Text Analytics and BIoInformatics Lab
TABI

Recent Publications

2019

Statistical representation models for mutation information within genomic data
by N. Ozlem Ozcan Simsek , Arzucan Ozgur and Fikret Gurgen
in BMC Bioinformatics , 2019
Generating Word and Document Embeddings for Sentiment Analysis
by Cem Rifki Aydin , Tunga Gungor and Ali Erkan
in 16th International Conference on Intelligent Text Processing and Computational Linguistics (CICLing 2019) , 2019
Developing a Statistical Turkish Sign Language Translation System for Primary School Students
by Buse Buz and Tunga Gungor
in International Symposium on Innovations in Intelligent Systems and Applications (INISTA 2019) , 2019
A Detailed Analysis and Improvement of Feature-Based Named Entity Recognition for Turkish
by Arda Akdemir and Tunga Gungor
in 21st International Conference on Speech and Computer (SPECOM 2019) , 2019
Turkish Treebanking: Unifying and Constructing Efforts
by Utku Turk , Furkan Atmaca , Saziye Betul Ozates , Abdullatif Koksal , Balkiz Ozturk Basaran , Tunga Gungor and Arzucan Ozgur
in Proceedings of the 13th Linguistic Annotation Workshop , 2019
WideDTA: prediction of drug-target binding affinity
by Hakime Ozturk , Elif Ozkirimli and Arzucan Ozgur
in arXiv preprint , 2019
Linking entities through an ontology using word embeddings and syntactic re-ranking
by Ilknur Karadeniz and Arzucan Ozgur
in BMC Bioinformatics , 2019
A Hybrid Translation System from Turkish Spoken Language to Turkish Sign Language
by Dilek Kayahan and Tunga Gungor
in International Symposium on Innovations in Intelligent Systems and Applications (INISTA 2019) , 2019
Joint Learning of Named Entity Recognition and Dependency Parsing using Separate Datasets
by Arda Akdemir and Tunga Gungor
in Computacion y Sistemas , 2019
Overview of the BioCreative VI Precision Medicine Track: mining protein interactions and mutations for precision medicine
by Rezarta Islamaj Dogan , Sun Kim , Andrew Chatr-Aryamontri , Chih-Hsuan Wei , Donald C Comeau , Rui Antunes , Sergio Matos , Qingyu Chen , Aparna Elangovan , Nagesh C Panyam , Karin Verspoor , Hongfang Liu , Yanshan Wang , Zhuang Liu , Berna Altinel , Zehra Melce Husunbeyi , Arzucan Ozgur , Aris Fergadis , Chen-Kai Wang , Hong-Jie Dai , Tung Tran , Ramakanth Kavuluru , Ling Luo , Albert Steppi , Jinfeng Zhang , Jinchan Qu and Zhiyong Lu
in Database , 2019
Representing Overlaps in Sequence Labeling Tasks with a Novel Tagging Scheme: bigappy-unicrossy
by Gozde Berk , Berna Erden and Tunga Gungor
in 16th International Conference on Intelligent Text Processing and Computational Linguistics (CICLing 2019) , 2019
The effect of morphology in named entity recognition with sequence tagging
by Onur Gungor , Tunga Gungor and Suzan Uskudarli
in Natural Language Engineering , 2019
Identifying Image Related Sentences in News Articles
by Melike Esma Ilter , Lale Akarun and Arzucan Ozgur
in 27th Signal Processing and Communications Applications Conference (SIU) , 2019
Improving the Annotations in the Turkish Universal Dependency Treebank
by Utku Turk , Furkan Atmaca , Saziye Betul Ozates , Balkiz Ozturk , Tunga Gungor and Arzucan Ozgur
in Proceedings of the Third Workshop on Universal Dependencies (UDW, SyntaxFest) , 2019

