Ilknur Karadeniz

According to our database, Ilknur Karadeniz authored at least 10 papers between 2013 and 2026.

Collaborative distances:

• Dijkstra number of five.
• Erdős number of four.

2026

<i>BioTriplex</i> : a full-text annotated corpus for fine-tuning language models in gene-disease relation extraction tasks.

Charlotte Collins, Panagiotis Fytas, Ilknur Karadeniz, Huiyuan Zheng, Simon Baker, Ulla Stenius, Anna Korhonen

Bioinform., 2026

2024

Clustering-Based Negative Sampling Approaches for Protein-Protein Interaction Prediction.

Zehra Kesemen, Ilknur Karadeniz, Reyhan Aydogan

Proceedings of the Computational Intelligence Methods for Bioinformatics and Biostatistics, 2024

2022

Graph convolutional network based virus-human protein-protein interaction prediction for novel viruses.

Mehmet Burak Koca, Esmaeil Nourani, Ferda Abbasoglu, Ilknur Karadeniz, Fatih Erdogan Sevilgen

Comput. Biol. Chem., 2022

2021

Protein Interaction Prediction on PHI Networks Using Graph Convolution Networks.

Mehmet Burak Koca, Ilknur Karadeniz, Esmaeil Nourani, Fatih Erdogan Sevilgen

Proceedings of the 29th Signal Processing and Communications Applications Conference, 2021

2019

Ontology-based entity tagging and normalization in the biomedical domain (Biyomedikal alanda ontoloji tabanlı varlık ismi etiketleme ve normalizasyonu)

Ilknur Karadeniz

PhD thesis, 2019

Linking entities through an ontology using word embeddings and syntactic re-ranking.

Ilknur Karadeniz, Arzucan Özgür

BMC Bioinform., 2019

BOUN-ISIK Participation: An Unsupervised Approach for the Named Entity Normalization and Relation Extraction of Bacteria Biotopes.

Ilknur Karadeniz, Ömer Faruk Tuna, Arzucan Özgür

Proceedings of The 5th Workshop on BioNLP Open Shared Tasks, 2019

2015

Detection and categorization of bacteria habitats using shallow linguistic analysis.

Ilknur Karadeniz, Arzucan Özgür

BMC Bioinform., December, 2015

2013

PHISTO: pathogen-host interaction search tool.

Saliha Durmus Tekir, Tunahan Çakir, Emre Ardiç, Ali Semih Sayilirbas, Gökhan Konuk, Mithat Konuk, Hasret Sariyer, Azat Ugurlu, Ilknur Karadeniz, Arzucan Özgür, Fatih Erdogan Sevilgen, Kutlu Ö. Ülgen

Bioinform., 2013

Bacteria Biotope Detection, Ontology-based Normalization, and Relation Extraction using Syntactic Rules.

Ilknur Karadeniz, Arzucan Özgür

Proceedings of the BioNLP Shared Task 2013 Workshop, Sofia, 2013