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2020 – today
- 2022
[j19]Marzieh Ayati
, Serhan Yilmaz, Mark R. Chance, Mehmet Koyutürk:
Functional characterization of co-phosphorylation networks. Bioinform. 38(15): 3785-3793 (2022)- 2021
- [j18]Marzieh Ayati, Mark R. Chance, Mehmet Koyutürk:
Co-phosphorylation networks reveal subtype-specific signaling modules in breast cancer. Bioinform. 37(2): 221-228 (2021)
2010 – 2019
- 2019
- [j17]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) - [c9]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: 550 - 2017
- [j16]Sean Maxwell, Mark R. Chance, Mehmet Koyutürk:
Linearity of network proximity measures: implications for set-based queries and significance testing. Bioinform. 33(9): 1354-1361 (2017) - [j15]Danica Wiredja, Mehmet Koyutürk, Mark R. Chance:
The KSEA App: a web-based tool for kinase activity inference from quantitative phosphoproteomics. Bioinform. 33(21): 3489-3491 (2017) - 2016
- [j14]Douglas Brubaker, Alethea Barbaro, Mark R. Chance, Sam Mesiano:
A dynamical systems model of progesterone receptor interactions with inflammation in human parturition. BMC Syst. Biol. 10: 79 (2016) - [c8]Marzieh Ayati, Danica Wiredja, Daniela Schlatzer, Goutham Narla, Mark R. Chance, Mehmet Koyutürk:
MoBaS on Phosphorylation Data. BCB 2016: 521 - 2015
- [j13]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: 7 (2015) - 2014
- [c7]Sean Maxwell, Mark R. Chance, Mehmet Koyutürk:
Efficiently Enumerating All Connected Induced Subgraphs of a Large Molecular Network. AlCoB 2014: 171-182 - [c6]Douglas Brubaker, Analisa Difeo, Yanwen Chen, Taylor Pearl, Kaide Zhai, Gürkan Bebek, Mark R. Chance, Jill S. Barnholtz-Sloan:
Drug Intervention Response Predictions with Paradigm (DIRPP) Identifies Drug Resistant Cancer Cell Lines and Pathway Mechanisms of Resistance. Pacific Symposium on Biocomputing 2014: 125-135 - 2013
- [j12]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) - [c5]Gürkan Bebek, Mehmet Koyutürk, Thomas LaFramboise, Benjamin J. Raphael, Mark R. Chance:
Session introduction. Pacific Symposium on Biocomputing 2013: 307-309 - 2012
- [j11]Gürkan Bebek, Mehmet Koyutürk, Nathan D. Price, Mark R. Chance:
Network biology methods integrating biological data for translational science. Briefings Bioinform. 13(4): 446-459 (2012) - [j10]Parminder Kaur, Daniela Schlatzer, Kenneth Cooke, Mark R. Chance:
Pairwise protein expression classifier for candidate biomarker discovery for early detection of human disease prognosis. BMC Bioinform. 13: 191 (2012) - [j9]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: 65 (2012) - [j8]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): S15 (2012) - [j7]Xiaowei Guan, Mark R. Chance, Jill S. Barnholtz-Sloan:
Splitting random forest (SRF) for determining compact sets of genes that distinguish between cancer subtypes. J. Clin. Bioinform. 2: 13 (2012) - [j6]George C. Linderman, Mark R. Chance, Gürkan Bebek:
MAGNET: MicroArray Gene expression and Network Evaluation Toolkit. Nucleic Acids Res. 40(Web-Server-Issue): 152-156 (2012) - [c4]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: 194-201 - 2011
- [j5]George C. Linderman, Vishal N. Patel, Mark R. Chance, Gürkan Bebek:
BiC: a web server for calculating bimodality of coexpression between gene and protein networks. Bioinform. 27(8): 1174-1175 (2011) - [j4]Salim A. Chowdhury, Rod K. Nibbe, Mark R. Chance, Mehmet Koyutürk:
Subnetwork State Functions Define Dysregulated Subnetworks in Cancer. J. Comput. Biol. 18(3): 263-281 (2011) - [j3]Jill S. Barnholtz-Sloan, Mark R. Chance:
Frontiers of Oncology: Biobanking Resources for the 21st Century. J. Clin. Bioinform. 1: 13 (2011) - [c3]Gürkan Bebek, Mehmet Koyutürk, Mark R. Chance, Nathan D. Price:
Session Introduction. Pacific Symposium on Biocomputing 2011: 1-3 - [c2]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: 14-25 - 2010
- [j2]Gürkan Bebek, Vishal N. Patel, Mark R. Chance:
PETALS: Proteomic Evaluation and Topological Analysis of a mutated Locus' Signaling. BMC Bioinform. 11: 596 (2010) - [j1]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) - [c1]Salim A. Chowdhury, Rod K. Nibbe, Mark R. Chance, Mehmet Koyutürk:
Subnetwork State Functions Define Dysregulated Subnetworks in Cancer. RECOMB 2010: 80-95
Coauthor Index
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