Genetics

funbarRF: DNA barcode-based fungal species prediction using multiclass Random Forest supervised learning model.

BACKGROUND: Identification of unknown fungal species aids to the conservation of fungal diversity. As many fungal species cannot be cultured, morphological identification of those species is almost impossible. But, DNA barcoding technique can be employed for identification of such species. For fungal taxonomy prediction, the ITS (internal transcribed spacer) region of rDNA (ribosomal DNA) is used ...

Deep learning image recognition enables efficient genome editing in zebrafish by automated injections.

One of the most popular techniques in zebrafish research is microinjection. This is a rapid and efficient way to genetically manipulate early developing embryos, and to introduce microbes, chemical compounds, nanoparticles or tracers at larval stages. Here we demonstrate the development of a machine learning software that allows for microinjection at a trained target site in zebrafish eggs at unpr...

Identifying facial phenotypes of genetic disorders using deep learning.

Syndromic genetic conditions, in aggregate, affect 8% of the population. Many syndromes have recognizable facial features that are highly informative ...

Significant shared heritability underlies suicide attempt and clinically predicted probability of attempting suicide.

Suicide accounts for nearly 800,000 deaths per year worldwide with rates of both deaths and attempts rising. Family studies have estimated substantial...

Embedding of Genes Using Cancer Gene Expression Data: Biological Relevance and Potential Application on Biomarker Discovery.

Artificial neural networks (ANNs) have been utilized for classification and prediction task with remarkable accuracy. However, its implications for un...

Radiogenomics in Clear Cell Renal Cell Carcinoma: Machine Learning-Based High-Dimensional Quantitative CT Texture Analysis in Predicting PBRM1 Mutation Status.

OBJECTIVE: The purpose of this study is to evaluate the potential value of machine learning (ML)-based high-dimensional quantitative CT texture analys...

Using deep learning to identify translational research in genomic medicine beyond bench to bedside.

Tracking scientific research publications on the evaluation, utility and implementation of genomic applications is critical for the translation of bas...

DeepM6ASeq: prediction and characterization of m6A-containing sequences using deep learning.

BACKGROUND: N6-methyladensine (m6A) is a common and abundant RNA methylation modification found in various species. As a type of post-transcriptional ...

PDRLGB: precise DNA-binding residue prediction using a light gradient boosting machine.

BACKGROUND: Identifying specific residues for protein-DNA interactions are of considerable importance to better recognize the binding mechanism of pro...

Reduced-Port Laparoscopic Surgery for Patients With Proximal Transverse Colon Cancer With Situs Inversus Totalis: A Case Report.

Situs inversus is a rare hereditary disorder in which various anomalies have been reported with internal rotation abnormalities. This case involved an...

Immune-Enhancing Activity of Ovotransferrin from Egg White via MAPK Signaling Pathways in RAW 264.7 Macrophages.

Ovotransferrin (OTF) is a well-known protein of the transferrin family with strong iron chelating activity, resulting in its antimicrobial activity. F...

Effects of Progesterone and 17β-Estradiol under Presence or Absence of FBS on Plasminogen Activators Activity in Porcine Uterine Epithelial Cells.

The present study was conducted to investigate the regulatory mechanism of plasminogen activators (PAs) activation by 17β-estradiol (E) and progestero...

Rapid microarray-based assay for detection of pyrazinamide resistant Mycobacterium tuberculosis.

Pyrazinamide (PZA) is a key antibiotic for the treatment of drug susceptible tuberculosis. PZA-resistance is mainly mediated by mutations in the pncA ...

Cytogenotoxic effects of seeds extracts on breast cancer cells.

The extracts prepared from various areal parts of the (Forssk.) Roem. & Schult. (Family: Apocynaceae) including leaves, fruit and seeds ethanolic ext...

Antimicrobial Characteristics of Lactic Acid Bacteria Isolated from Homemade Fermented Foods.

. Lactic acid bacteria (LAB) were isolated from fermented foods, such as glutinous rice dough, corn noodle, chili sauce, potherb mustard pickles, and ...

Prediction of DNA-Binding Residues in Local Segments of Protein Sequences with Fuzzy Cognitive Maps.

While protein-DNA interactions are crucial for a wide range of cellular functions, only a small fraction of these interactions was annotated to date. ...

iMEGES: integrated mental-disorder GEnome score by deep neural network for prioritizing the susceptibility genes for mental disorders in personal genomes.

BACKGROUND: A range of rare and common genetic variants have been discovered to be potentially associated with mental diseases, but many more have not...

Discerning novel splice junctions derived from RNA-seq alignment: a deep learning approach.

BACKGROUND: Exon splicing is a regulated cellular process in the transcription of protein-coding genes. Technological advancements and cost reductions...

Physicochemical property based computational scheme for classifying DNA sequence elements of Saccharomyces cerevisiae.

GenerationE of huge "omics" data necessitates the development and application of computational methods to annotate the data in terms of biological fea...

Data-driven supervised learning of a viral protease specificity landscape from deep sequencing and molecular simulations.

Biophysical interactions between proteins and peptides are key determinants of molecular recognition specificity landscapes. However, an understanding...