Computational Systems Biology Group

Research Posters

2017

• Towards mining Parkinson’s Disease biomarkers by mapping transcriptome data on brain-specific molecular interaction networks
  • Ali Kaynar, Ìsa Yüksel, Melis Savaşan Söğüt, Işıl Aksan Kurnaz, Tunahan Çakır
  • 5th International Congress of the Molecular Biology Association of Turkey (MolBioKon2017). Athens / GREECE (September 7-10, 2017)
• Model-Based Analysis of Parkinson’s Disease By Incorporating Alpha-Synuclein Production into A Genome-Scale Brain Specific Metabolic Network
  • Ali Kaynar, Işıl Aksan Kurnaz, Tunahan Çakır
  • 5th International Congress of the Molecular Biology Association of Turkey (MolBioKon2017). Istanbul / TURKEY (September 8-10, 2017)
• Metabolic Capacities of Lactic Acid Bacteria in Cheese Starter Cultures Grown in Pure And Co-cultures
  • Emrah Özcan, Emrah Nikerel, Tunahan Çakır, Ebru Toksoy Öner
  • 12th International Symposium on Lactic Acid Bacteria ( LAB12). Egmond an Zee / the NETHERLANDS (August 27-31, 2017)
• A novel metabolite-centric approach for the identification of perturbed metabolic pathways from genome-wide data
  • Tunahan Çakır
  • European Conference of Computational Biology (ECCB/ISMB 2017). Prague / CZECH REPUBLIC (July 21-24, 2017)
• Comparative and functional analysis of significantly changed genes in Parkinson's Disease in different brain regions
  • Ali Kaynar, Tunahan Çakır
  • 15th National Neuroscience Kongress. Sakarya / TURKEY (May 7-10, 2017)
• Mining transcriptome and proteome data from Parkinson's Dsease using metabolite-centered reporter pathway analysis
  • Ìsa Yüksel, Tunahan Çakır
  • 15th National Neuroscience Kongress. Sakarya / TURKEY (May 7-10, 2017)

2015

• Investigation of infection mechanisms via pathogen-host interactions using computational systems biology
  • Said Karakoç, Tunahan Çakır, Kutlu Ülgen, F. Erdoğan Sevilgen, Saliha Durmuş Tekir
  • 14th National Medical Biology and Genetics Congress. Fethiye / TURKEY (October 27-30, 2015)
• Reconstruction of Cold Stress Specific Genome-scale Metabolic Models for Arabidopsis thaliana
  • Emrah Kırdök, Ìsa Yüksel, Emrah Özcan, Tunahan Çakır
  • Green Biotechnology Workshop. Kocaeli / TURKEY (September 21-23, 2015)
• Investigation of the Effects of Glioblastoma Tumors on Brain Metabolism Using Computational Systems Medicine Approaches
  • Emrah Özcan, Tunahan Çakır
  • International Symposium on Advances in Predictive & Personalized Medicine’ (APPM-2015). İstanbul / TURKEY (April 2-3, 2015)
• Metabolic Network based Analysis of Microbial Communities
  • Emrah Özcan, Ebru Toksoy Öner, Tunahan Çakır
  • 3rd National Bioengineering Student Congress. İstanbul / TURKEY (March 12-13, 2015)

2014

• Elucidation of the Cold Stress Specific Gene Regulatory Network for Arabidopsis thaliana
  • Emrah Kırdök, Yelda Özden Çiftçi, Tunahan Çakır
  • Genome Variations: Symposium of Applications and Data Analysis. Istanbul / TURKEY (September 15-16, 2014)
• Bioinformatic Analysis of Parkinson’s Disease, Huntington’s Disease and Multiple Sclerosis to Reveal Disease-Specific Metabolic Patterns
  • Z. Onur Çalışkaner, Abdullah Abdul Waheed, Emrah Özcan, Tunahan Çakır
  • 3rd International Congress of the Molecular Biology Association of Turkey (MolBioKon2014). Izmir / TURKEY (September 10-12, 2014)
• Identifying the Cold Stress Specific Protein-Protein Interaction Network for Arabidopsis thaliana
  • Emrah Kırdök, Yelda Özden Çiftçi, Tunahan Çakır
  • 3rd International Congress of the Molecular Biology Association of Turkey (MolBioKon2014). Izmir / TURKEY (September 10-12, 2014)
• The Flux Balance Analysis of Human Brain Metabolic Network Affected by Alzheimer’s Disease
  • Ülker Alkaya, Emrah Özcan, Tunahan Çakır
  • International ITU Molecular Biology and Genetics Student Congress ‘14 . Istanbul / TURKEY (August 15-17, 2014)
• PHISTO: A Web Platform For Studying Infection Mechanisms through Pathogen-Human Interactions
  • Tunahan Çakır, Emre Ardıç, Said Karakoç, İlknur Karadeniz, Emrah Nikerel, Arzucan Özgür, F. Erdoğan Sevilgen, Saliha Durmuş Tekir
  • 3rd International Conference of Molecular Biology and Biotechnology. Sarajevo / BOSNIA AND HERZEGOVINA (June 2-6, 2014)
• Computational Systems Biology Approaches to Investigate the Effect of Glioblastoma Tumors on Cellular Metabolism
  • Emrah Özcan, Tunahan Çakır
  • 12th National Neuroscience Congress. Istanbul / TURKEY (May 28-31, 2014)

