Genetics

A Machine Learning Based Approach to de novo Sequencing of Glycans from Tandem Mass Spectrometry Spectrum.

Recently, glycomics has been actively studied and various technologies for glycomics have been rapidly developed. Currently, tandem mass spectrometry (MS/MS) is one of the key experimental tools for identification of structures of oligosaccharides. MS/MS can observe MS/MS peaks of fragmented glycan ions including cross-ring ions resulting from internal cleavages, which provide valuable information...

A Machine Learning Approach for Accurate Annotation of Noncoding RNAs.

Searching genomes to locate noncoding RNA genes with known secondary structure is an important problem in bioinformatics. In general, the secondary structure of a searched noncoding RNA is defined with a structure model constructed from the structural alignment of a set of sequences from its family. Computing the optimal alignment between a sequence and a structure model is the core part of an alg...

Identification of hepatocellular carcinoma-related genes with a machine learning and network analysis.

Liver cancer is one of the leading causes of cancer mortality worldwide. Hepatocellular carcinoma (HCC) is the main type of liver cancer. We applied a...

Epistasis analysis using artificial intelligence.

Here we introduce artificial intelligence (AI) methodology for detecting and characterizing epistasis in genetic association studies. The ultimate goa...

Robotic gait training improves motor skills and quality of life in hereditary spastic paraplegia.

BACKGROUND: Gait impairment, balance problems and falls have a negative impact on independence in ADL and quality of life of patients affected by Here...

Machine learning from concept to clinic: reliable detection of BRAF V600E DNA mutations in thyroid nodules using high-dimensional RNA expression data.

The promise of personalized medicine will require rigorously validated molecular diagnostics developed on minimally invasive, clinically relevant samp...

An integrated machine-learning model to predict prokaryotic essential genes.

Essential genes are indispensable for the target organism's survival. Large-scale identification and characterization of essential genes has shown to ...

Application of artificial neural networks to link genetic and environmental factors to DNA methylation in colorectal cancer.

AIMS: We applied artificial neural networks (ANNs) to understand the connections among polymorphisms of genes involved in folate metabolism, clinico-p...

A Review of Computational Intelligence Methods for Eukaryotic Promoter Prediction.

In past decades, prediction of genes in DNA sequences has attracted the attention of many researchers but due to its complex structure it is extremely...

QSAR Analysis of Some Antagonists for p38 map kinase Using Combination of Principal Component Analysis and Artificial Intelligence.

Quantitative relationships between structures of a set of p38 map kinase inhibitors and their activities were investigated by principal component regr...

A Process for the Representation of openEHR ADL Archetypes in OWL Ontologies.

ADL is a formal language to express archetypes, independent of standards or domain. However, its specification is not precise enough in relation to th...

Named entity recognition and classification in biomedical text using classifier ensemble.

Named Entity Recognition and Classification (NERC) is an important task in information extraction for biomedicine domain. Biomedical Named Entities in...

A genetic filter for cancer classification on gene expression data.

We present a new genetic filter to identify a predictive gene subset for cancer-type classification on gene expression profiles. This approach pursues...

Employing social network analysis for disease biomarker detection.

Detection of disease biomarkers in general and cancer biomarkers in particular is an important task which has received considerable attention in the a...

Automatic extraction of reference gene from literature in plants based on texting mining.

Real-Time Quantitative Polymerase Chain Reaction (qRT-PCR) is widely used in biological research. It is a key to the availability of qRT-PCR experimen...

Discovery of phenotypic networks from genotypic association studies with application to obesity.

Genome-wide Association Studies (GWAS) have resulted in many discovered risk variants for several obesity-related traits. However, before clinical rel...

Robust automatic breast cancer staging using a combination of functional genomics and image-omics.

Breast cancer is one of the leading cancers worldwide. Precision medicine is a new trend that systematically examines molecular and functional genomic...

Mutation analysis of 6 spinocerebellar ataxia (SCA) types in patients from southern Turkey.

BACKGROUND/AIM: Spinocerebellar ataxias (SCAs) are complex clinical and genetically heterogeneous, mostly autosomal dominant neurodegenerative disease...

Etiology and pathology of epidemic outbreaks of avian influenza H5N1 infection in Egyptian chicken farms.

Epidemic outbreaks of avian influenza (AI) virus H5N1 have been frequently reported in Egypt during the last nine years. Here we investigate the invol...

[HIGH FREQUENCY OF CYP2C19 ULTRARAPID METABOLIZERS IN RUSSIAN PATIENTS WITH PEPTIC ULCER].

INTRODUCTION: The main enzyme responsible for metabolism of proton pump inhibitors (PPI) is cytochrome P-4502C19 (CYP2C19). Among all CYP2C19 polymorp...