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Mehmet Koyuturk, Ph.D. - Publications

Affiliations: 
2006 Purdue University, West Lafayette, IN, United States 
Area:
Bioinformatics Biology
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44 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 Ayati M, Chance MR, Koyuturk M. Co-Phosphorylation Networks Reveal Subtype-Specific Signaling Modules in Breast Cancer. Bioinformatics (Oxford, England). PMID 32730576 DOI: 10.1093/Bioinformatics/Btaa678  0.332
2020 Cowman T, Coşkun M, Grama A, Koyutürk M. Integrated querying and version control of context-specific biological networks. Database : the Journal of Biological Databases and Curation. 2020. PMID 32294194 DOI: 10.1093/Database/Baaa018  0.459
2019 Stanfield Z, Johnson MR, Blanks AM, Romero R, Chance MR, Mesiano S, Koyutürk M. Myometrial Transcriptional Signatures of Human Parturition. Frontiers in Genetics. 10: 185. PMID 30988671 DOI: 10.3389/Fgene.2019.00185  0.383
2019 Savel D, Koyutürk M. Characterizing human genomic coevolution in locus-gene regulatory interactions. Biodata Mining. 12: 8. PMID 30923571 DOI: 10.1186/S13040-019-0195-Y  0.322
2019 Ayati M, Wiredja D, Schlatzer D, Maxwell S, Li M, Koyutürk M, Chance MR. CoPhosK: A method for comprehensive kinase substrate annotation using co-phosphorylation analysis. Plos Computational Biology. 15: e1006678. PMID 30811403 DOI: 10.1371/Journal.Pcbi.1006678  0.32
2017 Cowman T, Koyutürk M. Prioritizing tests of epistasis through hierarchical representation of genomic redundancies. Nucleic Acids Research. PMID 28605458 DOI: 10.1093/Nar/Gkx505  0.378
2017 Maxwell S, Chance MR, Koyutürk M. Linearity of network proximity measures: implications for set-based queries and significance testing. Bioinformatics (Oxford, England). 33: 1354-1361. PMID 28453667 DOI: 10.1093/Bioinformatics/Btw733  0.434
2017 Stanfield Z, Coşkun M, Koyutürk M. Drug Response Prediction as a Link Prediction Problem. Scientific Reports. 7: 40321. PMID 28067293 DOI: 10.1038/Srep40321  0.36
2016 Qiao S, Koyuturk M, Ozsoyoglu MZ. Querying of Disparate Association and Interaction Data in Biomedical Applications. Ieee/Acm Transactions On Computational Biology and Bioinformatics. PMID 27959818 DOI: 10.1109/Tcbb.2016.2637344  0.399
2016 Ayati M, Koyutürk M. PoCos: Population Covering Locus Sets for Risk Assessment in Complex Diseases. Plos Computational Biology. 12: e1005195. PMID 27835645 DOI: 10.1371/Journal.Pcbi.1005195  0.357
2016 Ni J, Koyuturk M, Tong H, Haines J, Xu R, Zhang X. Disease gene prioritization by integrating tissue-specific molecular networks using a robust multi-network model. Bmc Bioinformatics. 17: 453. PMID 27829360 DOI: 10.1186/S12859-016-1317-X  0.409
2015 Ayati M, Erten S, Chance MR, Koyutürk M. MOBAS: identification of disease-associated protein subnetworks using modularity-based scoring. Eurasip Journal On Bioinformatics & Systems Biology. 2015: 7. PMID 28194175 DOI: 10.1186/S13637-015-0025-6  0.38
2015 Ruffalo M, Koyutürk M, Sharan R. Network-Based Integration of Disparate Omic Data To Identify "Silent Players" in Cancer. Plos Computational Biology. 11: e1004595. PMID 26683094 DOI: 10.1371/Journal.Pcbi.1004595  0.415
2014 Hou D, Koyutürk M. Comprehensive evaluation of composite gene features in cancer outcome prediction. Cancer Informatics. 13: 93-104. PMID 25780335 DOI: 10.4137/Cin.S14028  0.322
