Genetics

Microbiome Tools for Forensic Science.

Microbes are present at every crime scene and have been used as physical evidence for over a century. Advances in DNA sequencing and computational approaches have led to recent breakthroughs in the use of microbiome approaches for forensic science, particularly in the areas of estimating postmortem intervals (PMIs), locating clandestine graves, and obtaining soil and skin trace evidence. Low-cost,...

Bladder cancer cell viability inhibition and apoptosis induction by baicalein through targeting the expression of anti-apoptotic genes.

The study was aimed to investigate the effect of baicalein, a flavonoid molecule isolated from the plant on bladder cancer cell viability. The results revealed that baicalein treatment of T24 and 253J bladder cancer cells targeted the expression of mRNA and proteins corresponding to the anti-apoptotic genes. RT-PCR assay showed that anti-apoptotic genes were markedly over-expressed in the bladder...

Next-Generation Global Biomonitoring: Large-scale, Automated Reconstruction of Ecological Networks.

We foresee a new global-scale, ecological approach to biomonitoring emerging within the next decade that can detect ecosystem change accurately, cheap...

The mutational oncoprint of recurrent cytogenetic abnormalities in adult patients with de novo acute myeloid leukemia.

Recurrent chromosomal abnormalities and gene mutations detected at the time of diagnosis of acute myeloid leukemia (AML) are associated with particula...

An artificial intelligence approach fit for tRNA gene studies in the era of big sequence data.

Unsupervised data mining capable of extracting a wide range of knowledge from big data without prior knowledge or particular models is a timely applic...

Improving the accuracy of high-throughput protein-protein affinity prediction may require better training data.

BACKGROUND: One goal of structural biology is to understand how a protein's 3-dimensional conformation determines its capacity to interact with potent...

Discriminating between HuR and TTP binding sites using the k-spectrum kernel method.

BACKGROUND: The RNA binding proteins (RBPs) human antigen R (HuR) and Tristetraprolin (TTP) are known to exhibit competitive binding but have opposing...

NaviGO: interactive tool for visualization and functional similarity and coherence analysis with gene ontology.

BACKGROUND: The number of genomics and proteomics experiments is growing rapidly, producing an ever-increasing amount of data that are awaiting functi...

High-throughput transformation of Saccharomyces cerevisiae using liquid handling robots.

Saccharomyces cerevisiae (budding yeast) is a powerful eukaryotic model organism ideally suited to high-throughput genetic analyses, which time and ag...

An empirical fuzzy multifactor dimensionality reduction method for detecting gene-gene interactions.

BACKGROUND: Detection of gene-gene interaction (GGI) is a key challenge towards solving the problem of missing heritability in genetics. The multifact...

A reductionist approach to extract robust molecular markers from microarray data series - Isolating markers to track osseointegration.

Complexities in the full genome expression studies hinder the extraction of tracker genes to analyze the course of biological events. In this study, w...

Designing a biochip following multiplex polymerase chain reaction for the detection of Salmonella serovars Typhimurium, Enteritidis, Infantis, Hadar, and Virchow in poultry products.

Salmonella-contaminated foods, especially poultry-derived foods (eggs, chicken meat), are the major source of salmonellosis. Not only in the European ...

GuideScan software for improved single and paired CRISPR guide RNA design.

We present GuideScan software for the design of CRISPR guide RNA libraries that can be used to edit coding and noncoding genomic regions. GuideScan pr...

Polymorphism of angiotensin-converting enzyme (rs4340) and diabetic nephropathy in Caucasians with type 2 diabetes mellitus.

Diabetic nephropathy (DN) is the leading cause of endstage renal disease (ESRD) in developed countries. Several environmental and genetic factors pred...

Case report of a novel mutation of the gene in a patient with branchio-oto-renal syndrome.

Branchio-oto-renal (BOR) syndrome is an autosomal dominant disorder characterized by the coexistence of branchial cysts or fistulae, external ear malf...

DNA methylation-based forensic age prediction using artificial neural networks and next generation sequencing.

The ability to estimate the age of the donor from recovered biological material at a crime scene can be of substantial value in forensic investigation...

RNA-protein binding motifs mining with a new hybrid deep learning based cross-domain knowledge integration approach.

BACKGROUND: RNAs play key roles in cells through the interactions with proteins known as the RNA-binding proteins (RBP) and their binding motifs enabl...

Genetic Variation in CD36 Is Associated with Decreased Fat and Sugar Intake in Obese Children and Adolescents.

BACKGROUND/AIMS: Taste is recognized as an important predictor of food choices. Thus, polymorphisms in genes encoding taste receptors may explain the ...

Computational methods using genome-wide association studies to predict radiotherapy complications and to identify correlative molecular processes.

The biological cause of clinically observed variability of normal tissue damage following radiotherapy is poorly understood. We hypothesized that mach...

Revealing the inventory of type III effectors in Pantoea agglomerans gall-forming pathovars using draft genome sequences and a machine-learning approach.

Pantoea agglomerans, a widespread epiphytic bacterium, has evolved into a hypersensitive response and pathogenicity (hrp)-dependent and host-specific ...