403 Publications

Molecular Cell Biomechanics Laboratory

University of California, Berkeley

Modeling how physical forces shape living systems

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Protein structure visualization

Protein ribbon diagram · CC BY-SA 4.0

Publication Index

2025

001

SIMBA-GNN: mechanistic graph learning for microbiome prediction · npj Systems Biology and Applications

002

Semi-supervised Retrieval of Functional Residues Through the Integration of Protein Language Models and Gene Ontology... ·

003

Systems biology and microbiome innovations for personalized diabetic retinopathy management · npj Systems Biology and Applications

004

Expanding the HP1a-binding consensus and molecular grammar for heterochromatin assembly · Nucleic Acids Research

005

Computational drug design in the artificial intelligence era: A systematic review of molecular representations, gener... · Pharmacological Reviews

006

Demographic drivers of gut microbiome diversity · AMB Express

007

Emerging mechanomedicines informed by mechanotransduction along the integrin–cytoskeleton–nucleus axis · APL Bioengineering

008

KODA: An Agentic Framework for KEGG Orthology-Driven Discovery of Antimicrobial Drug Targets in Gut Microbiome ·

009

SIMBA-GNN: Simulation-augmented Microbiome Abundance Graph Neural Network ·

010

Block ratio optimized cationic polyacrylamides for enhanced nitrate rejection under applied potential · Chemical Engineering Journal

011

Role of pore dilation in molecular transport through the nuclear pore complex: Insights from polymer scaling theory · PLoS Computational Biology

012

Meta Biome: a multiscale model integrating agent-based and metabolic networks to reveal spatial regulation in ... · mSystems

013

Unravelling the Glycan Code: Molecular Dynamics and Quantum Chemistry Reveal How O‐Glycan Functional Groups Govern Og... · Microbial Biotechnology

014

Multiscale Kinematic Growth Coupled With Mechanosensitive Systems Biology in Open-Source Software · Journal of Biomechanical Engineering

Full index of 403 publications →