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WetBench DryBench DevBench

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Bio Dev Stories8

AI × Bio Applied15

01LLM-Based Clinical Note Information Extraction — A Practical Pipeline for Extracting Unstructured EHR into Structured JSON 02Protein Sequence Embedding FAISS Search — Catching Distant Homologs Missed by BLAST with Foundation Models 03Cellpose 3 + SAM Cell Segmentation Pipeline — A Practical Guide to Identifying Individual Cells in Fluorescence Microscopy Images 04CRISPR Guide RNA On/Off-Target Scoring — Ranking 100 Candidates in 30 Seconds Before a BRCA1 KO Experiment 05Pathology Image Foundation Embedding Retrieval — Finding Similar Tissues in Natural Language from TCGA-BRCA Breast Cancer 100 Slides 06INCI Ingredient Principles-Based Beauty Advisor — A Practical Guide to Personalized Cosmetic Recommendations Using the Declining Order of Ingredients Rule 07Graph Neural Network Drug-Target Interaction Prediction — Practical SARS-CoV-2 Mpro Target Drug Repurposing Screening 08Diffusion-Physics Hybrid Low-Molecular Docking — Re-validation of SARS-CoV-2 Mpro Candidates with DiffDock-Glide 09LLM Vendor Comparison Bench — Measuring Accuracy/Cost/Latency on Three Axes by Throwing a Clinical IE Task at 5 Vendors 10Reproducing the Med-LLM Benchmark — HealthBench · MedQA · PubMedQA · MMLU-Medical: Self-reproduction and validation of published results vs. actual measurements 11Open Foundation Structure and Affinity Prediction — Overcoming the AlphaFold3 Barrier with Boltz-2 and Chai-1 12Single-Cell Foundation In Silico Gene Perturbation — 3-Minute Preview of Screening 200 Essential Genes in K562 13Multimodal Foundation for Autonomous Protein Design — Generating 100 Novel Sequences While Maintaining the Serine Protease Active Site 14Bio-LLM MCP Agent — A Practical Example of Autonomously Orchestrating Experimental Tools with the Model Context Protocol 15Custom MCP Server Series — Wrapping 5 Bio Web Services in a Standard Protocol for Team Deployment

Bio Data Analysis12

Bio Web Development19

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