🙌 I am Cunliang Geng
I am a research software engineer at the Netherlands eScience Center with a background in computational structural biology.
I am passionate about scientific software development and the application of AI in life sciences to tackle complex challenges.
Projects
⭐ AI for Biology
Protein-protein interaction prediction
- SwiftMHC: a high-speed attention network for MHC-Bound peptide identification and 3D modeling
- DeepRank: a deep learning framework for identifying 3D protein-protein interactions
- iScore: an MPI supported software for ranking protein-protein docking models based on random walk graph kernel and support vector machines
Binding affinity prediction
- PRODIGY-LIG: a webserver for large-scale prediction of binding affinity (∆G) in protein-ligand complexes
- iSEE: a random forest model for prediction of binding affinity changes upon single point mutations (∆∆G) in protein-protein complexes
DNA barcode identification
- TaxoTagger: a python library powered by deep learning and semantic search for DNA barcode identification
⭐ Omics Data Processing
- NPLinker: a python framework for integrating multi-omics data to discover new microbial natural products
- MatchMS: a python library for processing mass spectrometry data and computing similarity scores between mass spectra
- pdb2sql: a python library for parsing, manipulation and analysis of PDB files using SQL queries
⭐ Federated Learning
- Vantage6: an infrastructure for federated analysis and learning, powered by kubernetes and docker.
⭐ Healthcare Data Processing
- FHIR for GameBus: a data harmonization microservice to transform healthcare data into the standard FHIR format.
Side Experiments
Random experiments, prototypes, and ideas I wanted to try.