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

    Article • PLoS Computational Biology, November 2021, PLOS

    Dr Tunca Dogan

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

    Article • Chemical Science, January 2020, Royal Society of Chemistry

    Dr Tunca Dogan

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

    Article • November 2019, Springer Science + Business Media

    Dr Tunca Dogan

  4. FAIR adoption, assessment and challenges at UniProt

    Article • Scientific Data, September 2019, Springer Science + Business Media

    Dr Tunca Dogan

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

    Article • May 2019, Cold Spring Harbor Laboratory Press

    Dr Tunca Dogan, Dr Christophe Dessimoz

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

    Article • Scientific Reports, May 2019, Springer Science + Business Media

    Dr Tunca Dogan

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

    Article • December 2018, Cold Spring Harbor Laboratory Press

    Dr Tunca Dogan

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

    Article • BMC Bioinformatics, September 2018, Springer Science + Business Media

    Dr Tunca Dogan

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

    Article • PeerJ, August 2018, PeerJ

    Dr Tunca Dogan

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

    Article • Briefings in Bioinformatics, July 2018, Oxford University Press (OUP)

    Dr Tunca Dogan

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

    Article • July 2018, PeerJ

    Dr Tunca Dogan

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

    Article • Current Topics in Medicinal Chemistry, July 2018, Bentham Science Publishers

    Dr Tunca Dogan

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

    Article • March 2018, PeerJ

    Dr Tunca Dogan

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

    Article • March 2018, PeerJ

    Dr Tunca Dogan

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

    Article • January 2018, Springer Science + Business Media

    Dr Tunca Dogan

  16. Large-scale automated protein function prediction and an experimental validation

    Article • Proteins Structure Function and Bioinformatics, November 2017, Wiley

    Tunca Dogan, Ahmet Sureyya Rifaioglu, Dr Tunca Dogan

  17. UniProt: the universal protein knowledgebase

    Article • Nucleic Acids Research, November 2016, Oxford University Press (OUP)

    Dr Tunca Dogan

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

    Article • September 2016, Springer Science + Business Media

    Professor Casey Greene, Dr Christophe Dessimoz, Dr Tunca Dogan

  19. UniProt Tools

    Article • March 2016, Wiley

    Dr Tunca Dogan

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

    Article • Bioinformatics, March 2016, Oxford University Press (OUP)

    Dr Tunca Dogan

  21. The UniProtKB guide to the human proteome

    Article • Database, January 2016, Oxford University Press (OUP)

    Dr Tunca Dogan

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

    Article • Nucleic Acids Research, November 2015, Oxford University Press (OUP)

    Mr Rafael C Jimenez, Björn Grüning, Dr Tunca Dogan, Matúš Kalaš

  23. UniProt: a hub for protein information

    Article • Nucleic Acids Research, October 2014, Oxford University Press (OUP)

    Dr Tunca Dogan

  24. Activities at the Universal Protein Resource (UniProt)

    Article • Nucleic Acids Research, November 2013, Oxford University Press (OUP)

    Dr Tunca Dogan

  25. Automatic Identification of Highly Conserved Family Regions and Relationships in Genome Wide Datasets Including Remote Protein Sequences

    Article • PLoS ONE, September 2013, PLOS

    Dr Tunca Dogan

  26. 2-D Thresholding of the Connectivity Map Following the Multiple Sequence Alignments of Diverse Datasets

    Article • January 2013, ACTA Press

    Dr Tunca Dogan