Innovation Center. She is a leader in the development of spatial proteomics technologies and their application in precision diagnostics and medicine.

Their discussion covers:

· How Fiona began working in spatial proteomics

· Why spatial biology is important

· What the future holds for spatial biology

00:00 – Introduction

01:54 – Fiona’s journey to biology

05:26 – Fiona’s transition to tool development

07:20 – Working at GE Research

11:26 – Identifying the importance of spatial biology

14:43 – How Cell DIVETM works

18:25 – The importance of single cell

23:01 - When Fiona realized the technology worked

28:04 – Spatial biology projects Fiona is excited about

30:08 – Fiona’s role in HuBMAP

36:50 – Learnings from HuBMAP so far

38:35 – The future of spatial proteomics in the clinic

46:56 – Current limits on spatial proteomics

49:56 – Current and future uses of AI in spatial proteomics

53:30 – The most exciting thing Fiona learned in her spatial proteomics journey

56:08 – Outro

Method of the Year 2024: Spatial Proteomics

Paper covering the spatial proteomics technology Fiona worked on at GE Healthcare

• Highly multiplexed single-cell analysis of formalin-fixed, paraffin-embedded cancer tissue

HubMAP – Human BioMolecular Atlas Program

Human Tumor Atlas Network

Cell DIVE Multiplex Imaging Solution

Papers discussing what makes colorectal cancer cells undergo apoptosis in response to chemotherapy

• An atlas of inter- and intra-tumor heterogeneity of apoptosis competency in colorectal cancer tissue at single-cell resolution
• Integrated multiplex analysis of cell death regulators in stage II colorectal cancer suggests patients with ‘persister’ cell profiles fail to benefit from adjuvant chemotherapy

Paper discussing how the distance between tumor cells and cytotoxic t-cells correlates to caspase level

• Spatial effects of infiltrating T cells on neighbouring cancer cells and prognosis in stage III CRC patients - Azimi - 2024 - The Journal of Pathology - Wiley Online Library

Paper showing it takes 3 hits from cytotoxic...

On this special episode of Translating Proteomics, Parag and Andreas break down the basics of proteomics — perfect for anyone with a background in molecular biology looking to get started in the field.

Seasoned experts: We hope you can share this episode as a teaching tool or to inspire others to explore proteomics.

Parag and Andreas cover the following questions in the episode, and links to additional Nautilus resources can be found below each question.

What is proteomics?

• Blog post – What is proteomics? Techniques, applications, and methods

What are key questions proteomics can answer?

• Blog category – Applications of proteomics

Why is it important to measure the proteome?

• FAQ on the Nautilus Resources page
• Blog post – Genomics vs. proteomics: Two complementary perspectives on life

What can and can't you do with proteomics?

• Translating Proteomics episode – Plasma Proteomics: The Dream and the Nightmare
• Learn how the Nautilus Platform is designed to enable comprehensive broadscale proteomics and targeted proteoform studies

What are key proteomics methods and techniques?

• Blog series – Traditional protein analysis methods
• Blog series – Next-generation proteomics technologies

What are the major pitfalls when doing proteomics?

What are the challenges in proteomic data analysis?

• Translating Proteomics episode – Biology in Space and Time
• Blog post – What is multiomics?

What are people excited about in proteomics?

• Translating Proteomics episode – Poised for a Proteomics Breakthrough
• Translating Proteomics episode - US HUPO 2025 – Key Takeaways, Trends, and Future Directions for Proteomics
• Translating Proteomics episode –

If you listened to our episode focused on science communication featuring proteomics leaders Ben Orsburn Ph.D. and Ben Neely Ph.D., then you've already heard about their excellent podcast, The Proteomics Show. On The Proteomics Show, they interview researchers in the proteomics community to learn about their motivations, their backstories, and their work. Today, we're sharing an episode of The Proteomics Show where the Bens interview Translating Proteomics host Parag Mallick. Check it out to learn about Parag's journey to proteomics, his efforts advocating for open data sharing, and his work as a professional magician.

After listening, be sure to check out more episodes of The Proteomics Show on their feed where you'll find over 70 interviews with many, many interesting people in the proteomics community. Find their feed here:

https://us-hupo.org/Podcasts