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BAYSAN LAB

Publications

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2024

VCF observer: a user-friendly software tool for preliminary VCF file analysis and comparison
VCF observer: a user-friendly software tool for preliminary VCF file analysis and comparison
Abdullah Asım Emül, Mehmet Arif Ergün, Rumeysa Aslıhan Ertürk, Ömer Çinal, Mehmet Baysan
BMC Bioinformatics
COSAP: Comparative Sequencing Analysis Platform
COSAP: Comparative Sequencing Analysis Platform
Mehmet Arif Ergun, Omer Cinal, Berkant Bakışlı, Abdullah Asım Emül, Mehmet Baysan
BMC Bioinformatics
Improving somatic exome sequencing performance by biological replicates
Improving somatic exome sequencing performance by biological replicates
Yunus Emre Cebeci, Rumeysa Aslihan Erturk, Mehmet Arif Ergun, Mehmet Baysan
BMC Bioinformatcs

2022

Abstract A029: Investigating primary colorectal cancer tumor and liver metastasis clonality through whole exome sequencing of synchronous biopsies
Abstract A029: Investigating primary colorectal cancer tumor and liver metastasis clonality through whole exome sequencing of synchronous biopsies
Duygu Altinok Dindar, Batuhan Kısakol, Sahin Sarihan, Mehmet Arif Ergun, John Cheney, Emel Ergul, Nihal Uren, Ender Dulundu, Emine Bozkurtlar, Nihat Zafer Utkan, Mehmet Baysan
Cancer Research
Predicting the predisposition to colorectal cancer based on SNP profiles of immune phenotypes using supervised learning models
Predicting the predisposition to colorectal cancer based on SNP profiles of immune phenotypes using supervised learning models
Ali Cakmak, Huzeyfe Ayaz, Soykan Arıkan, Ali R. Ibrahimzada, Şeyda Demirkol, Dilara Sönmez, Mehmet T. Hakan, Saime T. Sürmen, Cem Horozoğlu, Mehmet B. Doğan, Özlem Küçükhüseyin, Canan Cacına, Bayram Kıran, Ümit Zeybek, Mehmet Baysan, İlhan Yaylım
Medical & Biological Engineering & Computing
DATA SCIENCE, CANCER AND SEQUENCING ANALYSES
DATA SCIENCE, CANCER AND SEQUENCING ANALYSES
Mehmet Baysan
Sağlık Bilimlerinde İleri Araştırmalar Dergisi / Journal of Advanced Research in Health Sciences
Modulation of YAP1 expression and other related signaling pathways in HepG2 cells by extracellular matrix, contact inhibition and cell density
Modulation of YAP1 expression and other related signaling pathways in HepG2 cells by extracellular matrix, contact inhibition and cell density
Ranan Aktas, Zeynep Akbulut, Hatice Maraş, Yaprak Çakıl Dönmez, Damla Kayalı, Ayca Karagoz Koroglu, Mustafa Erinc Sitar, Batuhan Kısakol, Mehmet Baysan
American Association for the Study of Liver Diseases

2021

Detailed evaluation of cancer sequencing pipelines in different microenvironments and heterogeneity levels
Detailed evaluation of cancer sequencing pipelines in different microenvironments and heterogeneity levels
Batuhan KISAKOL, Şahin SARIHAN, Mehmet Arif ERGÜN, Mehmet BAYSAN
TURKISH JOURNAL OF BIOLOGY

2018

Homojen Glioblastoma Örneklerinin Yüksek Çözünürlüklü Genetik Teknolojiler ile Analizi
Homojen Glioblastoma Örneklerinin Yüksek Çözünürlüklü Genetik Teknolojiler ile Analizi
Mehmet Baysan
Academic Platform Journal of Engineering and Science

2017

Detailed longitudinal sampling of glioma stem cells <i>in situ</i> reveals Chr7 gain and Chr10 loss as repeated events in primary tumor formation and recurrence
Detailed longitudinal sampling of glioma stem cells in situ reveals Chr7 gain and Chr10 loss as repeated events in primary tumor formation and recurrence
Mehmet Baysan, Kevin Woolard, Margaret C. Cam, Wei Zhang, Hua Song, Svetlana Kotliarova, Demosthenes Balamatsias, Amanda Linkous, Susie Ahn, Jennifer Walling, Galina I. Belova, Howard A. Fine
International Journal of Cancer

2016

Gene expression profiles of autophagy-related genes in multiple sclerosis
Gene expression profiles of autophagy-related genes in multiple sclerosis
Mehri Igci, Mehmet Baysan, Remzi Yigiter, Mustafa Ulasli, Sirma Geyik, Recep Bayraktar, İbrahim Bozgeyik, Esra Bozgeyik, Ali Bayram, Ecir Ali Cakmak
Gene

