Sophia Vincoff

PepRePs: Peptide-Retargeted Phosphatases Designed with Generative Language Models

This paper introduces PepRePs, a system using peptide-retargeted phosphatases to selectively manipulate protein phosphorylation, showing reduced phosphorylation and downstream effects on cellular processes.

Programmable protein degraders enable selective knockdown of pathogenic β-catenin subpopulations in vitro and in vivo

This paper develops programmable protein degraders (uAbs) that selectively knock down pathogenic β-catenin in vitro and in vivo, reducing tumor cell survival and proliferation.

A Mammalian High-Throughput Screen for AI-Designed Peptide-Guided Protein Degraders

This paper presents a high-throughput platform for screening peptide-guided protein degraders in mammalian cells, demonstrating their ability to reduce target protein abundance and function.

PeptiVerse: A Unified Platform for Therapeutic Peptide Property Prediction

PeptiVerse provides a unified platform for predicting therapeutic peptide properties using both amino acid sequences and SMILES-based representations, supporting early-stage development and generative design.

PTM-Mamba: A PTM-Aware Protein Language Model with Bidirectional Gated Mamba Blocks

This paper introduces PTM-Mamba, a protein language model that incorporates PTM tokens and Mamba blocks to improve performance on PTM-specific tasks.

FusOn-pLM: A Fusion Oncoprotein-Specific Language Model via Focused Probabilistic Masking

This paper introduces FusOn-pLM, a protein language model fine-tuned on fusion oncoprotein sequences using a novel masked language modeling strategy, improving performance on specific benchmarks and disorder prediction tasks.