Mehmet Koyutürk

Publication Activity (10 Years)

Years Active: 2002-2023
Publications (10 Years): 37

Top Topics

Multiple Versions

Biological Networks

Link Prediction

Canonical Representation

Top Venues

PLoS Comput. Biol.

Publications

Mengzhen Li, Mehmet Koyutürk
Generalized Gromov Wasserstein Distance for Seed-Informed Network Alignment. COMPLEX NETWORKS (3) (2023)
Mengzhen Li, Mustafa Coskun, Mehmet Koyutürk
Canonical Representation of Biological Networks Using Graph Convolution. BCB (2023)
Phan Trinh Ha, Rhea D'silva, Ethan Chen, Mehmet Koyutürk, Gunnur Karakurt
Identification of intimate partner violence from free text descriptions in social media. J. Comput. Soc. Sci. 5 (2) (2022)
Serhan Yilmaz, Mohamad Fakhouri, Mehmet Koyutürk, A. Ercüment Çiçek, Oznur Tastan
Uncovering complementary sets of variants for predicting quantitative phenotypes. Bioinform. 38 (4) (2022)
Mengzhen Li, Mustafa Coskun, Mehmet Koyutürk
Consensus embedding for multiple networks: Computation and applications. Netw. Sci. 10 (2) (2022)
Marzieh Ayati, Serhan Yilmaz, Mark R. Chance, Mehmet Koyutürk
Functional characterization of co-phosphorylation networks. Bioinform. 38 (15) (2022)
Sean Maxwell, Mehmet Koyutürk
Random Walks with Variable Restarts for Negative-Example-Informed Label Propagation. CoRR (2021)
Ahmad Maroof Karimi, Yinghui Wu, Mehmet Koyutürk, Roger H. French
Spatiotemporal Graph Neural Network for Performance Prediction of Photovoltaic Power Systems. AAAI (2021)
Mustafa Coskun, Abdelkader Baggag, Mehmet Koyutürk
Fast computation of Katz index for efficient processing of link prediction queries. Data Min. Knowl. Discov. 35 (4) (2021)
Ahmet Mert Hacialiefendioglu, Serhan Yilmaz, Mehmet Koyutürk, Gunnur Karakurt
Co-occurrence Patterns of Intimate Partner Violence. PSB (2021)
Mustafa Coskun, Mehmet Koyutürk
Node similarity-based graph convolution for link prediction in biological networks. Bioinform. 37 (23) (2021)
Marzieh Ayati, Mark R. Chance, Mehmet Koyutürk
Co-phosphorylation networks reveal subtype-specific signaling modules in breast cancer. Bioinform. 37 (2) (2021)
Mengzhen Li, Mehmet Koyutürk
Consensus Embeddings for Networks with Multiple Versions. COMPLEX NETWORKS (2) (2020)
Iman Deznabi, Busra Arabaci, Mehmet Koyutürk, Oznur Tastan
DeepKinZero: zero-shot learning for predicting kinase-phosphosite associations involving understudied kinases. Bioinform. 36 (12) (2020)
Serhan Yilmaz, Bushra Alghamdi, Srinidhi Singuri, Ahmet Mert Hacialiefendioglu, Tülin Özcan, Mehmet Koyutürk, Gunnur Karakurt
Identifying health correlates of intimate partner violence against pregnant women. Health Inf. Sci. Syst. 8 (1) (2020)
Tyler Cowman, Mustafa Coskun, Ananth Grama, Mehmet Koyutürk
Integrated querying and version control of context-specific biological networks. Database J. Biol. Databases Curation 2020 (2020)
Daniel M. Savel, Mehmet Koyutürk
Characterizing human genomic coevolution in locus-gene regulatory interactions. BioData Min. 12 (1) (2019)
Dalia Elmansy, Mehmet Koyutürk
Cross-population analysis for functional characterization of type II diabetes variants. BMC Bioinform. (12) (2019)
Mustafa Coskun, Burcu Bakir-Gungor, Mehmet Koyutürk
Expanding Label Sets for Graph Convolutional Networks. CoRR (2019)
