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It is now recognized that genetic interactions (epistasis) are important sources of the hidden genetic variations and may play an important role in complex diseases. Identifying genetic interactions not only helps to explain part of the heritability of complex diseases, but also provides the clue to understand the underlying pathogenesis of complex diseases. Advances in high-throughput technologies...
Long non-coding RNAs (lncRNAs) have been implicated in various biological processes, and are linked in many dysregulations. Over the past decade, researchers reported a large number of human disease associations with the lncRNAs, both intergenic lncRNAs (lincRNAs) and non-intergenic lncRNAs. Thanks to the next generation sequencing platform, RNA-seq, through which researchers also were able to quantify...
Gene regulatory networks inference from gene expression data is an important problem in systems biology field, in which the main goal is to comprehend the global molecular mechanisms underlying diseases for the development of medical treatments and drugs. This problem involves the estimation of the gene dependencies and the regulatory functions governing these interactions to provide a model that...
Machine learning can be broadly divided into supervised and unsupervised learning (Hastie et al. in The elements of statistical learning, Springer, New York, 2009). In supervised learning which is also known as classification, a classifier learns from some objects with known class labels and later assigns class labels to unknown objects based on acquired knowledge (Kotsiantis et al. in Proceedings...
A variety of adverse outcomes, such as kidney injury, death, cardiac injury, and respiratory failure affect a significant number of patients after surgery. Previous research has investigated possible predictors for these outcomes, including features extracted from physiologic time series, change points in the time series, and prior conditions. This study builds upon this previous work by further exploring...
Molecular and soft bio-molecular biometrics are an advancing field that involves the analysis of a person’s unique biological markers at a molecular level to ascertain identity. Bacteria communities found on the skin of the human hand have shown to be highly diverse and to have a low percentage of similarity between individuals. The goal of this research effort is to see if a person’s demographics,...
One of the main problems in treating stroke patients is accurate and timely triage and assessment. Not all stroke events have direct severe consequences. Full strokes are often preceded by transient ischemic attacks (TIA) or mini strokes, which exhibit signs and symptoms similar to less concerning health events, e.g., migraines. In this paper, natural language techniques are presented to process a...
In this paper, we introduce a personalized parameterization approach, namely prep-g, to explore impact of gene expression values from breast cancer patients on tumor growth and shrinkage characteristics using xenograft models. In construction of prep-g parameterization, in addition to individual effects of the breast cancer-related gene expressions, the impact of the correlation among them and the...
Data mining using association rule is widely applied in medicine, particularly in cancer epidemiology. It is reported that this technique has certain uncertainty. To minimize the uncertainty, fuzzy logic is used with association rules. To demonstrate the efficiency of these methods further, geographical information system tool is used to spatially view results obtained from above-mentioned techniques...
Sequence similarity search and sequence alignment methods are fundamental steps in comparative genomics and have a wide spectrum of application in the field of medicine, agriculture, and environment. The dynamic programming sequence alignment methods produce optimal alignments but are impractical for a similarity search due to their large running time. Heuristic methods like BLAST run much faster...
Approximately, 21,000 breaths per day and 10.5 million breaths per year are taken by average people. Breathing functions depend on the actions of the respiratory muscles on the chest wall. This study analyzes the motions of the humans’ chest compartments with a portable, low-cost and convenient monitoring system to be used in e-health applications. Two wearable MEMS sensors are used to capture the...
Proteins have crucial importance in every living system, and Protein–Protein Interactions (PPIs) play a pivotal role in regulation of virtually all biological processes such as DNA transcription, replication, metabolic cycles and signaling cascades. The PPIs play an important role in the complex process of cell death which mainly occurs via apoptosis and necrosis in eukaryotic cells. Apoptosis is...
Collaborative environments in recent years, such as bioinformatics and health care, have seen an increasing interest in Web services communities. The new concept was proposed and widely accepted as a distributed paradigm over the Internet, and has been used widely even in collaborative fixture design and manufacture. Indeed, the community infrastructure contributes to improving the availability of...
This paper proposes a new approach of automatic medical image annotation since a social network whose users are student doctors in radiology in order to obtain report rapids on medical images. Indeed, the present study suggests a social network of collaboration where students or doctors can share their knowledge. Moreover, the annotations are used in order to extract the relevant keywords as well...
Availability and rapid growth of microarray databases have made an integrated analysis of these databases computationally challenging. We present a novel approach to content-based searching in microarray databases, using binary vector representations, that is inspired from the Chemoinformatics field. A benchmark compendium of microarray datasets is established for evaluation of content-based searching...
This paper studies the group method of data handling (GMDH) polynomial neural network and radial basis function neural network (RBF) for classification of oral cancer. The oral cancer dataset of 1025 patients is divided into two subgroups: training data and test data, to verify the network’s ability to diagnose new cases. Classification accuracy of the GMDH model for training data is 70.24 % and that...
Wilms’ tumor, or nephroblastoma, is a cancer of the kidneys that typically occurs in children and rarely in adults. Around 10 % of Wilms’ tumor patients are diagnosed having a concurrent syndrome that enhances the risk of Wilms’ tumor. A screening method for early detection of Wilms’ tumor in these patients would be beneficial, since the size or stage of a tumor is related to outcome. In this paper,...
Selection of important genes responsible for a disease is an important task in bioinformatics. Microarray data are often used with differential expression being considered as a cue. Recently, such expression data are supplemented by gene ontology and genes/proteins interaction network for the selection task. The functional knowledge and interaction structure have become critical for understanding...
A QSAR study has been performed on a series of Phenylpyrazinones derivatives with potent corticotropin-releasing factor-1 (CRF1) receptor antagonists. Structural features responsible for the activity of the compounds were characterized by using physicochemical, topological, and electrotopological descriptors, calculated from the Molecular Design Suite software. The statistically significant 2D-QSAR...
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