Publications
Refereed International Journal Articles
Graph convolutional network based virus-human protein-protein interaction prediction for novel viruses Link to full-text
KOCA, M.B, NOURANI E., ABBASOĞLU F., KARADENİZ, İ., SEVILGEN, F.E. Volume 101., Journal of Computational Biology and Chemistry, 2022
Linking Entities through an Ontology using Word Embeddings and Syntactic Re-ranking Link to full-text
KARADENİZ, İ. AND ÖZGÜR, A. 20(1), BMC Bioinformatics, p.156 , 2019
Literature Mining and Ontology based Analysis of Host-Brucella Gene-Gene Interaction Network Link to full-text
KARADENİZ, İ., HUR, J., HE, Y., AND ÖZGÜR, A., Frontiers in Microbiology, 2015
Detection and categorization of bacteria habitats using shallow linguistic analysis Link to full-text
KARADENİZ, İ. AND ÖZGÜR, A., BMC Bioinformatics, 16.10: S5., 2015
PHISTO: Pathogen–Host Interaction Search Tool Link to full-text
DURMUŞ TEKIR, S., ÇAKıR T., ARDıÇ E., SAYıLıRBAŞ A.S., KONUK G., KONUK M., SARıYER H., UĞURLU A., KARADENİZ, İ., ÖZGÜR A., SEVILGEN FE., Bioinformatics, 29(10), 1357-1358, 2013
Refereed International Conference and Workshop Papers
Linguistically informed Machine learning Approach for Causality Identification in Financial Documents Link to full-text
ÖZENİR, G. AND KARADENİZ, İ., IN PROCEEDINGS OF THE 1ST JOINT WORKSHOP ON FINANCIAL NARRATIVE PROCESSING AND MULTILING FINANCIAL SUMMARISATION, pp. 85-89, in conjunction with COLING 2020, (online)
BOUN ISIK Participation An unsupervised Approach for the Named Entity Normalization and Relation Extraction of Bacteria Biotopes Link to full-text
KARADENİZ, İ., TUNA, Ö.F. AND ÖZGÜR, A., IN PROCEEDINGS OF THE 5TH WORKSHOP ON BIONLP OPEN SHARED TASKS, pp. 150-157. in conjunction with EMNLP 2019, Hong Kong
Bacteria Biotope Detection, Ontology based Normalization, and Relation Extraction using Syntactic Rules Link to full-text
KARADENİZ, İ. AND ÖZGÜR, A., IN PROCEEDINGS OF THE BIONLP SHARED TASK 2013 WORKSHOP, in conjunction with ACL 2013, Sofia
PHISTO A New Web Platform for Pathogen Human Interactions Link to full-text
DURMUŞ TEKIR S., ÇAKıR T., ARDıÇ E., KARADENİZ, İ., ÖZGÜR A., SEVILGEN F.E., ÜLGEN, K. pp. 268., Computational Methods in Systems Biology, 2013
Generating Java Class Skeleton Using a Natural Language Interface Link to full-text
OZCAN, E., SEKER, S.E. AND KARADENİZ, Z.İ. pp. 126-134., NLUCS, 2004
Others
Protein Interaction Prediction on PHI Networks Using Graph Convolution Networks Link to full-text
KOCA, M.B., KARADENİZ, İ., NOURANI, E. AND SEVILGEN, F.E., IN 2021 29TH SIGNAL PROCESSING AND COMMUNICATIONS APPLICATIONS CONFERENCE (SIU), (pp. 1-4), IEEE
Linking Entities through an Ontology using Word Embeddings and Syntactic Re-ranking
ECCB 2018 - 17th European Conference on Computational Biology, POSTER
Ontology-based Named Entity Normalization using Word Embeddings
HIBIT 2018 - International Symposium on Health Informatics and Bioinformatics, POSTER