2014 Yava? G, Koyutürk M, Gould MP, McMahon S, LaFramboise T. DB2: a probabilistic approach for accurate detection of tandem duplication breakpoints using paired-end reads. Bmc Genomics. 15: 175. PMID 24597945 DOI: 10.1186/1471-2164-15-175  0.338
2013 Ayati M, Erten S, Koyuturk M. What do we learn from network-based analysis of GWAS data? F1000research. 4. DOI: 10.7490/F1000Research.1093448.1  0.356
2013 Kahveci T, Salem S, Koyuturk M. Guest editorial for special section on BIOKDD Ieee/Acm Transactions On Computational Biology and Bioinformatics. 10: 1199-1200. DOI: 10.1109/Tcbb.2013.184  0.331
2012 Liu Y, Maxwell S, Feng T, Zhu X, Elston RC, Koyutürk M, Chance MR. Gene, pathway and network frameworks to identify epistatic interactions of single nucleotide polymorphisms derived from GWAS data. Bmc Systems Biology. 6: S15. PMID 23281810 DOI: 10.1186/1752-0509-6-S3-S15  0.394
2012 Erten S, Chowdhury SA, Guan X, Nibbe RK, Barnholtz-Sloan JS, Chance MR, Koyutürk M. Identifying stage-specific protein subnetworks for colorectal cancer. Bmc Proceedings. 6: S1. PMID 23173715 DOI: 10.1186/1753-6561-6-S7-S1  0.444
2012 Saha S, Roman T, Galante A, Koyutürk M, Ewing RM. Network-based approaches for extending the Wnt signalling pathway and identifying context-specific sub-networks. International Journal of Computational Biology and Drug Design. 5: 185-205. PMID 23013649 DOI: 10.1504/Ijcbdd.2012.049203  0.365
2012 Liu Y, Koyutürk M, Barnholtz-Sloan JS, Chance MR. Gene interaction enrichment and network analysis to identify dysregulated pathways and their interactions in complex diseases. Bmc Systems Biology. 6: 65. PMID 22694839 DOI: 10.1186/1752-0509-6-65  0.343
2012 Bebek G, Koyutürk M, Price ND, Chance MR. Network biology methods integrating biological data for translational science. Briefings in Bioinformatics. 13: 446-59. PMID 22390873 DOI: 10.1093/Bib/Bbr075  0.451
2012 Patel V, Gokulrangan G, Chowdhury S, Chen Y, Sloan A, Koyuturk M, Barnholtz-Sloan J, Chance M. Abstract 4936: Network signatures of survival in glioblastoma multiforme Cancer Research. 72: 4936-4936. DOI: 10.1158/1538-7445.Am2012-4936  0.414
2012 Koyuturk M. Using Protein Interaction Networks to Understand Complex Diseases Ieee Computer. 45: 31-38. DOI: 10.1109/Mc.2012.40  0.372
2011 Erten S, Bebek G, Koyutürk M. Vavien: an algorithm for prioritizing candidate disease genes based on topological similarity of proteins in interaction networks. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 18: 1561-74. PMID 22035267 DOI: 10.1089/Cmb.2011.0154  0.424
2011 Ruffalo M, LaFramboise T, Koyutürk M. Comparative analysis of algorithms for next-generation sequencing read alignment. Bioinformatics (Oxford, England). 27: 2790-6. PMID 21856737 DOI: 10.1093/Bioinformatics/Btr477  0.349
2011 Erten S, Bebek G, Ewing RM, Koyutürk M. DADA: Degree-Aware Algorithms for Network-Based Disease Gene Prioritization. Biodata Mining. 4: 19. PMID 21699738 DOI: 10.1186/1756-0381-4-19  0.448
2010 Koyutürk M. Algorithmic and analytical methods in network biology. Wiley Interdisciplinary Reviews. Systems Biology and Medicine. 2: 277-92. PMID 20836029 DOI: 10.1002/Wsbm.61  0.452
2010 Nibbe RK, Koyutürk M, Chance MR. An integrative -omics approach to identify functional sub-networks in human colorectal cancer. Plos Computational Biology. 6: e1000639. PMID 20090827 DOI: 10.1371/Journal.Pcbi.1000639  0.432
