PETALS: Proteomic Evaluation and Topological Analysis of a mutated Locus' Signaling. - Gürkan Bebek; Vishal N. Patel; Mark R. Chance (BMC Bioinform., 2010)

An Integrative -omics Approach to Identify Functional Sub-Networks in Human Colorectal Cancer. - Rod K. Nibbe; Mehmet Koyutürk; Mark R. Chance (PLoS Comput. Biol., 2010)

Session Introduction. - Gürkan Bebek; Mehmet Koyutürk; Mark R. Chance; Nathan D. Price 001 (Pacific Symposium on Biocomputing, 2011)

Systems Biology Analyses of Gene Expression and Genome Wide Association Study Data in Obstructive Sleep Apnea. - Yu Liu 093; Sanjay R. Patel; Rod K. Nibbe; Sean Maxwell; Salim A. Chowdhury; Mehmet Koyutürk; Xiaofeng Zhu 003; Emma Larkin; Sarah Buxbaum; Naresh Punjabi; Sina Gharib; Susan Redline; et al. (Pacific Symposium on Biocomputing, 2011)

BiC: a web server for calculating bimodality of coexpression between gene and protein networks. - George C. Linderman; Vishal N. Patel; Mark R. Chance; Gürkan Bebek (Bioinform., 2011)

Subnetwork State Functions Define Dysregulated Subnetworks in Cancer. - Salim A. Chowdhury; Rod K. Nibbe; Mark R. Chance; Mehmet Koyutürk (J. Comput. Biol., 2011)

Frontiers of Oncology: Biobanking Resources for the 21st Century. - Jill S. Barnholtz-Sloan; Mark R. Chance (J. Clin. Bioinform., 2011)

Algorithms for detecting complementary SNPs within a region of interest that are associated with diseases. - Sinan Erten; Marzieh Ayati; Yu Liu 093; Mark R. Chance; Mehmet Koyutürk (BCB, 2012)

Network biology methods integrating biological data for translational science. - Gürkan Bebek; Mehmet Koyutürk; Nathan D. Price 001; Mark R. Chance (Briefings Bioinform., 2012)

Pairwise protein expression classifier for candidate biomarker discovery for early detection of human disease prognosis. - Parminder Kaur 003; Daniela Schlatzer; Kenneth Cooke; Mark R. Chance (BMC Bioinform., 2012)

Gene interaction enrichment and network analysis to identify dysregulated pathways and their interactions in complex diseases. - Yu Liu 093; Mehmet Koyutürk; Jill S. Barnholtz-Sloan; Mark R. Chance (BMC Syst. Biol., 2012)

Gene, pathway and network frameworks to identify epistatic interactions of single nucleotide polymorphisms derived from GWAS data. - Yu Liu 093; Sean Maxwell; Tao Feng; Xiaofeng Zhu 003; Robert C. Elston; Mehmet Koyutürk; Mark R. Chance (BMC Syst. Biol., 2012)

Splitting random forest (SRF) for determining compact sets of genes that distinguish between cancer subtypes. - Xiaowei Guan; Mark R. Chance; Jill S. Barnholtz-Sloan (J. Clin. Bioinform., 2012)

MAGNET: MicroArray Gene expression and Network Evaluation Toolkit. - George C. Linderman; Mark R. Chance; Gürkan Bebek (Nucleic Acids Res., 2012)

Session introduction. - Gürkan Bebek; Mehmet Koyutürk; Thomas LaFramboise; Benjamin J. Raphael; Mark R. Chance (Pacific Symposium on Biocomputing, 2013)

Network Signatures of Survival in Glioblastoma Multiforme. - Vishal N. Patel; Giridharan Gokulrangan; Salim A. Chowdhury; Yanwen Chen; Andrew E. Sloan; Mehmet Koyutürk; Jill S. Barnholtz-Sloan; Mark R. Chance (PLoS Comput. Biol., 2013)

Efficiently Enumerating All Connected Induced Subgraphs of a Large Molecular Network. - Sean Maxwell; Mark R. Chance; Mehmet Koyutürk (AlCoB, 2014)

Drug Intervention Response Predictions with Paradigm (DIRPP) Identifies Drug Resistant Cancer Cell Lines and Pathway Mechanisms of Resistance. - Douglas Brubaker; Analisa Difeo; Yanwen Chen; Taylor Pearl; Kaide Zhai; Gürkan Bebek; Mark R. Chance; Jill S. Barnholtz-Sloan (Pacific Symposium on Biocomputing, 2014)

MOBAS: identification of disease-associated protein subnetworks using modularity-based scoring. - Marzieh Ayati; Sinan Erten; Mark R. Chance; Mehmet Koyutürk (EURASIP J. Bioinform. Syst. Biol., 2015)

MoBaS on Phosphorylation Data. - Marzieh Ayati; Danica Wiredja; Daniela Schlatzer; Goutham Narla; Mark R. Chance; Mehmet Koyutürk (BCB, 2016)

A dynamical systems model of progesterone receptor interactions with inflammation in human parturition. - Douglas Brubaker; Alethea Barbaro; Mark R. Chance; Sam Mesiano (BMC Syst. Biol., 2016)

Linearity of network proximity measures: implications for set-based queries and significance testing. - Sean Maxwell; Mark R. Chance; Mehmet Koyutürk (Bioinform., 2017)

The KSEA App: a web-based tool for kinase activity inference from quantitative phosphoproteomics. - Danica Wiredja; Mehmet Koyutürk; Mark R. Chance (Bioinform., 2017)

CoPhosK: A method for comprehensive kinase substrate annotation using co-phosphorylation analysis. - Marzieh Ayati; Danica Wiredja; Daniela Schlatzer; Sean Maxwell; Ming Li 022; Mehmet Koyutürk; Mark R. Chance (PLoS Comput. Biol., 2019)

Co-phosphorylation networks reveal subtype-specific signaling modules in breast cancer. - Marzieh Ayati; Mark R. Chance; Mehmet Koyutürk (Bioinform., 2021)

Functional characterization of co-phosphorylation networks. - Marzieh Ayati; Serhan Yilmaz; Mark R. Chance; Mehmet Koyutürk (Bioinform., 2022)