Main Conference – Day 1 (June 28, 2017)
09:00 – 10:00 Opening Session

  • Welcome by Assoc. Prof. Dr. Mohammad Shikakhwa (Advisor to the President, METU NCC)
  • Welcome by Prof. Dr. Nese Yalabik (METU, HIBIT 2017 Honorary Chair)
10:00 – 11:00 Keynote –  Dr. Ernest Fraenkel, Massachusetts Institute of Technology
Title: Beyond Genomics:  Opportunities and Challenges for Using the Other Omics in Precision Medicine
11:00 – 11:15 Coffee break & Cancer Genomics Cloud (CGC) demo by Seven Bridges Genomics
11:15 – 11:45 Dr. Emre Guney, University of Pompeu Fabra (Invited Talk)
Title: Challenges and opportunities in systems pharmacology
11:45 – 12:15 Dr. Ercument Cicek, Bilkent University (Invited)
Title: Genomic Data Sharing and Privacy Risks
12:15 – 13:30 Lunch
13:30 – 14:00 Dr. Mehmet Ozturk, International Biomedicine and Genome Institute (Invited)
Title: Cancer Genome Analyses and Personalized Medicine
14:00 – 14:30 Dr. Bedirhan Ustun, Koc University (Invited)
Title: Semantic Interopretability: How to avoid an e-Tower of Babel?
14:30 – 14:45 Coffee break & Cancer Genomics Cloud (CGC) demo by Seven Bridges Genomics

Session I
Structural Bioinformatics
(Amfi 3)
Dr. Çağdaş Son
Session II
Health Informatics
(Amfi 2)
Dr. Yesim Aydin Son
Ezgi Karaca, João Rodrigues, Andrea Graziadei, Alexandre Bonvin and Teresa Carlomagno.
Title: An Integrative Framework for Structure Determination of Molecular Machines
Koray Açıcı, Çağatay Berke Erdaş, Tunç Aşuroğlu, Münire Kılınç Toprak, Hamit Erdem and Hasan Oğul.
Title: Wearable Solutions for Parkinson’s Disease Monitoring
Sıla Özdemir, Attila Gursoy and Ozlem Keskin.
Title: Analysis of single amino acid variations in hot spot and hot region residues of protein-protein interaction interfaces
İlknur Buçan Kırkbir, Burçin Kurt and Kemal Turhan.
Title: A Computer Aided Diagnosis System for Heart Attack Using Decision Tree
Serena Muratcıoğlu, Hyunbum Jang, Attila Gursoy, Ozlem Keskin and Ruth Nussinov.
Title: Interaction of farnesylated, but likely depalmitoylated, Ras isoforms with PDEδ
Emrah Akkoyun, Aybar Can Acar, Byron Zambrano and Seungik Baek.

Title: Cardiovascular Modelling for Abdominal Aortic Aneurysms


Session III
Cancer Systems Biology
(Amfi 3)
Dr. Mesut Muyan
Session IV

(Amfi 2)
Dr. Ogün Adebali
Oguzhan Begik, Merve Oyken, Tuna Cinkilli Alican, Tolga Can and Ayse Elif Erson Bensan.
Title: Alternative polyadenylation patterns for cancer classification
Arif Yılmaz and Yeşim Aydın Son.

Title: Lossless Pruning of AHP SNP Prioritization Tree Using Random Forest Variable Importances
Tunde Aderinwale and Hilal Kazan.

Title: Integrating Multiple Data Types for Cancer Subtype Discovery
Fatih Karaoglanoglu, Marzieh Eslami Rasekh and Can Alkan.
Title: Discovering Large Genomic Inversions Using Long-range Information
Mona Shojaei, Ece Akhan, Aybar Can Acar and Rengül Çetin Atalay.