Marzieh Ayati, Danica Wiredja, Daniela Schlatzer, Sean Maxwell, Ming Li, Mehmet Koyutürk, Mark R. Chance
CoPhosK: A method for comprehensive kinase substrate annotation using co-phosphorylation analysis. PLoS Comput. Biol. 15 (2) (2019)
Marzieh Ayati, Danica Wiredja, Daniela Schlatzer, Sean Maxwell, Ming Li, Mehmet Koyutürk, Mark R. Chance
CoPhosK: A Method for Comprehensive Kinase Substrate Annotation using Co-phosphorylation Analysis. BCB (2019)
Mustafa Coskun, Abdelkader Baggag, Mehmet Koyutürk
Fast Computation of Katz Index for Efficient Processing of Link Prediction Queries. CoRR (2019)
Shi Qiao, Mehmet Koyutürk, Z. Meral Özsoyoglu
Querying of Disparate Association and Interaction Data in Biomedical Applications. IEEE ACM Trans. Comput. Biol. Bioinform. 15 (4) (2018)
Mustafa Coskun, Ananth Grama, Mehmet Koyutürk
Indexed Fast Network Proximity Querying. Proc. VLDB Endow. 11 (8) (2018)
Dalia Elmansy, Mehmet Koyutürk
Cross-Population Analysis for Functional Characterization of Type II Diabetes Variants. BCB (2018)
Kamil Topal, Mehmet Koyutürk, Gultekin Özsoyoglu
Effects of emotion and topic area on topic shifts in social media discussions. Soc. Netw. Anal. Min. 7 (1) (2017)
Danica Wiredja, Mehmet Koyutürk, Mark R. Chance
The KSEA App: a web-based tool for kinase activity inference from quantitative phosphoproteomics. Bioinform. 33 (21) (2017)
M. Khalid Khan Niazi, Keluo Yao, Debra L. Zynger, Steven K. Clinton, James Chen, Mehmet Koyutürk, Thomas LaFramboise, Metin N. Gurcan
Visually Meaningful Histopathological Features for Automatic Grading of Prostate Cancer. IEEE J. Biomed. Health Informatics 21 (4) (2017)
Sean Maxwell, Mark R. Chance, Mehmet Koyutürk
Linearity of network proximity measures: implications for set-based queries and significance testing. Bioinform. 33 (9) (2017)
Kathleen Whiting, Larry Y. Liu, Mehmet Koyutürk, Gunnur Karakurt
Network Map of Adverse Health Effects Among Victims of Intimate Partner Violence. PSB (2017)
Zachary Stanfield, Mustafa Coskun, Mehmet Koyutürk
Drug Response Prediction as a Link Prediction Problem. BCB (2017)
Daniel M. Savel, Thomas LaFramboise, Ananth Grama, Mehmet Koyutürk
Pluribus - Exploring the Limits of Error Correction Using a Suffix Tree. IEEE ACM Trans. Comput. Biol. Bioinform. 14 (6) (2017)
Kamil Topal, Mehmet Koyutürk, Gultekin Özsoyoglu
Emotion -and area-driven topic shift analysis in social media discussions. ASONAM (2016)
Mustafa Coskun, Ananth Grama, Mehmet Koyutürk
Efficient Processing of Network Proximity Queries via Chebyshev Acceleration. KDD (2016)
Marzieh Ayati, Danica Wiredja, Daniela Schlatzer, Goutham Narla, Mark R. Chance, Mehmet Koyutürk
MoBaS on Phosphorylation Data. BCB (2016)
Marzieh Ayati, Mehmet Koyutürk
PoCos: Population Covering Locus Sets for Risk Assessment in Complex Diseases. PLoS Comput. Biol. 12 (11) (2016)
Jingchao Ni, Mehmet Koyutürk, Hanghang Tong, Jonathan L. Haines, Rong Xu, Xiang Zhang
Disease gene prioritization by integrating tissue-specific molecular networks using a robust multi-network model. BMC Bioinform. 17 (2016)
Mustafa Coskun, Mehmet Koyutürk
Link Prediction in Large Networks by Comparing the Global View of Nodes in the Network. ICDM Workshops (2015)
Shi Qiao, Mehmet Koyutürk, Z. Meral Özsoyoglu
