Past projects.
Prototypes built at the inaugural NIAID-BRCs AI Codeathon, November 12–14, 2025 at Argonne National Laboratory.
2026 project teams will be announced after applications close. See the announcement →
The 2025 archive
12 entries- P · 01
AI Co-Scientist for Protein Function Prediction and Hypothesis Generation
Extending the Co-Scientist framework to build reasoning agents for protein function prediction using BV-BRC datasets for priority pathogens
Read more → - P · 02
AI-Powered Analysis Pathfinder: From Research Questions to Data and Workflows
Enabling bench scientists to start with analysis goals and receive both relevant datasets and executable workflows—a complete path from question to execution.
Read more → - P · 03
Assigning Functions to Uncharacterized Genes
Leveraging machine learning and AI to predict functions of characterized and uncharacterized genes using K-mers, ensemble methods, and LLM embeddings
Read more → - P · 04
Expanding Rhea for Automated Workflow Generation
Extending the Rhea platform with MCP+RAG to enable automated workflow generation leveraging Galaxy and BV-BRC for infectious disease analysis
Read more → - P · 05
Extracting Training Data for Automated Workflow Generation
Creating structured question-answer training datasets from BRC resources and publications to train LLMs for bioinformatics workflow generation
Read more → - P · 06
Generative AI-Driven Workflow Design and Execution via MCP
Automating bioinformatics workflow design, refinement, and execution using generative AI models guided through the Model Context Protocol (MCP)
Read more → - P · 07
HiPerRAG for Literature-based Data Extraction on Priority Pathogens
Leveraging high-performance retrieval-augmented generation to extract and curate structured biological data for priority pathogens from scientific literature
Read more → - P · 08
InterWeb Outbreak Surveillance and Progress Monitoring
AI-powered outbreak surveillance aggregating web data sources including social media, news, case reports, and public health databases
Read more → - P · 09
PubMed Miner: AI-Powered Sequence Feature Extraction from Literature
Automated extraction of viral sequence features, mutations, and epitopes from PubMed literature using LLMs to accelerate outbreak response and genomic analysis
Read more → - P · 10
RDF Knowledge Graph Construction
Transforming Pathogen Data Network Resources to RDF using Large Language Models
Read more → - P · 11
StorySeq: Automated Sequence Narrative Generation
Automating sequence identification and contextualization using BLAST, database queries, and LLM narrative synthesis to accelerate pathogen and AMR gene discovery
Read more → - P · 12
Viral Structural Phylogenetics
Optimizing protein language model to predict viral protein structures at scale
Read more →