Exact Computation of Probability Landscape of Stochastic Networks of Single Input and Coupled Toggle Switch Modules

Terebus, Anna ;   Cao, Youfang ;   Liang, Jie

Tags Modeling of gene/epigene regulatory networksModeling of biomolecular system dynamicsModeling of biomolecular system pathways

Gene regulatory networks depict the interactions between genes, proteins, and other components of the cell. These interactions often are...

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Investigation of Factors Affecting RNA-Seq Gene Expression Calls

Harati, Sahar ;   Phan, John H. ;   Wang, May D.

Tags Data mining in biosignalsBiomedical signal classificationPattern recognition methods for data mining in biosignals

RNA-seq enables quantification of the human transcriptome. Estimation of gene expression is a fundamental issue in the analysis of RNA-seq...

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Modeling Order-Disorder Transition in Low-Density Lipoprotein

Antonijevic, Todor ;   Lancaster, Jarrett ;   Starobin, Joseph

Tags Modeling of gene/epigene regulatory networksModeling of biomolecular system pathwaysModeling of biomolecular system dynamics

Low Density Lipoproteins (LDL) undergo a reversible order-disorder thermal transition close to biological temperature due to cooperative...

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Models for Predicting Stage in Head and Neck Squamous Cell Carcinoma Using Proteomic Data

Kaddi, Chanchala D. ;   Wang, May D.

Tags Analysis of high-throughput systems biology dataAlgorithms and computational tools for proteomicsBiomedical data-driven modeling

Head and neck squamous cell carcinoma (HNSCC) that is detected at an advanced stage is associated with much worse patient outcomes than if...

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State Machine Modeling of MAPK Signaling Pathways

Derbal, Youcef

Tags Modeling of biomolecular system pathwaysModeling of biomolecular system dynamicsAlgorithms and techniques for systems modeling

Mitogen activated protein kinase (MAPK) signaling pathways are frequently deregulated in human cancers with potential involvement in most if...

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The Effects of Cell Asynchrony on Time-Series Data: An Analysis on Gene Expression Level of Plasmodium Falciparum

Zhao, Wei ;   Dauwels, Justin ;   Cao, Jianshu

Tags Algorithms and computational tools for proteomicsAnalysis of high-throughput systems biology dataBiomedical data-driven modeling

To investigate the intraerythrocytic cycle of Plasmodium falciparum, time-series gene expression data are measured of infected red blood...

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