Functional genomics
功能基因组学
Deep learning, genome recovery, and protein and genome language models.
The PKU-EMBL Lab develops a high-throughput pipeline that transforms environmental microbial dark matter into computable knowledge, integrating extreme-environment multi-omics, artificial intelligence, and experimental validation.
Research Focus
From genes to reactions to networks
从“基因—反应—网络”的递进式技术链条
Across high-salinity, high-alkalinity, and low-temperature habitats, we connect genome reconstruction and functional annotation with metabolic reasoning and predictive community models.
Functional genomics
Reaction networks
代谢反应网络
Knowledge graphs, multi-omics evidence retrieval, and multi-agent reasoning.
Community models
群落互作调控
Computable world models for interactions, state transitions, and interventions.
Software
Open-source tools from the PKU-EMBL Lab
Two BASALT-family tools for genome-resolved microbiome research.
BASALT
Metagenomic binning and genome refinement.
GitHub 234 starsBASALT-Air
Lightweight BASALT-family MAG recovery pipeline.
GitHub 5 starsCourses
Graduate courses led by the PKU-EMBL Lab
Open course materials connecting environmental science, bioinformatics, and reproducible data analysis.
Environmental Bioinformatics Methods
环境生物信息学方法
From sequence resources and alignment to metagenomic assembly, binning, genome quality assessment, and multi-omics analysis.
Data Visualization and Analysis Methods
数据可视化与分析方法
Hands-on data analysis, visual communication, reproducible reporting, and collaborative research projects.
Join The Lab
Open to MPhil/Ph.D. students, postdocs, visiting researchers, and research interns
We welcome inquiries from people excited about microbiome science, environmental biotechnology, bioinformatics, and AI for science.