Ivan Specht retweeted
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. medrxiv.org/content/10.1101/… 1/12 🧵
Ivan Specht retweeted
(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
👉 biorxiv.org/content/10.1101/…
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
Ivan Specht retweeted
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! 🎉
rb.gy/zvfscu
Ivan Specht retweeted
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: buff.ly/3sTACmW #OperationOutbreak #STEM #education
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.
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 medrxiv.org/content/10.1101/…
Thanks to our authors, full list: @ivan_specht, @PetrosBrittany, @GageKMoreno, @tbrockfi, @lakrasil, @mschifferli, Katherine Yang, Paul Cronan, @orglennon, …
…@glipsnort, @DannyJPark, @bronwynmacinnis, Al Ozonoff, @ben_fry, Michael Mitzenmacher, Patrick Varilly, and @PardisSabeti.
Ivan Specht retweeted
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: broad.io/OperationOutbreakNe…
Ivan Specht retweeted
"Analyzing the Impact of a Real-life Outbreak Simulator on Pandemic Mitigation: An Epidemiological Modeling Study"
Read more in @patterns_CP: cell.com/patterns/fulltext/S…
@ivan_specht @PardisSabeti @colabobio @broadinstitute
We show how #OperationOutbreak (@OOeducation) can help assess the risk of pathogenic threats and provide epidemiological data useful to outbreak mitigation. A thread on our modeling paper with @Ivan_Specht @KianSani @TechnologyBryn @codeanticode @PardisSabeti and many others.
… Craig Decker (@CraigDecker1), Landen Bailey (@landiinii), Tomi Siyanbade (@tomiwithano), Molly Kemball (@MollyKemball), Brett Pickett (@Brett_E_Pickett), William Hanage (@BillHanage), Todd Brown (@Theinspireproj3), Pardis Sabeti (@PardisSabeti), Andrés Colubri (@codeanticode).
Link to preprint: medrxiv.org/content/10.1101/…












