Genetics

Using transfer learning from prior reference knowledge to improve the clustering of single-cell RNA-Seq data.

In many research areas scientists are interested in clustering objects within small datasets while making use of prior knowledge from large reference datasets. We propose a method to apply the machine learning concept of transfer learning to unsupervised clustering problems and show its effectiveness in the field of single-cell RNA sequencing (scRNA-Seq). The goal of scRNA-Seq experiments is often...

Epigenetics Analysis and Integrated Analysis of Multiomics Data, Including Epigenetic Data, Using Artificial Intelligence in the Era of Precision Medicine.

To clarify the mechanisms of diseases, such as cancer, studies analyzing genetic mutations have been actively conducted for a long time, and a large number of achievements have already been reported. Indeed, genomic medicine is considered the core discipline of precision medicine, and currently, the clinical application of cutting-edge genomic medicine aimed at improving the prevention, diagnosis ...

iProDNA-CapsNet: identifying protein-DNA binding residues using capsule neural networks.

BACKGROUND: Since protein-DNA interactions are highly essential to diverse biological events, accurately positioning the location of the DNA-binding r...

Presence of pyrroloquinazoline alkaloid in attenuates inflammatory response through the downregulation of pro-inflammatory mediators in LPS stimulated RAW 264.7 macrophages.

Inflammation is the primary response caused due to harmful stimuli which are followed by the increased draining of plasma and immune cells from the b...

Predicting RNA secondary structure via adaptive deep recurrent neural networks with energy-based filter.

BACKGROUND: RNA secondary structure prediction is an important issue in structural bioinformatics, and RNA pseudoknotted secondary structure predictio...

JCDB: a comprehensive knowledge base for Jatropha curcas, an emerging model for woody energy plants.

BACKGROUND: Jatropha curcas is an oil-bearing plant, and has seeds with high oil content (~ 40%). Several advantages, such as easy genetic transformat...

iEnhancer-ECNN: identifying enhancers and their strength using ensembles of convolutional neural networks.

BACKGROUND: Enhancers are non-coding DNA fragments which are crucial in gene regulation (e.g. transcription and translation). Having high locational v...

Towards Improving Skin Cancer Diagnosis by Integrating Microarray and RNA-Seq Datasets.

Many clinical studies have revealed the high biological similarities existing among different skin pathological states. These similarities create diff...

A tri-functional probe mediated exponential amplification strategy for highly sensitive detection of Dnmt1 and UDG activities at single-cell level.

Multiplex DNA methylation and glycosylation are ubiquitous in the human body to ensure the normal function and stability of the genome. The methyltran...

High-Throughput Prediction of MHC Class I and II Neoantigens with MHCnuggets.

Computational prediction of binding between neoantigen peptides and major histocompatibility complex (MHC) proteins can be used to predict patient res...

Super-Soft and Super-Elastic DNA Robot with Magnetically Driven Navigational Locomotion for Cell Delivery in Confined Space.

Soft organisms such as earthworms can access confined, narrow spaces, inspiring scientists to fabricate soft robots for in vivo manipulation of cells ...

Protective effect of bacterial lipase on lipopolysaccharide-induced toxicity in rat cardiomyocytes; H9C2 cell line.

Cardiovascular system is highly sensitive to LPS-induced oxidative damage. This study aimed to show the inhibitory effect of bacterial Lipase on LPS-...

Adipocyte Fatty Acid-Binding Protein 4 is Altered in Growth Discordant Dichorionic, but not in Monochorionic Twins.

CONTEXT: The fetal period has a critical and long-lasting impact on the regulation of metabolic processes and a life-long predisposition for obesity a...

Single-cell ATAC-Seq in human pancreatic islets and deep learning upscaling of rare cells reveals cell-specific type 2 diabetes regulatory signatures.

OBJECTIVE: Type 2 diabetes (T2D) is a complex disease characterized by pancreatic islet dysfunction, insulin resistance, and disruption of blood gluco...

Machine learning algorithms, bull genetic information, and imbalanced datasets used in abortion incidence prediction models for Iranian Holstein dairy cattle.

The ability to predict abortion incidence, especially in regions with high abortion rates (e.g., Iran), helps improve reproductive performance and, th...

In vitro selection of DNA aptamers and their integration in a competitive voltammetric biosensor for azlocillin determination in waste water.

The uncontrolled usage of veterinary antibiotics has led to their widespread pollution in waterways and milk products. Potential impact of antibiotic ...

Effect of experimental infectious bursal disease virus on clinical signs and pathogenesis of avian influenza virus HN in turkey by real time PCR.

Infectious bursal disease virus (IBDV) in turkeys may result in immunosuppression, and inability of turkeys to resist nonpathogenic or less pathogenic...

Transcriptome analysis and identification of genes associated with chicken sperm storage duration.

The sperm storage tubules located in the mucosal folds of the uterovaginal junction (UVJ) are the primary site of sperm storage in chicken hens after ...

Characterization of the complete chloroplast genome of traditional Tibetan herb, Maxim. (Polygonaceae).

The complete chloroplast genome sequence of traditional Tibetan herb, Maxim. was analyzed. The complete chloroplast genome of is 162,213 bp in size ...

Characterization and phylogenetic analysis of the complete chloroplast genome of 'Forest Pansy'.

'Forest Pansy' is a tree species with high ornamental value, which complete chloroplast (cp) genome was sequenced, assembled, and annotated. The geno...