Integrated querying of disparate association and interaction data in biomedical applications. BCB (2015)
Matthew Ruffalo, Mehmet Koyutürk, Roded Sharan
Network-Based Integration of Disparate Omic Data To Identify "Silent Players" in Cancer. PLoS Comput. Biol. 11 (12) (2015)
Marzieh Ayati, Sinan Erten, Mark R. Chance, Mehmet Koyutürk
MOBAS: identification of disease-associated protein subnetworks using modularity-based scoring. EURASIP J. Bioinform. Syst. Biol. 2015 (2015)
Marzieh Ayati, Mehmet Koyutürk
Assessing the collective disease association of multiple genomic loci. BCB (2015)
Matthew Ruffalo, Holleh Husseinzadeh, Hideki Makishima, Bartlomiej Przychodzen, Mohamed Ashkar, Mehmet Koyutürk, Jaroslaw P. Maciejewski, Thomas LaFramboise
Whole-exome sequencing enhances prognostic classification of myeloid malignancies. J. Biomed. Informatics 58 (2015)
Sean Maxwell, Mark R. Chance, Mehmet Koyutürk
Efficiently Enumerating All Connected Induced Subgraphs of a Large Molecular Network. AlCoB (2014)
Marzieh Ayati, Sinan Erten, Mehmet Koyutürk
What Do We Learn from Network-Based Analysis of Genome-Wide Association Data? EvoApplications (2014)
Marzieh Ayati, Mehmet Koyutürk
Prioritization of genomic locus pairs for testing epistasis. BCB (2014)
Vishal N. Patel, Giridharan Gokulrangan, Salim A. Chowdhury, Yanwen Chen, Andrew E. Sloan, Mehmet Koyutürk, Jill S. Barnholtz-Sloan, Mark R. Chance
Network Signatures of Survival in Glioblastoma Multiforme. PLoS Comput. Biol. 9 (9) (2013)
Gürkan Bebek, Mehmet Koyutürk, Thomas LaFramboise, Benjamin J. Raphael, Mark R. Chance
Session introduction. Pacific Symposium on Biocomputing (2013)
Daniel M. Savel, Thomas LaFramboise, Ananth Grama, Mehmet Koyutürk
Suffix-Tree Based Error Correction of NGS Reads Using Multiple Manifestations of an Error. BCB (2013)
Gürkan Bebek, Mehmet Koyutürk, Nathan D. Price, Mark R. Chance
Network biology methods integrating biological data for translational science. Briefings Bioinform. 13 (4) (2012)
Yu Liu, Sean Maxwell, Tao Feng, Xiaofeng Zhu, Robert C. Elston, Mehmet Koyutürk, Mark R. Chance
Gene, pathway and network frameworks to identify epistatic interactions of single nucleotide polymorphisms derived from GWAS data. BMC Syst. Biol. 6 (S-3) (2012)
Sinan Erten, Marzieh Ayati, Yu Liu, Mark R. Chance, Mehmet Koyutürk
Algorithms for detecting complementary SNPs within a region of interest that are associated with diseases. BCB (2012)
Mehmet Koyutürk
Using Protein Interaction Networks to Understand Complex Diseases. Computer 45 (3) (2012)
Matthew Ruffalo, Mehmet Koyutürk, Soumya Ray, Thomas LaFramboise
Accurate estimation of short read mapping quality for next-generation genome sequencing. Bioinform. 28 (18) (2012)
Sudipto Saha, Theodore Roman, Alex Galante, Mehmet Koyutürk, Rob M. Ewing
Network-based approaches for extending the Wnt signalling pathway and identifying context-specific sub-networks. Int. J. Comput. Biol. Drug Des. 5 (3/4) (2012)
Yu Liu, Mehmet Koyutürk, Jill S. Barnholtz-Sloan, Mark R. Chance
Gene interaction enrichment and network analysis to identify dysregulated pathways and their interactions in complex diseases. BMC Syst. Biol. 6 (2012)
Sinan Erten, Gürkan Bebek, Mehmet Koyutürk
