Ivan Specht

Computational Math PhD @ Stanford | Computational Biology @ Broad Institute

[Pardis Sabeti @PardisSabeti]

We present JUNIPER, our outbreak reconstruction tool that incorporates within-host variants, models missing data, and scales to large, sparsely sampled datasets to achieve state-of-the-art performance. Led by @ivan_specht et al. @sabeti_lab. https://t.co/pvi3boGVbh 1/12 🧵

[Marinka Zitnik @marinkazitnik]

(1/4) Excited to introduce ProCyon: a multimodal foundation model to model, generate, and predict protein phenotypes, led by stellar @oq_35 @YepHuang Robert Calef @valegiunca

👉 https://t.co/izn7M9Qn44

ProCyon is an 11B parameter multimodal model that integrates protein sequences, structures, and natural language

ProCyon models, predicts, and generates phenotypes with zero-shot task transfer, breaking past the limits of fixed vocabularies or ontologies

🔬 The Challenge: Predicting protein structure is advanced, but predicting protein phenotypes—observable traits linking molecular function to biology—is still an open problem. 40% of human proteins lack context-specific insights, while 20% remain almost entirely uncharacterized

[sabeti_lab @sabeti_lab]

Talent shines in the Sabeti Lab! ✨ Ivan Specht's senior thesis, 'Reconstructing Viral Epidemics: A Random Tree Approach,' is now featured on the Harvard Math website. Dive into Ivan's groundbreaking work and join us in celebrating his achievement! 🎉
https://t.co/5XI3a2PqoY

[Operation Outbreak - an infectious way to learn @OutbreakEdu]

Meet @ivan_specht! Ivan's work in the @sabeti_lab involves epidemiological modeling of infectious diseases as a means to inform public health policy. Read more about his work here: https://t.co/DVhTOeXe0i #OperationOutbreak #STEM #education

[Ivan Specht @ivan_specht]

Thrilled to be here at #NCTMDC23 sharing Operation Outbreak (@OutbreakEdu) with math teachers from all around the country! Operation Outbreak is an outbreak simulation technology that spreads a ‘virtual pathogen’ between smartphones via Bluetooth to teach epidemiology.

[Ivan Specht @ivan_specht]

@fathominfo Thank you Fathom!!

[Ivan Specht @ivan_specht]

@dmaccannell @PardisSabeti @sabeti_lab @PetrosBrittany @GageKMoreno Thank you @dmaccannell I’m honored! Would love to present

[Ivan Specht @ivan_specht]

…@glipsnort, @DannyJPark, @bronwynmacinnis, Al Ozonoff, @ben_fry, Michael Mitzenmacher, Patrick Varilly, and @PardisSabeti.

[Ivan Specht @ivan_specht]

We developed a new model for within-host viral evolution, which we used to reconstruct outbreak transmission networks. A thread on our genomic epidemiology paper with @PetrosBrittany, @GageKMoreno et al. @sabeti_lab https://t.co/ahwWAy4BZE

[Ivan Specht @ivan_specht]

Thanks to our authors, full list: @ivan_specht, @PetrosBrittany, @GageKMoreno, @tbrockfi, @lakrasil, @mschifferli, Katherine Yang, Paul Cronan, @orglennon, …

[Broad Institute @broadinstitute]

The @sabeti_lab has developed a smartphone app that helps users model viral outbreaks, using Bluetooth to “spread” a virtual human virus to nearby participating phones. Read about findings from deployments on two college campuses in a Q&A with the team: https://t.co/vqUKfuzvKu

[Ivan Specht @ivan_specht]

@lakrasil Thank you Lydia!