2014

SC-04 * NON-UNIFORM NOTCH SIGNALING UNDERLIES HETEROGENEITY WITHIN THE GLIOBLASTOMA STEM CELL POPULATION
SC-04 * NON-UNIFORM NOTCH SIGNALING UNDERLIES HETEROGENEITY WITHIN THE GLIOBLASTOMA STEM CELL POPULATION
N. Sumru Bayin, S. Si, A. Modrek, H.-R. Song, D. Zagzag, D. M. Hoang, Y. Z. Wadghiri, I. Dolgalev, M. Baysan, A. Heguy, M. H. Barcellos-Hoff, D. Placantonakis
Neuro-Oncology
Micro-Environment Causes Reversible Changes in DNA Methylation and mRNA Expression Profiles in Patient-Derived Glioma Stem Cells
Micro-Environment Causes Reversible Changes in DNA Methylation and mRNA Expression Profiles in Patient-Derived Glioma Stem Cells
Mehmet Baysan, Kevin Woolard, Serdar Bozdag, Gregory Riddick, Svetlana Kotliarova, Margaret C. Cam, Galina I. Belova, Susie Ahn, Wei Zhang, Hua Song, Jennifer Walling, Holly Stevenson, Paul Meltzer, Howard A. Fine
PLoS ONE
Correction to “Master Regulators, Regulatory Networks, and Pathways of Glioblastoma Subtypes”
Correction to “Master Regulators, Regulatory Networks, and Pathways of Glioblastoma Subtypes”
Serdar Bozdag, Aiguo Li, Mehmet Baysan, Howard A. Fine
Cancer Informatics

2013

Approximation algorithm for the on-line multi-customer two-level supply chain scheduling problem
Approximation algorithm for the on-line multi-customer two-level supply chain scheduling problem
Igor Averbakh, Mehmet Baysan
Operations Research Letters
Age-Specific Signatures of Glioblastoma at the Genomic, Genetic, and Epigenetic Levels
Age-Specific Signatures of Glioblastoma at the Genomic, Genetic, and Epigenetic Levels
Serdar Bozdag, Aiguo Li, Gregory Riddick, Yuri Kotliarov, Mehmet Baysan, Fabio M. Iwamoto, Margaret C. Cam, Svetlana Kotliarova, Howard A. Fine
PLoS ONE
Batching and delivery in semi-online distribution systems
Batching and delivery in semi-online distribution systems
Igor Averbakh, Mehmet Baysan
Discrete Applied Mathematics

2012

Histone Demethylase Jumonji D3 (JMJD3) as a Tumor Suppressor by Regulating p53 Protein Nuclear Stabilization
Histone Demethylase Jumonji D3 (JMJD3) as a Tumor Suppressor by Regulating p53 Protein Nuclear Stabilization
Chibawanye I. Ene, Lincoln Edwards, Gregory Riddick, Mehmet Baysan, Kevin Woolard, Svetlana Kotliarova, Chen Lai, Galina Belova, Maggie Cam, Jennifer Walling, Ming Zhou, Holly Stevenson, Hong Sug Kim, Keith Killian, Timothy Veenstra, Rolanda Bailey, Hua Song, Wei Zhang, Howard A. Fine
PLoS ONE
G-Cimp Status Prediction Of Glioblastoma Samples Using mRNA Expression Data
G-Cimp Status Prediction Of Glioblastoma Samples Using mRNA Expression Data
Mehmet Baysan, Serdar Bozdag, Margaret C. Cam, Svetlana Kotliarova, Susie Ahn, Jennifer Walling, Jonathan K. Killian, Holly Stevenson, Paul Meltzer, Howard A. Fine
PLoS ONE
Polynomial time solution to minimum forwarding set problem in wireless networks under disk coverage model
Polynomial time solution to minimum forwarding set problem in wireless networks under disk coverage model
Mehmet Baysan, Kamil Sarac, R. Chandrasekaran
Ad Hoc Networks

2011

Semi-online two-level supply chain scheduling problems
Semi-online two-level supply chain scheduling problems
Igor Averbakh, Mehmet Baysan
Journal of Scheduling
On a labeling problem in graphs
On a labeling problem in graphs
R. Chandrasekaran, M. Dawande, M. Baysan
Discrete Applied Mathematics

2009

A Polynomial Time Solution to Minimum Forwarding Set Problem in Wireless Networks under Unit Disk Coverage Model
A Polynomial Time Solution to Minimum Forwarding Set Problem in Wireless Networks under Unit Disk Coverage Model
M. Baysan, K. Sarac, R. Chandrasekaran, S. Bereg
IEEE Transactions on Parallel and Distributed Systems

2008

Variable power broadcast using local information in ad hoc networks
Variable power broadcast using local information in ad hoc networks
Avinash Chiganmi, Mehmet Baysan, Kamil Sarac, Ravi Prakash
Ad Hoc Networks

2006

Cluster Based Approaches for End-to-End Complete Feedback Collection in Multicast
Cluster Based Approaches for End-to-End Complete Feedback Collection in Multicast
M. Baysan, K. Sarac
2006 IEEE International Performance Computing and Communications Conference

2004

Improving energy savings in power adaptive broadcasting in MANETs
Improving energy savings in power adaptive broadcasting in MANETs
M. Baysan, S. Gowdamachandran, K. Sarac
First International Conference on Broadband Networks