Disease Gene Prioritization Based on Topological Similarity in Protein-Protein Interaction Networks. RECOMB (2011)
Salim A. Chowdhury, Rod K. Nibbe, Mark R. Chance, Mehmet Koyutürk
Subnetwork State Functions Define Dysregulated Subnetworks in Cancer. J. Comput. Biol. 18 (3) (2011)
Sinan Erten, Gürkan Bebek, Rob M. Ewing, Mehmet Koyutürk
DADA: Degree-Aware Algorithms for Network-Based Disease Gene Prioritization. BioData Min. 4 (2011)
Matthew Ruffalo, Thomas LaFramboise, Mehmet Koyutürk
Comparative analysis of algorithms for next-generation sequencing read alignment. Bioinform. 27 (20) (2011)
Gürkan Bebek, Mehmet Koyutürk, Mark R. Chance, Nathan D. Price
Session Introduction. Pacific Symposium on Biocomputing (2011)
Yu Liu, Sanjay R. Patel, Rod K. Nibbe, Sean Maxwell, Salim A. Chowdhury, Mehmet Koyutürk, Xiaofeng Zhu, Emma Larkin, Sarah Buxbaum, Naresh Punjabi, Sina Gharib, Susan Redline, Mark R. Chance
Systems Biology Analyses of Gene Expression and Genome Wide Association Study Data in Obstructive Sleep Apnea. Pacific Symposium on Biocomputing (2011)
Sinan Erten, Gürkan Bebek, Mehmet Koyutürk
Vavien: An Algorithm for Prioritizing Candidate Disease Genes Based on Topological Similarity of Proteins in Interaction Networks. J. Comput. Biol. 18 (11) (2011)
Gökhan Yavas, Mehmet Koyutürk, Z. Meral Özsoyoglu, Meetha P. Gould, Thomas LaFramboise
COKGEN: A Software for the Identification of Rare Copy Number Variation from SNP Microarrays. Pacific Symposium on Biocomputing (2010)
Salim A. Chowdhury, Mehmet Koyutürk
Identification of Coordinately Dysregulated Subnetworks in Complex Phenotypes. Pacific Symposium on Biocomputing (2010)
Gökhan Yavas, Mehmet Koyutürk, Thomas LaFramboise
Optimization Algorithms for Identification and Genotyping of Copy Number Polymorphisms in Human Populations. PRIB (2010)
Rod K. Nibbe, Mehmet Koyutürk, Mark R. Chance
An Integrative -omics Approach to Identify Functional Sub-Networks in Human Colorectal Cancer. PLoS Comput. Biol. 6 (1) (2010)
Salim A. Chowdhury, Rod K. Nibbe, Mark R. Chance, Mehmet Koyutürk
Subnetwork State Functions Define Dysregulated Subnetworks in Cancer. RECOMB (2010)
Murat Manguoglu, Mehmet Koyutürk, Ahmed H. Sameh, Ananth Grama
Weighted Matrix Ordering and Parallel Banded Preconditioners for Iterative Linear System Solvers. SIAM J. Sci. Comput. 32 (3) (2010)
Sinan Erten, Mehmet Koyutürk
Role of Centrality in Network-Based Prioritization of Disease Genes. EvoBIO (2010)
Jayesh Pandey, Mehmet Koyutürk, Ananth Grama
Functional characterization and topological modularity of molecular interaction networks. BMC Bioinform. 11 (S-1) (2010)
Sinan Erten, Xin Li, Gürkan Bebek, Jing Li, Mehmet Koyutürk
Phylogenetic analysis of modularity in protein interaction networks. BMC Bioinform. 10 (2009)
Bogdan Carbunar, Murali Krishna Ramanathan, Mehmet Koyutürk, Suresh Jagannathan, Ananth Grama
Efficient tag detection in RFID systems. J. Parallel Distributed Comput. 69 (2) (2009)
Ronaldo A. Ferreira, Mehmet Koyutürk, Suresh Jagannathan, Ananth Grama
Semantic indexing in structured peer-to-peer networks. J. Parallel Distributed Comput. 68 (1) (2008)
Jayesh Pandey, Mehmet Koyutürk, Shankar Subramaniam, Ananth Grama
Functional coherence in domain interaction networks. ECCB (2008)