2018

Deep-BGT at PARSEME Shared Task 2018: Bidirectional LSTM-CRF Model for Verbal Multiword Expression Identification
by Gozde Berk , Berna Erden and Tunga Gungor
in Joint Workshop on Linguistic Annotation, Multiword Expressions and Constructions (LAW-MWE-CxG 2018) at COLING 2018 , 2018
A Morphology-based Representation Model for LSTM-based Dependency Parsing of Agglutinative Languages
by Saziye Betul Ozates , Arzucan Ozgur , Tunga Gungor and Balkiz Ozturk
in Proceedings of the CoNLL 2018 Shared Task: Multilingual Parsing from Raw Text to Universal Dependencies , 2018
Improving Named Entity Recognition by Jointly Learning to Disambiguate Morphological Tags Title and Abstract in Turkish
by Onur Gungor , Suzan Uskudarli and Tunga Gungor
in 27th International Conference on Computational Linguistics (COLING 2018) , 2018
A chemical language based approach for protein - ligand interaction prediction
by Hakime Ozturk , Arzucan Ozgur and Elif Ozkirimli
in arXiv preprint , 2018
Edition 1.1 of the PARSEME Shared Task on Automatic Identification of Verbal Multiword Expressions
by Carlos Ramisch , Silvio Ricardo Cordeiro , Agata Savary , Veronika Vincze , Verginica Barbu Mititelu , Archna Bhatia , Maja Buljan , Marie Candito , Polona Gantar , Voula Giouli , Tunga Gungor , Abdelati Hawwari , Uxoa Inurrieta , Jolanta Kovalevskaite , Simon Krek , Timm Lichte , Chaya Liebeskind , Johanna Monti , Carla Escartín , Behrang Qasemizadeh , Renata Ramisch , Nathan Schneider , Ivelina Stoyanova , Ashwini Vaidya and Abigail Walsh
in Proceedings of the Joint Workshop on Linguistic Annotation, Multiword Expressions and Constructions (LAW-MWE-CxG-2018) , 2018
A closed-domain question answering framework using reliable resources to assist students
by Caner Derici , Yigit Aydin , Cigdem Yenialaca , Nihal Yagmur Aydin , Gunizi Kartal , Arzucan Ozgur and Tunga Gungor
in Natural Language Engineering , 2018
Ontology-based literature mining and class effect analysis of adverse drug reactions associated with neuropathy-inducing drugs.
by Junguk Hur , Arzucan Ozgur and Yongqun He
in Journal of biomedical semantics , 2018
A novel methodology on distributed representations of proteins using their interacting ligands.
by Hakime Ozturk , Elif Ozkirimli and Arzucan Ozgur
in Bioinformatics , 2018

Recent Theses

2019

Text-based Machine Learning for Modelling Drug-Target Interactions
by Hakime Öztürk in 2019 under the supervision of Arzucan Özgür and co-advised by Elif Özkırımlı
Ontology-based Entity Tagging and Normalization in the Biomedical Domain
by İlknur Karadeniz in 2019 under the supervision of Arzucan Özgür
Hit Song Prediction using Feature-Based Machine Learning
by Anıl Çalışkol in 2019 under the supervision of Arzucan Özgür
Extracting Protein-Ligand Interactions from the Biomedical Literature using Deep Learning Approaches
by Atakan Yüksel in 2019 under the supervision of Arzucan Özgür and co-advised by Elif Özkırımlı
Using Reviews on the Web to Predict Box Office Success with Machine Learning Methods
by Burak Sivrikaya in 2019 under the supervision of Arzucan Özgür
Hybrid Translation System from Turkish Spoken Language to Turkish Sign Language
by Dilek Kayahan in 2019 under the supervision of Tunga Güngör
Intrinsic and Extrinsic Evaluation of Word Embedding Models
by Gökçe Yeşiltaş in 2019 under the supervision of Tunga Güngör
Mention Extraction and Normalization using Ontologies in the Biomedical Domain
by Mert Tiftikçi in 2019 under the supervision of Arzucan Özgür

2018

Named Entity Recognition in Turkish Using Deep Learning Models and Joint Learning
by Arda Akdemir in 2018 under the supervision of Tunga Güngör
A Framework For Understanding And Detecting Harassment In Social VR
by Lance Powell in 2018 under the supervision of Arzucan Özgür and Didar Akar
Developing a Turkish Language Recommendation System based on User Conversations
by Murat Elifoğlu in 2018 under the supervision of Tunga Güngör

2017

Developing New Approaches for Multi-platform and Multi-Individual Genomic Sequence Assembly
by Pınar Kavak in 2017 under the supervision of Tunga Güngör and co-advised by Can Alkan