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This paper presents electrokinetically based microfluidic integration of isolation and amplification of target-binding nucleic acids. A microfluidic device is used that consists of two microchambers for nucleic acid isolation and amplification connected by a microchannel filled with agarose gel. In the device, target-binding DNA strands are isolated and amplified on surfaces while gel-based electrophoresis...
An important task of aging research is to find genes that regulate lifespan. Wet-lab identification of aging genes is tedious and labor-intensive activity. Developing an algorithm to predict aging genes will be greatly helpful. In this paper, we systematically analyzed topological features of proteins encoded by Drosophila melanogaster aging genes versus those encoded by non-aging genes in protein-protein...
Matrix metalloproteinases (MMPs) are endopeptidases responsible for degrading the extracellular matrix (ECM) and remodeling tissue in both physiological and pathological processes. MMP2 and membrane-type 1 MMP (MT1-MMP) have been associated with tumor invasion, metastasis and angiogenesis; therefore, a molecular imaging strategy assessing their activity may help to predict the malignancy of tumors...
TRPV5 and TRPV6 channels are related to vigorous regulations under physiological, pathological, and therapeutic conditions. This study aims to predict the 3D structures of the TRPV channels by developing homology models based on the chosen multiple sequence alignment. In this study, we compared the results of the sequence alignments from three multiple sequence alignment programs; CLUSTALW, MAFFT...
The goal is to monitor binding of viruses to a model membrane - lipid bilayer - by using Infrared (IR) spectroscopy. IR spectroscopy is a useful spectroscopic tool: it monitors bio-molecular vibrations and provides for molecular fingerprinting. It also provides information on the direction of formed hydrogen bonds when using polarized IR beams. We used graphene-coated IR mesh-screens as substrates...
The stability and fragility of four species¡¦ (rat, yeast, mouse, human) protein complex networks (PCNs) are studied by investigating their robustness, i.e. whether their global topological properties, especially average diameter, retain a similar system behavior with respect to four different types of perturbations or not. Four types of perturbations consist of : (i) network edges are randomly removed,...
In large-scale networks, certain topological patterns may occur more frequently than expected from a null model that preserves global (such as the density of the graph) and local (such as the connectivity of each node) properties of the graph. These network motifs are the building blocks of large-scale networks and may confer functional/mechanistic implications of their underlying processes. Despite...
Ribosomal protein L10A is a component of the 60S large ribosomal subunit. To explore the structure feature of RPL10A gene of the Ailuropoda melanoleuca,the cDNA and the genomic sequence of RPL10A gene were cloned using RT-PCR and touchdown -PCR technology. The obtained cDNA of RPL10A in giant panda is 689 bp in size, containing an ORF of 654 bp, and the deduced protein was composed of 217 amino acids...
40S ribosomal protein S10 is a protein encoded by the RPS10 gene in human, belonging to the S10E family of ribosomal proteins. To explore the structure characteristic of this gene of Ailuropoda melanoleuca, primers were designed based on the known nucleotide sequence of RPS10 gene. The RT-PCR and PCR strategy were employed to isolate cDNA and genome of RPS10 from A. melanoleuca respectively, followed...
This report showed some physico-chemical properties and structural features about UL41 protein predicted by some software and on-line tools. The analysis showed both the signal peptide and the trans membrance region are not found. Meanwhile, the protein has twenty-four potential phosphorylation sites. In addition, the protein has more hydrophilic amine acid districts than hydrophobic districts and...
Diabetic kidney disease is a significant complication of type 2 diabetes mellitus and has a significant impact on quality of life and patient survival, both due to progression towards endstage kidney disease and associated atherosclerosis. Identification of the risk factors, especially in incipient kidney disease, is an important focus of research. The aim of our study was to rank the risk factors...
The Duck Plague Virus (DPV) is the causative agent of Duck plague, which causes significant economic losses in the commercial duck industry all over the world. Our laboratory had identified and sequenced the DPV UL41 gene. Bioinformatics analysis of DPV UL41 gene were performed by some software and online tools. The results showed that GC content of duck plague virus UL41 gene was 42.42%, which encoded...
A very large number of serious human and animal diseases such as AIDS, SARS, common cold, human and avian influenza, chickenpox, and several others are caused by viral infections. The infectious agents of these diseases are virus nanoparticles (virions) that contain DNA/RNA strands encased in a capsid protein coat and in some cases also in an outer lipid envelope. The virions are usually transmitted...
Non thermal plasmas are promising medical tools, e.g. for skin or wound treatment. To identify and basically understand the plasma - cell interaction and to guide plasma tuning efforts a deep insight into plasma - cell interaction is necessary.
RNA-seq has the potential to discover genes created by complex chromosomal rearrangements. 'Fusion' genes formed by the breakage and re-joining of two different chromosomes have repeatedly been implicated in the development of cancer. However, although RNA-seq can detect these fusion events, normal cells are also characterized by read-through fusions across adjacent genes in the genome, or by transcription-induced...
In physics, plasma is known as the fourth state of matter and describes a partially or fully ionized gas. Recently, non-thermal atmospheric pressure plasma sources gained attention as a possible tool for biomedical applications, emitting UV radiation and generating reactive oxygen and nitrogen species (ROS, RNS) [1]. It is well known that prokaryotes die during a plasma treatment whereas eukaryotes...
Ribonucleases (RNases) constitute a cellular function of exo- and endo-nucleases in all living organisms include vertebrate, bacteria, mold and plant. Human ribonuclease A (hRNaseA) super family consists of thirteen members with high structure similarities. Among which hRNase3 has multiple functions such as RNase, cytotoxicity, and heap ran sulfate (HS) binding activity. Employing Clustal W2 multiple...
Human ribonuclease A (hRNaseA) super family members have similar biological functions such as catalytic activities against specific RNA substrates. However, these enzymes with high sequence similarity may exhibit divergent physiological functions other than RNase activity, for example, angio genesis and innate immunity. In our investigation, a novel heparin-binding motif (HBM), RWRCK, identified from...
The ever-increasing availability of online data and the advances of today's Web have enabled large-scale experimentation on data crowdsourcing and the effect of the individual on information extraction and knowledge generation. Tiger Nation, a project to promote preservation of the last remaining wild tigers in the world, utilises advanced technologies to unobtrusively track tigers and raise awareness...
MicroRNAs are short regulatory RNAs which play a major role in regulating gene expression. In this study, we employed bioinformatics techniques to predict microRNA target sites for interleukin-17 family. We aimed at identifying the pattern of microRNA regulatory mechanism on interleukin-17 family. This study provides insight into the expression pattern of interleukin-17 family in controlling immunopathologic...
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