Murali Krishna Ramanathan, Mehmet Koyutürk, Ananth Grama, Suresh Jagannathan
PHALANX: a graph-theoretic framework for test case prioritization. SAC (2008)
Jayesh Pandey, Mehmet Koyutürk, Wojciech Szpankowski, Ananth Grama
Annotating Pathways of Interaction Networks. Pacific Symposium on Biocomputing (2008)
Jayesh Pandey, Mehmet Koyutürk, Yohan Kim, Wojciech Szpankowski, Shankar Subramaniam, Ananth Grama
Functional annotation of regulatory pathways. ISMB/ECCB (Supplement of Bioinformatics) (2007)
Mehmet Koyutürk, Wojciech Szpankowski, Ananth Grama
Assessing Significance of Connectivity and Conservation in Protein Interaction Networks. J. Comput. Biol. 14 (6) (2007)
Mehmet Koyutürk, Ananth Grama, Wojciech Szpankowski
Assessing Significance of Connectivity and Conservation in Protein Interaction Networks. RECOMB (2006)
Mehmet Koyutürk, Ananth Grama, Naren Ramakrishnan
Nonorthogonal decomposition of binary matrices for bounded-error data compression and analysis. ACM Trans. Math. Softw. 32 (1) (2006)
Mehmet Koyutürk, Yohan Kim, Shankar Subramaniam, Wojciech Szpankowski, Ananth Grama
Detecting Conserved Interaction Patterns in Biological Networks. J. Comput. Biol. 13 (7) (2006)
Mehmet Koyutürk, Yohan Kim, Umut Topkara, Shankar Subramaniam, Wojciech Szpankowski, Ananth Grama
Pairwise Alignment of Protein Interaction Networks. J. Comput. Biol. 13 (2) (2006)
Yohan Kim, Mehmet Koyutürk, Umut Topkara, Ananth Grama, Shankar Subramaniam
Inferring functional information from domain co-evolution. Bioinform. 22 (1) (2006)
Jie Chi, Mehmet Koyutürk, Ananth Grama
CONQUEST: A Coarse-Grained Algorithm for Constructing Summaries of Distributed Discrete Datasets. Algorithmica 45 (3) (2006)
Mehmet Koyutürk, Ananth Grama, Wojciech Szpankowski
Pairwise Local Alignment of Protein Interaction Networks Guided by Models of Evolution. RECOMB (2005)
Mehmet Koyutürk, Ananth Grama, Naren Ramakrishnan
Compression, Clustering, and Pattern Discovery in Very High-Dimensional Discrete-Attribute Data Sets. IEEE Trans. Knowl. Data Eng. 17 (4) (2005)
Mehmet Koyutürk, Cevdet Aykanat
Iterative-improvement-based declustering heuristics for multi-disk databases. Inf. Syst. 30 (1) (2005)
Bogdan Carbunar, Murali Krishna Ramanathan, Mehmet Koyutürk, Christoph Hoffmann, Ananth Grama
Redundant reader elimination in RFID systems. SECON (2005)
Jie Chi, Mehmet Koyutürk, Ananth Grama
Conquest: A Distributed Tool for Constructing Summaries of High-Dimensional Discrete Attribute Data Sets. SDM (2004)
Mehmet Koyutürk, Wojciech Szpankowski, Ananth Grama
Biclustering Gene-Feature Matrices for Statistically Significant Dense Patterns. CSB (2004)
Mehmet Koyutürk, Ananth Grama, Wojciech Szpankowski
An efficient algorithm for detecting frequent subgraphs in biological networks. ISMB/ECCB (Supplement of Bioinformatics) (2004)
Mehmet Koyutürk, Ananth Grama
PROXIMUS: a framework for analyzing very high dimensional discrete-attributed datasets. KDD (2003)
Mehmet Koyutürk, Ananth Grama, Wojciech Szpankowski
Algorithms for Bounded-Error Correlation of High Dimensional Data in Microarray Experiments. CSB (2003)
Mehmet Koyutürk, Ananth Grama, Naren Ramakrishnan
Algebraic Techniques for Analysis of Large Discrete-Valued Datasets. PKDD (2002)