Genetics

[An RNA Scoring Function for Tertiary Structure Prediction Based on Multi-layer Neural Networks].

A good scoring function is necessary for ab inito prediction of RNA tertiary structures. In this study, we explored the power of a machine learning based approach as a scoring function. Compared with the traditional scoring functions, the present approach is more flexible in incorporating different kinds of features; it is also free of the difficult problem of choosing the reference state. Two mul...

Quantitative Modelling of the Waddington Epigenetic Landscape.

C.H. Waddington introduced the epigenetic landscape as a metaphor to represent cellular decision-making during development. Like a population of balls rolling down a rough hillside, developing cells follow specific trajectories (valleys) and eventually come to rest in one or another low-energy state that represents a mature cell type. Waddington depicted the topography of this landscape as determi...

GIDB: a knowledge database for the automated curation and multidimensional analysis of molecular signatures in gastrointestinal cancer.

Gastrointestinal (GI) cancer is common, characterized by high mortality, and includes oesophagus, gastric, liver, bile duct, pancreas, rectal and colo...

Endometriosis Knowledgebase: a gene-based resource on endometriosis.

Endometriosis is a complex, benign, estrogen-dependent gynecological disorder with an incidence of ~10% women in reproductive age. The implantation an...

Recent Advances in Machine Learning Based Prediction of RNA-protein Interactions.

The interactions between RNAs and proteins play critical roles in many biological processes. Therefore, characterizing these interactions becomes crit...

Mammalian Annotation Database for improved annotation and functional classification of Omics datasets from less well-annotated organisms.

Next-generation sequencing technologies and the availability of an increasing number of mammalian and other genomes allow gene expression studies, par...

Identifying Cancer Targets Based on Machine Learning Methods via Chou's 5-steps Rule and General Pseudo Components.

In recent years, the successful implementation of human genome project has made people realize that genetic, environmental and lifestyle factors shoul...

Prediction of K562 Cells Functional Inhibitors Based on Machine Learning Approaches.

BACKGROUND: β thalassemia is a common monogenic genetic disease that is very harmful to human health. The disease arises is due to the deletion of or ...

Machine learning approach to literature mining for the genetics of complex diseases.

To generate a parsimonious gene set for understanding the mechanisms underlying complex diseases, we reasoned it was necessary to combine the curation...

Categorization & Recognition of Lung Tumor Using Machine Learning Representations.

BACKGROUND: Lung Cancer is the disease spreading around the world nowadays. Early recognition of lung disease is a difficult task as the cells which c...

Anti-cancer Potential of Captopril and Botulinum Toxin Type-A and Associated p53 Gene Apototic Stimulating Activity.

Mutational inactivation of p53 is a key player in the development of human cancer. Thus, retrieving the tumor suppressor activity of p53 gene is consi...

Designing an Engineered Construct Gene Sensitive to Carbohydrate In-vitro and Candidate for Human Insulin Gene Therapy In-vivo.

Diabetes is a common disorder worldwide, and exhaustive efforts have been made to cure this disease. Gene therapy has been considered as a potential c...

Thiazolidinedione Derivative Suppresses LPS-induced COX-2 Expression and NO Production in RAW 264.7 Macrophages.

The present study was designed to investigate the inhibitory effect of 2,4 bis-[(4-ethoxyphenyl)azo] 5-(3-hydroxybenzylidene) thiazolidine-2,4-dione (...

[Effects of ATP on expression of inflammatory factors in endothelial progenitor cells induced by LPS and the mechanisms].

To investigate the effects of adenosine triphosphate (ATP) on expression of inflammatory factors induced by lipopolysaccharide (LPS) in endothelial pr...

[A real-world study of paritaprevir/ritonavir-ombitasvir combined with dasabuvir in the treatment of genotype 1b chronic hepatitis C].

To recognize the efficacy and safety of paritaprevir/ritonavir-ombitasvir combined with dasabuvir (OBV/PTV/RTV+DSV) in the treatment of genotype 1b c...

SpliceRover: interpretable convolutional neural networks for improved splice site prediction.

MOTIVATION: During the last decade, improvements in high-throughput sequencing have generated a wealth of genomic data. Functionally interpreting thes...

ARIADNA: machine learning method for ancient DNA variant discovery.

Ancient DNA (aDNA) studies often rely on standard methods of mutation calling, optimized for high-quality contemporary DNA but not for excessive conta...

[The β2GPI/aβ2GPI inhibits phagocytosis of oxidized low-density lipoprotein in THP-1 macrophages via activating TLR4].

Objective To investigate the effects of β2 glycoprotein I/anti-β2 glycoprotein I antibody complex (β2GPI/aβ2GPI) on lipid phagocytosis and class B sca...

Modulation of aldosterone levels by aldosterone synthase promoter polymorphism and association with eGFR decline in patients with chronic kidney disease.

To determine whether -344T/C CYP11B2 promoter polymorphism affects serum aldosterone levels and whether this polymorphism is an indicator of eGFR decl...

Phylogenomics and Infectious Potential of Avian Avulaviruses Species-Type 1 Isolated from Healthy Green-Winged Teal () from a Wetland Sanctuary of Indus River.

Given the importance of (AAvVs) in commercial poultry, continuous monitoring and surveillance in natural reservoirs (waterfowls) is imperative. Here,...