Selected original research articles from the Fifth International Workshop on Computational Network Biology: Modeling, Analysis and Control (CNB-MAC 2018): bioinformatics

Selected research articles from the 2018 International Workshop on Computational Network Biology: Modeling, Analysis, and Control (CNB-MAC)

Authors: Byung-Jun Yoon, Xiaoning Qian, Tamer Kahveci and Ranadip Pal

Recursive model for dose-time responses in pharmacological studies

Clinical studies often track dose-response curves of subjects over time. One can easily model the dose-response curve at each time point with Hill equation, but such a model fails to capture the temporal evolu...

Authors: Saugato Rahman Dhruba, Aminur Rahman, Raziur Rahman, Souparno Ghosh and Ranadip Pal

Optimal clustering with missing values

Missing values frequently arise in modern biomedical studies due to various reasons, including missing tests or complex profiling technologies for different omics measurements. Missing values can complicate th...

Authors: Shahin Boluki, Siamak Zamani Dadaneh, Xiaoning Qian and Edward R. Dougherty

MetaNN: accurate classification of host phenotypes from metagenomic data using neural networks

Microbiome profiles in the human body and environment niches have become publicly available due to recent advances in high-throughput sequencing technologies. Indeed, recent studies have already identified dif...

Authors: Chieh Lo and Radu Marculescu

Network-based prediction of polygenic disease genes involved in cell motility

Schizophrenia and autism are examples of polygenic diseases caused by a multitude of genetic variants, many of which are still poorly understood. Recently, both diseases have been associated with disrupted neu...

Authors: Miriam Bern, Alexander King, Derek A. Applewhite and Anna Ritz

Cross-population analysis for functional characterization of type II diabetes variants

As Genome-Wide Association Studies (GWAS) have been increasingly used with data from various populations, it has been observed that data from different populations reveal different sets of Single Nucleotide Po...

Authors: Dalia Elmansy and Mehmet Koyutürk

Analysis and remedy of negativity problem in hybrid stochastic simulation algorithm and its application

The hybrid stochastic simulation algorithm, proposed by Haseltine and Rawlings (HR), is a combination of differential equations for traditional deterministic models and Gillespie’s algorithm (SSA) for stochast...

Authors: Minghan Chen and Yang Cao

A linear delay algorithm for enumerating all connected induced subgraphs

Real biological and social data is increasingly being represented as graphs. Pattern-mining-based graph learning and analysis techniques report meaningful biological subnetworks that elucidate important intera...

Authors: Mohammed Alokshiya, Saeed Salem and Fidaa Abed

Characterizing building blocks of resource constrained biological networks

Identification of motifs–recurrent and statistically significant patterns–in biological networks is the key to understand the design principles, and to infer governing mechanisms of biological systems. This, h...

Authors: Yuanfang Ren, Ahmet Ay, Alin Dobra and Tamer Kahveci

A stochastic model of size control in the budding yeast cell cycle

Cell size is a key characteristic that significantly affects many aspects of cellular physiology. There are specific control mechanisms during cell cycle that maintain the cell size within a range from generat...

Authors: Mansooreh Ahmadian, John J. Tyson and Yang Cao