2013

• A Systems Approach to Investigate the Effect of Autism on Metabolism
  • Emrah Kırdök, Tunahan Çakır
  • 2nd International Congress of the Molecular Biology Association of Turkey: MolBioKon2013. Istanbul / TURKEY (November 22-23, 2013)
• Optimization Based Inference of Metabolic Networks from Metabolome Data
  • Melik Öksüz, Hasan Sadıkoğlu, Tunahan Çakır
  • Computational Methods in Systems Biology: CMSB13. Klosterneuburg / AUSTRIA (September 23-26, 2013)
• PHISTO: A New Web Platform for Pathogen-Human Interactions
  • Saliha Durmuş Tekir, Tunahan Çakır, Emre Ardıç, İlknur Karadeniz, Arzucan Özgür, F. Erdoğan Sevilgen, Kutlu Ö. Ülgen
  • Computational Methods in Systems Biology: CMSB13. Klosterneuburg / AUSTRIA (September 23-26, 2013)

2012

• Investigation of Alternative Network Inference Methods for Reverse Engineering of Metabolome Data
  • Melik Öksüz, Hasan Sadıkoğlu, Tunahan Çakır
  • 2nd Conference on Constraint-based Reconstruction and Analysis: COBRA 2012. Helsingør / DENMARK (October 7-9, 2012)
• Predicting Intracellular Flux Distributions of Microorganisms
  • Fatih Tarlak, Hasan Sadıkoğlu, Tunahan Çakır
  • 2nd Conference on Constraint-based Reconstruction and Analysis: COBRA 2012. Helsingør / DENMARK (October 7-9, 2012)
• Network Inference via Computational Analysis of Metabolome Data
  • Melik Öksüz, Hasan Sadıkoğlu, Tunahan Çakır
  • 15th European Conference on Biotechnology : ECB-15. Istanbul / TURKEY (September 23-26, 2012)
• Role of Flexibility and Minimal Enzyme Production in the Prediction of Intracellular Fluxes of Microorganisms
  • Fatih Tarlak, Hasan Sadıkoğlu, Tunahan Çakır
  • 15th European Conference on Biotechnology : ECB-15. Istanbul / TURKEY (September 23-26, 2012)
• Investigation Of The Effects Of Neurological Diseases On Human Brain Metabolism By A Computational Systems Biology Approach
  • Mustafa Sertbaş, Kutlu Ö. Ülgen, Tunahan Çakır
  • 15th European Conference on Biotechnology : ECB-15. Istanbul / TURKEY (September 23-26, 2012)
• PHISTO: Pathogen-Host Interaction Search Tool
  • Saliha Durmuş Tekir, Tunahan Çakır, Ali Sayılırbaş, Ebru Çelik, Seldağ Özcan, İrem Çevik, Arzucan Özgür, F. Erdoğan Sevilgen, Kutlu Ö. Ülgen
  • 15th European Conference on Biotechnology : ECB-15. Istanbul / TURKEY (September 23-26, 2012)
• 'A Comparison of Infection Strategies of Bacteria and Viruses
  • Saliha Durmuş Tekir, Ali Sayılırbaş, Tunahan Çakır, Kutlu Ö. Ülgen
  • 37th FEBS Congress. Sevilla / SPAIN (September 4-9, 2012)
• Computational Systems Biology based Investigation of the Effect of Neurological Diseases on Brain Metabolism
  • Mustafa Sertbaş, Kutlu Ö. Ülgen, Tunahan Çakır
  • 10th National Conference of Chemical Engineering. Istanbul / TURKEY (September 5, 2012)

2011

• PHISTO: Pathogen-Host Interaction Search Tool
  • Saliha Durmuş Tekir, Ali Sayılırbaş, Tunahan Çakır, Kutlu Ö. Ülgen
  • 12th International Conference on Systems Biology: ICSB-2011. Heidelberg-Mannheim / GERMANY (August 28-September 1, 2011)