Genetics

Evaluation of a human adenovirus viral load assay using the Altona RealStar® PCR test.

This study evaluated the performance of the Altona Diagnostics RealStar® Adenovirus Research Use Only (RUO) real-time PCR reagents for HAdV quantitation in plasma samples from immunodeficient patients. The assay was linear from 2.30-9.17 log copies/mL (coefficient of determination; R=0.998) with limits of detection and quantification of 2.19 log and 2.30 log copies/mL (>95% positivity rate), respe...

Evaluation of fingerprinting techniques to assess genotype variation among Zygosaccharomyces strains.

Molecular typing techniques are key tools in surveillance of food spoilage yeasts, in investigations on intra-species population diversity, and in tracing selected starters during fermentation. Unlike previous works on strain typing of Zygosaccharomyces spoilage species, here Zygosaccharomyces mellis and the Zygosaccharoymces rouxii complex yeasts, which include Z. rouxii, Zygosaccharomyces sapae,...

Decontaminating eukaryotic genome assemblies with machine learning.

BACKGROUND: High-throughput sequencing has made it theoretically possible to obtain high-quality de novo assembled genome sequences but in practice DN...

Exploring the Impact of Food on the Gut Ecosystem Based on the Combination of Machine Learning and Network Visualization.

Prebiotics and probiotics strongly impact the gut ecosystem by changing the composition and/or metabolism of the microbiota to improve the health of t...

Sonochemical-solvothermal synthesis of guanine embedded copper based metal-organic framework (MOF) and its effect on oprD gene expression in clinical and standard strains of Pseudomonas aeruginosa.

The guanine incropped Cu based metal-organic framework (Guanine-Cu-MOF) was synthesized by facile one-step sonochemical method by simply mixing of 4-4...

isGPT: An optimized model to identify sub-Golgi protein types using SVM and Random Forest based feature selection.

The Golgi Apparatus (GA) is a key organelle for protein synthesis within the eukaryotic cell. The main task of GA is to modify and sort proteins for t...

Effects of Interleukin-1 and -6 on the Expression of Ion Transporters Involved in Eggshell Mineralization in Cultured Hen Uterine Mucosal Tissue.

This study determined the effects of pro-inflammatory cytokines (interleukin (IL)-1 and IL-6) on the expression of eggshell mineralization-related ion...

Systematic assessment of cervical cancer initiation and progression uncovers genetic panels for deep learning-based early diagnosis and proposes novel diagnostic and prognostic biomarkers.

Although many outstanding achievements in the management of cervical cancer (CxCa) have obtained, it still imposes a major burden which has prompted s...

Commercial glucometer as signal transducer for simple evaluation of DNA methyltransferase activity and inhibitors screening.

DNA methyltransferase (MTase) plays an important role in many biological processes and has been recognized as a predictive cancer biomarker far before...

Genomic risk prediction of aromatase inhibitor-related arthralgia in patients with breast cancer using a novel machine-learning algorithm.

Many breast cancer (BC) patients treated with aromatase inhibitors (AIs) develop aromatase inhibitor-related arthralgia (AIA). Candidate gene studies ...

effects of endosulfan-based insecticides on mammalian sperm.

Endosulfan is an organochloride insecticide extensively used in several countries to protect crops from pests. As several studies indicate that endosu...

Integrating DNA structure switch with branched hairpins for the detection of uracil-DNA glycosylase activity and inhibitor screening.

The detection of uracil-DNA glycosylase (UDG) activity is pivotal for its biochemical studies and the development of drugs for UDG-related diseases. H...

Self-primer and self-template recycle rolling circle amplification strategy for sensitive detection of uracil-DNA glycosylase activity.

Sensitive and accurate detection of uracil-DNA glycosylase (UDG) activity is available for evaluating and validating their function in uracil base-exc...

B-factor profile prediction for RNA flexibility using support vector machines.

Determining the flexibility of structured biomolecules is important for understanding their biological functions. One quantitative measurement of flex...

An outbreak of classical swine fever in pigs in Bangladesh, 2015.

In a group of 22 healthy pigs aged between 4 and 6 months, 2 pigs became ill with high fever, complete anorexia, cough and abnormal swaying movements ...

A deep auto-encoder model for gene expression prediction.

BACKGROUND: Gene expression is a key intermediate level that genotypes lead to a particular trait. Gene expression is affected by various factors incl...

Cell cycle time series gene expression data encoded as cyclic attractors in Hopfield systems.

Modern time series gene expression and other omics data sets have enabled unprecedented resolution of the dynamics of cellular processes such as cell ...

ATP-binding cassette transporter A1: A promising therapy target for prostate cancer.

ATP-binding cassette transporter A1 (ABCA1) has been found to mediate the transfer of cellular cholesterol across the plasma membrane to apolipoprotei...

PSCA rs1045531 Polymorphism and the Risk of Prostate Cancer in a Chinese Population Undergoing Prostate Biopsy.

BACKGROUND AND PURPOSE: This study explored the association between a single-nucleotide polymorphism of prostate stem cell antigen and prostate cancer...

ClusterTAD: an unsupervised machine learning approach to detecting topologically associated domains of chromosomes from Hi-C data.

BACKGROUND: With the development of chromosomal conformation capturing techniques, particularly, the Hi-C technique, the study of the spatial conforma...