HUBioDataLab repositories

39 repositories

hubiodatalab.github.io
Public
HUBioDataLab website
machine-learning bioinformatics deep-learning
machine-learning bioinformatics deep-learning computational-biology artificial-intelligence
HTML
•
BSD 3-Clause "New" or "Revised" License
•20•1•0•2•Updated Sep 28, 2026Sep 28, 2026
DEEPScreen2
Public
Automated Tool for Drug-Target Interaction Prediction Using Deep Convolutional Neural Networks
Python
•
GNU General Public License v3.0
•7•3•0•1•Updated Sep 27, 2026Sep 27, 2026
CROssBAR-pypath
Public
Python module for prior knowledge integration. Builds databases of signaling pathways, enzyme-substrate interactions, complexes, annotations and intercellular …
Python
•
GNU General Public License v3.0
•56•2•0•3•Updated Sep 27, 2026Sep 27, 2026
Prot2Mol
Public
Target based molecule generation using protein embeddings and SELFIES molecule representation
Python
•
GNU General Public License v3.0
•2•4•0•2•Updated Sep 18, 2026Sep 18, 2026
MIND
Public
Python
•0•0•0•0•Updated Sep 13, 2026Sep 13, 2026
SELFormerMM
Public
Python
•0•4•0•0•Updated Sep 1, 2026Sep 1, 2026
CROssBAR_LLM
Public
JavaScript
•
GNU Affero General Public License v3.0
•3•7•0•1•Updated Aug 27, 2026Aug 27, 2026
CROssBARv2-KG
Public
This is the repo for CROssBARv2 Knowledge Graph data. CROssBARv2 is a heterogeneous general-purpose biomedical KG-based system.
bioinformatics knowledge-graph
bioinformatics knowledge-graph
Python
•
GNU Affero General Public License v3.0
•14•16•3•2•Updated Aug 26, 2026Aug 26, 2026
DrugGEN
Public
Official implementation of DrugGEN: Target Specific De Novo Design of Drug Candidate Molecules with Graph Transformer-based Generative Adversarial Networks
machine-learning deep-learning pytorch
machine-learning deep-learning pytorch transformer generative-adversarial-network drug-discovery generative-models graph-neural-networks drug-target-interactions denovo-design
Python
•
GNU General Public License v3.0
•24•105•1•0•Updated Aug 11, 2026Aug 11, 2026
PROQUEST
Public
ProQuest: Protein Querying Using Semantic Technology for developing the UniProtKB LLM Query Interface
JavaScript
•1•1•0•0•Updated Aug 3, 2026Aug 3, 2026
ContVAR
Public
Python
•0•1•0•0•Updated Jun 12, 2026Jun 12, 2026
crossbar-website
Public
HTML
•0•0•0•0•Updated May 19, 2026May 19, 2026
SELFormer
Public
SELFormer: Molecular Representation Learning via SELFIES Language Models
machine-learning deep-learning cheminformatics
machine-learning deep-learning cheminformatics transformers drug-discovery representation-learning language-model
Python
•20•118•0•0•Updated May 6, 2026May 6, 2026
DeepResponse
Public
DeepResponse: Large Scale Prediction of Cancer Cell Line Drug Response with Deep Learning Based Pharmacogenomic Modelling
machine-learning deep-learning convolutional-neural-networks
machine-learning deep-learning convolutional-neural-networks cancer-research multi-omics graph-neural-networks drug-response-prediction graph-transformer
Python
•3•1•0•0•Updated May 6, 2026May 6, 2026
crossbar-compose
Public
Makefile
•
GNU Affero General Public License v3.0
•0•0•0•0•Updated Apr 17, 2026Apr 17, 2026
CROssBARv2
Public
CROssBARv2: A Unified Biomedical Knowledge Graph for Heterogeneous Data Representation and LLM-Driven Exploration
GNU Affero General Public License v3.0
•1•3•0•0•Updated Feb 24, 2026Feb 24, 2026
ECLIPSE
Public
Exploration of Complex Ligand-Protein Interactions through Learning from Systems-level Heterogeneous Biomedical Knowledge Graphs
Python
•
GNU General Public License v3.0
•1•0•0•0•Updated Feb 21, 2026Feb 21, 2026
GLaDiGAtor
Public
The official code repository of GLaDiGAtor
Python
•
MIT License
•0•1•1•0•Updated Feb 18, 2026Feb 18, 2026
crossbar-graphql
Public
JavaScript
•
GNU Affero General Public License v3.0
•0•0•0•0•Updated Feb 10, 2026Feb 10, 2026
ProtHGT
Public
A Heterogeneous Graph Transformer (HGT)-based model for protein function prediction using biological knowledge graphs and protein language models
knowledge-graph gene-ontology hgt
knowledge-graph gene-ontology hgt protein-function-prediction gene-ontology-terms heterogeneous-graph-learning protein-language-model heterogeneous-graph-transformer biological-knowledge-graph
Python
•
GNU General Public License v3.0
•1•19•0•0•Updated Jan 27, 2026Jan 27, 2026
SELFormerMM_back
Public
Python
•1•0•0•0•Updated Nov 30, 2025Nov 30, 2025
ProtMamba
Public
Python
•1•2•0•0•Updated Nov 28, 2025Nov 28, 2025
PROBE
Public
Jupyter Notebook
•0•0•0•0•Updated Aug 15, 2025Aug 15, 2025
crossbar-tls-dumper
Public
Shell
•
GNU Affero General Public License v3.0
•0•0•0•0•Updated May 29, 2025May 29, 2025
FlowProt
Public
Jupyter Notebook
•0•1•0•0•Updated May 5, 2025May 5, 2025
TransPRSFP
Public
Python
•
GNU General Public License v3.0
•2•0•0•0•Updated Apr 21, 2025Apr 21, 2025
HoliLoc
Public
HoliLoc: Image, Sequence, and Interactome Based Prediction of Protein Subcellular Localization
Python
•
GNU General Public License v3.0
•1•0•0•0•Updated Jan 8, 2025Jan 8, 2025
Domain2GO
Public
A Python tool for predicting protein functions by associating domains with Gene Ontology terms using existing domain and GO annotation data
protein-function-prediction
protein-function-prediction
Python
•1•2•0•0•Updated Aug 12, 2024Aug 12, 2024
ASCARIS
Public
ASCARIS: Annotation & Structure-Based Representation of SAVs
Python
•3•2•0•0•Updated Jul 22, 2024Jul 22, 2024
SELFormer_back
Public
SELFormer: Molecular Representation Learning via SELFIES Language Models
Python
•3•4•0•0•Updated Jun 29, 2024Jun 29, 2024

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Hacettepe University Biological Data Science Laboratory

All

39 repositories

hubiodatalab.github.io

DEEPScreen2

CROssBAR-pypath

Prot2Mol

MIND

SELFormerMM

CROssBAR_LLM

CROssBARv2-KG

DrugGEN

PROQUEST

ContVAR

crossbar-website

SELFormer

DeepResponse

crossbar-compose

CROssBARv2

ECLIPSE

GLaDiGAtor

crossbar-graphql

ProtHGT

SELFormerMM_back

ProtMamba

PROBE

crossbar-tls-dumper

FlowProt

TransPRSFP

HoliLoc

Domain2GO

ASCARIS

SELFormer_back

Repositories list

39 repositories