List of works - Tunca Doğan

2-D Thresholding of the Connectivity Map Following the Multiple Sequence Alignments of Diverse Datasets

A Structural Perspective on the Modulation of Protein-Protein Interactions with Small Molecules

scientific article published on 01 January 2018

An expanded evaluation of protein function prediction methods shows an improvement in accuracy ⬇️

scientific article

Annotation of biologically relevant ligands in UniProtKB using ChEBI

scientific article published on 9 December 2022

Automatic identification of highly conserved family regions and relationships in genome wide datasets including remote protein sequences.

scientific article

CROssBAR: Comprehensive Resource of Biomedical Relations with Deep Learning Applications and Knowledge Graph Representations

scientific article published on 15 September 2020

CROssBAR: comprehensive resource of biomedical relations with knowledge graph representations

scientific article published on 01 September 2021

DEEPScreen: High Performance Drug-Target Interaction Prediction with Convolutional Neural Networks Using 2-D Structural Compound Representations

scientific article published on 9 December 2018

DEEPScreen: high performance drug-target interaction prediction with convolutional neural networks using 2-D structural compound representations

scientific article published on 08 January 2020

DEEPred: Automated Protein Function Prediction with Multi-task Feed-forward Deep Neural Networks

scientific article published on 14 May 2019

Democratising Knowledge Representation with BioCypher

scientific article published on 27 December 2022

Democratizing knowledge representation with BioCypher

ECPred: a tool for the prediction of the enzymatic functions of protein sequences based on the EC nomenclature

scholarly article by Alperen Dalkiran published in September 2018

HPO2GO: prediction of human phenotype ontology term associations for proteins using cross ontology annotation co-occurrences

article published in 2018

HPO2GO: prediction of human phenotype ontology term associations using cross ontology annotation co-occurrences

Large-scale automated function prediction of protein sequences and an experimental case study validation on PTEN transcript variants.

scientific article published on 3 November 2017

MDeePred: Novel Multi-Channel protein featurization for deep learning based binding affinity prediction in drug discovery

scientific article published on 17 October 2020

Phylogenetic and Other Conservation-Based Approaches to Predict Protein Functional Sites

scientific article published in 2018

Protein domain-based prediction of drug/compound-target interactions and experimental validation on LIM kinases

scientific article published on 29 November 2021

Recent applications of deep learning and machine intelligence on in silico drug discovery: methods, tools and databases

scientific article published on 01 September 2019

The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens

scientific article published on 19 November 2019

Tools and data services registry: a community effort to document bioinformatics resources

scientific article

UniProt-DAAC: domain architecture alignment and classification, a new method for automatic functional annotation in UniProtKB

scientific article published on 07 March 2016

iBioProVis: interactive visualization and analysis of compound bioactivity space

scientific article published on 23 October 2020

List of works by Tunca Doğan

2-D Thresholding of the Connectivity Map Following the Multiple Sequence Alignments of Diverse Datasets

A Structural Perspective on the Modulation of Protein-Protein Interactions with Small Molecules

An expanded evaluation of protein function prediction methods shows an improvement in accuracy ⬇️

Annotation of biologically relevant ligands in UniProtKB using ChEBI

Automatic identification of highly conserved family regions and relationships in genome wide datasets including remote protein sequences.

CROssBAR: Comprehensive Resource of Biomedical Relations with Deep Learning Applications and Knowledge Graph Representations

CROssBAR: comprehensive resource of biomedical relations with knowledge graph representations

DEEPScreen: High Performance Drug-Target Interaction Prediction with Convolutional Neural Networks Using 2-D Structural Compound Representations

DEEPScreen: high performance drug-target interaction prediction with convolutional neural networks using 2-D structural compound representations

DEEPred: Automated Protein Function Prediction with Multi-task Feed-forward Deep Neural Networks

Democratising Knowledge Representation with BioCypher

Democratizing knowledge representation with BioCypher

ECPred: a tool for the prediction of the enzymatic functions of protein sequences based on the EC nomenclature

HPO2GO: prediction of human phenotype ontology term associations for proteins using cross ontology annotation co-occurrences

HPO2GO: prediction of human phenotype ontology term associations using cross ontology annotation co-occurrences

Large-scale automated function prediction of protein sequences and an experimental case study validation on PTEN transcript variants.

MDeePred: Novel Multi-Channel protein featurization for deep learning based binding affinity prediction in drug discovery

Phylogenetic and Other Conservation-Based Approaches to Predict Protein Functional Sites

Protein domain-based prediction of drug/compound-target interactions and experimental validation on LIM kinases

Recent applications of deep learning and machine intelligence on in silico drug discovery: methods, tools and databases

The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens

Tools and data services registry: a community effort to document bioinformatics resources

UniProt-DAAC: domain architecture alignment and classification, a new method for automatic functional annotation in UniProtKB

iBioProVis: interactive visualization and analysis of compound bioactivity space