A. Wasim

Harnessing Transformers to Generate Protein Sequences Prone to Liquid Liquid Phase Separation

This paper uses GPT-based models to generate protein sequences prone to liquid-liquid phase separation and validates their ability to form phase-separated states.

Modulation of α-Synuclein Aggregation Amid Diverse Environmental Perturbation

This study computationally simulates α-Synuclein aggregation under various environmental conditions, revealing how different factors influence its phase separation and structural behavior.

Development of a Data-driven Integrative Model of Bacterial Chromosome

The paper develops a data-driven integrative model of E. coli chromosome that simulates its conformation and predicts higher-resolution contact maps and segregation behavior.

A mechanistic understanding of biofilm morphogenesis: Coexistence of mobile and sessile aggregates and phase-separated patterns

This study develops a biophysical model to understand how bacterial microcolony morphology is shaped by EPS production and mechanical interactions, showing phase-separated patterns and coexistence of motile and sessile aggregates.

Hi-C Contacts Encode Heterogeneity in Sub-diffusive Motion of E. coli Chromosomal Loci

The paper uses Hi-C data to show that E. coli chromosome loci exhibit coordinate-dependent sub-diffusive motion, driven by Hi-C-guided long-range interactions.

Mapping the Multiscale Organisation of Escherichia Coli Chromosome in a Hi-C-integrated Model

The paper develops a Hi-C-integrated model to map the multiscale organization of E. coli chromosome, revealing a helical structure with macrodomains and chromosomal interaction domains.