Pan Li

Harnessing historical collections to reconstruct the invasion history of Microstegium vimineum (Poaceae)

This study uses historical and contemporary genetic data to reconstruct the invasion history of Microstegium vimineum, identifying multiple independent introductions and genetic adaptations.

MTB-KB: A Curated Knowledgebase of Mycobacterium tuberculosis Related Studies

MTB-KB consolidates fragmented MTB research into a structured knowledgebase with a knowledge graph, enabling exploration of MTB-host interactions and treatment strategies.

Pretraining Enhances Megabase-Scale Gene Expression Prediction with GeneUnet

The paper introduces GB.GeneUnet, a transformer-based model pretrained on multi-species genomes to predict gene expression at megabase-scale contexts, achieving state-of-the-art performance.

Foundation Models Improve Perturbation Response Prediction

This study evaluates foundation models for predicting cellular responses to perturbations, finding that some pretrained embeddings improve predictions while others do not.

Evolutionary genomics predicts probiotic persistence in corals

This paper identifies a probiotic bacterium with persistent colonization in corals using evolutionary genomic markers, showing improved thermal tolerance and survival during bleaching.

xTrimoPGLM: Unified 100B-Scale Pre-trained Transformer for Deciphering the Language of Protein

A 100-billion-parameter protein language model trained with masked and autoregressive objectives together, topping prior results on 15 of 18 benchmarks and powering a fast structure predictor.