Where machine learning enters immunogen design

Soham explains using diffusion and protein language models to scaffold epitopes and generate test libraries for feedback.

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Episode notes

This is an interview with Soham Sankaran, the founder and CEO of PopVax, an mRNA vaccine development startup.

Curiously, PopVax is based in India, specifically Hyderabad. This should be a surprise to most people in the field: we never really hear of interesting biotech research being done in a place that isn’t [US, Europe, East Asia].

Yet, PopVax has been astonishingly successful, having a (in mouse) influenza vaccine that is 250x better than its competitors, multiple large research collaborations, and their first upcoming US based phase 1 clinical trial being fully sponsored and conducted by the NIH.

It’s an extremely interesting success story from what feels like a very clear underdog. In this 2-hour podcast, we discuss everything from why so little biotech research gets done in India, a breakdown on what you care about in vaccine design (immunogens), how PopVax uses machine learning for precise immunogen design, how raising money for a vaccinology startup is going, and a lot more.

Timestamps and transcripts are below. Just as in my last episode, I’ve included a ‘jargon explanation’ as a quick primer for some of the subjects discussed in the episode.

Some final bits: the studio rental costs were kindly covered by Dylan Reid! Huge shout-out to him for making this episode possible. Also shout-out to Samarth Jajoo, Reha Mathur, and David Yang for some very helpful discussion about the Indian biotech scene. And, if you think PopVax is interesting, here is their Substack which has some articles on their results, their job section (they are actively hiring), and can be reached at contact@popvax.com.

Timestamps

01:31 Introduction

02:38 Why is there such little biotech research in India?

17:43 Advantages of building a company in India

31:30 Policy prescriptions for India

35:39 Questions on vaccine design

50:55 What does PopVax do?

01:01:58 The role of machine learning in vaccine design

01:12:07 The (conservative) culture of vaccinology

01:26:57 Hiring in India

01:46:52 How fundraising for an Indian vaccine design startup is coming along

01:57:36 How is PopVax so good at designing vaccines?