2009 Yavas G, Koyutürk M, Ozsoyoğlu M, Gould MP, LaFramboise T. An optimization framework for unsupervised identification of rare copy number variation from SNP array data. Genome Biology. 10: R119. PMID 19849861 DOI: 10.1186/Gb-2009-10-10-R119  0.338
2009 Erten S, Li X, Bebek G, Li J, Koyutürk M. Phylogenetic analysis of modularity in protein interaction networks. Bmc Bioinformatics. 10: 333. PMID 19828041 DOI: 10.1186/1471-2105-10-333  0.417
2009 Carbunar B, Ramanathan MK, Koyutürk M, Jagannathan S, Grama A. Efficient tag detection in RFID systems Journal of Parallel and Distributed Computing. 69: 180-196. DOI: 10.1016/J.Jpdc.2008.06.013  0.352
2008 Ferreira RA, Koyutürk M, Jagannathan S, Grama A. Semantic indexing in structured peer-to-peer networks Journal of Parallel and Distributed Computing. 68: 64-77. DOI: 10.1016/J.Jpdc.2007.06.003  0.423
2007 Koyutürk M, Szpankowski W, Grama A. Assessing significance of connectivity and conservation in protein interaction networks. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 14: 747-64. PMID 17691892 DOI: 10.1089/Cmb.2007.R014  0.625
2006 Koyutürk M, Kim Y, Subramaniam S, Szpankowski W, Grama A. Detecting conserved interaction patterns in biological networks. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 13: 1299-322. PMID 17037960 DOI: 10.1089/Cmb.2006.13.1299  0.628
2006 Koyutürk M, Kim Y, Topkara U, Subramaniam S, Szpankowski W, Grama A. Pairwise alignment of protein interaction networks. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 13: 182-99. PMID 16597234 DOI: 10.1089/Cmb.2006.13.182  0.634
2006 Kim Y, Koyutürk M, Topkara U, Grama A, Subramaniam S. Inferring functional information from domain co-evolution. Bioinformatics (Oxford, England). 22: 40-9. PMID 16301205 DOI: 10.1093/Bioinformatics/Bti723  0.302
2006 Koyutürk M, Grama A, Ramakrishnan N. Nonorthogonal decomposition of binary matrices for bounded-error data compression and analysis Acm Transactions On Mathematical Software (Toms). 32: 33-69. DOI: 10.1145/1132973.1132976  0.353
2006 Chi J, Koyuturk M, Grama A. Conquest: A coarse-grained algorithm for constructing summaries of distributed discrete datasets Algorithmica (New York). 45: 377-401. DOI: 10.1007/S00453-006-1218-X  0.359
2005 Koyuturk M, Grama A, Ramakrishnan N. Compression, clustering, and pattern discovery in very high-dimensional discrete-attribute data sets Ieee Transactions On Knowledge and Data Engineering. 17: 447-461. DOI: 10.1109/Tkde.2005.55  0.371
2005 Koyutürk M, Aykanat C. Iterative-improvement-based declustering heuristics for multi-disk databases Information Systems. 30: 47-70. DOI: 10.1016/J.Is.2003.08.003  0.358
2005 Koyutürk M, Grama A, Szpankowski W. Pairwise local alignment of protein interaction networks guided by models of evolution Lecture Notes in Bioinformatics (Subseries of Lecture Notes in Computer Science). 3500: 48-65.  0.605
2004 Koyutürk M, Grama A, Szpankowski W. An efficient algorithm for detecting frequent subgraphs in biological networks. Bioinformatics (Oxford, England). 20: i200-7. PMID 15262800 DOI: 10.1093/bioinformatics/bth919  0.585
2003 Koyutürk M, Grama A, Szpankowski W. Algorithms for bounded-error correlation of high dimensional data in microarray experiments Proceedings of the 2003 Ieee Bioinformatics Conference, Csb 2003. 575-580. DOI: 10.1109/CSB.2003.1227412  0.529
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