Title: Identification of Gene Mutations Involved In Drug Resistance In Liver Cancer Using RNA-Seq Data Analysis
Elif Bozlak, Yetkin Alıcı, Evrim Fer, Melike Dönertaş, Rasmus Nielsen and Mehmet Somel.
Title: Neighbouring sequence context-based fixation bias of mutations in chimpanzee genome
16:15 – 16:30 Coffee Break & Cancer Genomics Cloud (CGC) demo by Seven Bridges Genomics
16:30 – 18:30 POSTER SESSION
19:00 – 20:30 Welcome Reception
Main Conference – Day 2 (June 29, 2017)
09:00 – 09:30 Tea / coffee, cookies
09:30 – 10:30 Keynote – Dr. Maria Martin, European Bioinformatics Institute (EMBL-EBI)
Title: Big data infrastructure for advancing biomedical research
10:30 – 10:45 Coffee break & Cancer Genomics Cloud (CGC) demo by Seven Bridges Genomics
10:45 – 11:15 Dr. Aybar Can Acar, METU (Invited)
Title: Probabilistic Programming in Bioinformatics
11:15 – 11:45 Dr. Ogun Adebali, University of North Carolina at Chapel Hill (Invited Talk)
Title: Genomics of DNA Damage, Repair and Mutagenesis

Session V
(Amfi 3)
Dr. Emre Güney
Session VI
Computational Drug Discovery

(Amfi 2)
Dr. Tolga Can
Cesim Erten, Evis Hoxha, Hilal Kazan and Esra Tepe.
Title: Identification of dysregulated pathways across multiple cancer types
Remzi Çelebi, Erkan Yaşar, Özgür Gümüş and Oğuz Dikenelli.
Title: RDF Graph Embeddings for Prediction of Drug-Drug Interactions
Guvanch Ovezmyradov.
Title: Integrative bioinformatics analysis of multi-omics data facilitates functional characterization of the candiate tumor suppressor protein CTCF
Handan Melike Dönertaş and Janet Thornton.
Title: Drug Repurposing for Ageing: A Connectivity Map Approach
12:15 – 13:30 Lunch
13:30 – 14:00 Dr. Tugba Suzek, Mugla Sitki Kocman University (Invited Talk)
Title: Bridging cheminformatics and bioinformatics with public tools

Session VII
Protein Function Prediction
(Amfi 3)
Dr. Baris Suzek
Session VIII
Interactomics & miRNA

(Amfi 2)
Dr. Aybar Can Acar
Rabie Saidi, Maryam Abdollahyan and Maria Martin.
Title: A Self-training Approach for Functional Annotation of UniProtKB Proteins
Erdem Turk and Baris Suzek.
Title: Leveraging Taxonomic Ranks for Improving MirrorTree-based Protein Interaction Prediction
Ahmet Süreyya Rifaioğlu, Maria Martin, Rengul Cetin-Atalay, Volkan Atalay and Tunca Dogan.
Title: Investigation of Multi-task Deep Neural Networks in Automated Protein Function Prediction
Sedef Erkunt, Necati Altindis, Ahmet Efe Koseoglu and Cemal Un.
Title: Use of miRNA in struggling of Varroa parasite
14:30 – 14:45 Coffee break & Cancer Genomics Cloud (CGC) demo by Seven Bridges Genomics

Session IX – Data Sharing
(Amfi 3)
Dr. Rengul Cetin-Atalay
Seven Bridges Genomics
Title: Cancer Genomics Cloud and Case Studies
Dr. Richard Dixon, QIAGEN
Title: Human genome sequence analysis and interpretation with QIAGEN Bioinformatics
Dr. Elif Erson Bensan, METU
Title: Resolving the complexity of the cancer transcriptome through 3’ UTRs
Dr. Nurhan Ozlu, Koc University
Title: Proteomic Analysis of Epithelial Mesenchymal Transition
Dr. Hilal Ozdag, Ankara University
Title: Sporadic Colorectal Cancer in Turkey: From GWAS to Validation
Dr. Ozgur Sahin, Bilkent University
Title: Systems biology approaches to construct RNA interaction networks regulating chemotherapy resistance and metastasis in triple negative breast cancer
Dr. Mesut Muyan, METU
Title: Protein interaction approaches to assign a function for an estrogen responsive gene protein: CXXC5
17:00 – 17:15 Closing remarks
ISCB RSG Turkey Student Symposium – Day 3 (June 30, 2017)
09:00 – 09:15
Opening Session
09:15 – 10:00
Keynote – Dr. Uğur Sezerman, Acıbadem University
Title: WANTED: Bioinformaticians
10:00 – 10:20
Coffee Break
10:20 – 11:20
Student Session (TBD)
11:20 – 11:50
Dr. Emre Güney, University of Pompeu Fabra (Invited Talk)
Title: Should I stay or should I go NOW?
11:50 – 12:10
Closing remarks

*Subject to changes