The Synthetic Biology Open Language (SBOL) serves as a vital community standard for representing biological designs, with version 3.1 offering mature...
Developing a Highly Efficient Numerical ODE Solver in the Systems Biology Simulation Core Library
Ayush Baranwal
The field of computational biology depends significantly on mathematical modeling to simulate complex biological simulations, often involving...
SeqTrainer - creating datasets from SynBioHub to aid researchers in creating machine learning models
cywong
In the realm of synthetic biology, there is a significant source of data in the form of models, genetic sequences, regulatory networks, and...
CySBML Reloaded: Smarter, Simpler, Automated
Hikmet Emre Kaya
CySBML Reloaded: Smarter, Simpler, Automated focuses on upgrading CySBML — a Cytoscape app for visualizing computational models encoded in SBML. The...
Enhancing SBOannotator with LLM Integration & Dynamic Term Retrieval
Jiahui Hu
This proposal aims to transform SBOannotator from a static, hard-coded tool into a dynamic, intelligent system for annotating SBML models with...
VCell-AI: AI Analysis & Querying Platform
Kacem Mathlouthi
The VCell-AI Platform is an AI-powered system for discovering, analyzing, and exploring biomodels, publications, and research papers from the VCell...
Enhancing the Systems Biology Simulation Core Library (SBSCL) with a Solver-Agnostic Framework...
Michael-Gaas
This project addresses the current incompatibility of the Systems Biology Simulation Core Library (SBSCL) with modern computing architectures,...
LLM-Powered Interactive Chat Interface for CellMinerCDB with GraphRAG Integration
Milit S Patel
This project will develop an intelligent chat interface for CellMinerCDB, a cancer genomics database, using GraphRAG (Graph Retrieval-Augmented...
