AssayBench is a new gene-ranking benchmark for phenotypic CRISPR screens that shows zero-shot generalist LLMs outperform both biology-specific LLMs and trainable baselines on adjusted nDCG.
Predicting transcriptional outcomes of novel multigene perturbations with gears
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SynthPert fine-tunes LLMs using synthetic reasoning traces to reach state-of-the-art on the PerturbQA benchmark for cellular perturbation prediction, surpassing the generating frontier model while generalizing to unseen cell types with only 2% of filtered data.
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AssayBench: An Assay-Level Virtual Cell Benchmark for LLMs and Agents
AssayBench is a new gene-ranking benchmark for phenotypic CRISPR screens that shows zero-shot generalist LLMs outperform both biology-specific LLMs and trainable baselines on adjusted nDCG.
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SynthPert: Enhancing LLM Biological Reasoning via Synthetic Reasoning Traces for Cellular Perturbation Prediction
SynthPert fine-tunes LLMs using synthetic reasoning traces to reach state-of-the-art on the PerturbQA benchmark for cellular perturbation prediction, surpassing the generating frontier model while generalizing to unseen cell types with only 2% of filtered data.