Code associated with the paper 'Cracking the blackbox of deep sequence-based protein-protein interaction prediction'
☆28Jan 8, 2024Updated 2 years ago
Alternatives and similar repositories for data-leakage-ppi-prediction
Users that are interested in data-leakage-ppi-prediction are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆15Feb 18, 2025Updated last year
- Dataset and package for working with protein-protein interactions in 3D☆105Apr 28, 2025Updated 10 months ago
- ☆16Dec 10, 2024Updated last year
- A web app to convert a PyMOL PSE file or PDB file to a easy to implement NGL.js view that can be implemented easily on any site☆12Nov 12, 2021Updated 4 years ago
- Python interface to cd-hit☆10Feb 26, 2019Updated 7 years ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- Embedding-based annotation transfer (EAT) uses Euclidean distance between vector representations (embeddings) of proteins to transfer ann…☆41Aug 29, 2025Updated 6 months ago
- SGPPI: structure-aware prediction of protein-protein interactions in rigorous conditions with graph convolutional network☆15Nov 17, 2022Updated 3 years ago
- Python Bioinformatics Toolkit for CATH (Protein Classification Database @ UCL)☆17Sep 30, 2024Updated last year
- A structure-aware interpretable deep learning model for sequence-based prediction of protein-protein interactions☆112Feb 19, 2026Updated last month
- DataSAIL is a tool to split datasets while reducing information leakage.☆48Mar 12, 2026Updated 2 weeks ago
- ☆19Aug 6, 2019Updated 6 years ago
- LoRA for protein language models☆48Jan 24, 2024Updated 2 years ago
- ☆55Aug 3, 2024Updated last year
- TUnA: Transformer-based Uncertainty Aware model for PPI Prediction☆16Dec 21, 2025Updated 3 months ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- PLM-interact: extending protein language models to predict protein-protein interactions.☆63Aug 29, 2025Updated 6 months ago
- A PyTorch implementation of GCN with mutual attention for protein-protein interaction prediction☆61Aug 7, 2021Updated 4 years ago
- Implementation of the TintiNet architecture for Julia☆17Mar 1, 2024Updated 2 years ago
- Automatic Retrieval and ClusTering of Interfaces in Complexes from 3D structural information☆32Jan 22, 2026Updated 2 months ago
- Pretrained METL models with minimal dependencies☆17Sep 18, 2025Updated 6 months ago
- Domain-PFP is a self-supervised method to predict protein functions from the domains☆14Nov 1, 2023Updated 2 years ago
- fragbuilder is a tool to create, setup and analyze QM calculations on peptides.☆15Oct 31, 2014Updated 11 years ago
- Metrics for our protein design competitions.☆34Nov 1, 2024Updated last year
- An Interface-Predicting Language Model for Designing Peptide-Guided Protein Degraders☆16Sep 10, 2024Updated last year
- DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Code for paper "ToxIBTL: prediction of peptide toxicity based on information bottleneck and transfer learning"☆13Jan 24, 2022Updated 4 years ago
- E(3) equivariant graph neural network for PPI site prediction☆10Sep 18, 2023Updated 2 years ago
- Open-source docking pipeline leveraging pairwise statistics☆15Jul 26, 2024Updated last year
- This repo contains the collection of codes to find designer interfacial mutations☆17Sep 4, 2023Updated 2 years ago
- Simple Python package to calculate ROC AUC with confidence intervals using DeLong’s method☆22Mar 9, 2026Updated 2 weeks ago
- Protein common interface databases☆10Apr 13, 2019Updated 6 years ago
- Contrastive learning harmonizing protein language models and natural language models☆40Jun 12, 2024Updated last year
- Exploring Isoform-specific interactions☆13Sep 16, 2025Updated 6 months ago
- PCA and normal mode analysis of proteins☆20May 16, 2024Updated last year
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- A collection of tutorials for the python implementation of Dynamical Network Analysis☆15Aug 6, 2025Updated 7 months ago
- Public version for DistPepFold☆10Jul 17, 2025Updated 8 months ago
- ☆26May 9, 2022Updated 3 years ago
- Deep convolutional networks for fold recognition☆22Nov 8, 2019Updated 6 years ago
- ☆10Nov 10, 2023Updated 2 years ago
- Neural relational inference for molecular dynamics simulations☆59May 30, 2023Updated 2 years ago
- A deep learning framework for deubiquitnase-substrate interaction identification☆12Jul 31, 2025Updated 7 months ago