IEEE/ACM Transactions on Computational Biology and Bioinformatics

Genome Rearrangements are large-scale mutational events that affect genomes during the evolutionary process. Therefore, these mutations differ from punctual mutations. They can move genes from one place to the other, change the orientation of some genes,...

The endoplasmic reticulum ER is an intricate network that pervades the entire cortex of plant cells and its geometric shape undergoes drastic changes. This paper proposes a mathematical model to reconstruct geometric network dynamics by combining the ...

Neglected tropical diseases, especially those caused by helminths, constitute some of the most common infections of the world's poorest people. Amongst these, schistosomiasis bilharzia or ‘snail fever’, caused by blood flukes of the genus Schistosoma, ...

New de novo transcriptome assembly and annotation methods provide an incredible opportunity to study the transcriptome of organisms that lack an assembled and annotated genome. There are currently a number of de novo transcriptome assembly methods, but ...

Fusarium verticillioides is a fungal pathogen that triggers stalk rots and ear rots in maize. In this study, we performed a comparative analysis of wild type and loss-of-virulence mutant F. verticillioides co-expression networks to identify subnetwork ...

We propose a methodology for model-based fault detection and diagnosis for stochastic Boolean dynamical systems indirectly observed through a single time series of transcriptomic measurements using Next Generation Sequencing NGS data. The fault ...

N6-Methyladenosine m6A transcriptome methylation is an exciting new research area that just captures the attention of research community. We present in this paper, MeTDiff, a novel computational tool for predicting differential m6A methylation sites ...

Ultra-high dimensional variable selection has become increasingly important in analysis of neuroimaging data. For example, in the Autism Brain Imaging Data Exchange ABIDE study, neuroscientists are interested in identifying important biomarkers for ...

Determining gender by examining the human brain is not a simple task because the spatial structure of the human brain is complex, and no obvious differences can be seen by the naked eyes. In this paper, we propose a novel three-dimensional feature ...

In systems neuroscience, it is becoming increasingly common to record the activity of hundreds of neurons simultaneously via electrode arrays. The ability to accurately measure the causal interactions among multiple neurons in the brain is crucial to ...

Parkinson's disease PD is a progressive neurodegenerative disorder characterized clinically by motor dysfunction bradykinesia, rigidity, tremor, and postural instability, and pathologically by the loss of dopaminergic neurons in the substantia nigra of ...

Recent studies have suggested abnormal brain network organization in subjects with Autism Spectrum Disorders ASD. Here we applied spectral clustering algorithm, diverse centrality measures betweenness BC, clustering CC, eigenvector EC, and degree DC, ...

Identification of combinatorial markers from multiple data sources is a challenging task in bioinformatics. Here, we propose a novel computational framework for identifying significant combinatorial markers $SCM$s using both gene expression and ...