A PROBABILISTIC METHOD FOR PREDICTION OF MICRORNA-TARGET INTERACTIONS

Elucidation of microRNA activity is a crucial step in understanding gene regulation. One key problem in this effort is how to model the pairwise interaction of microRNAs with their targets. As this interaction is strongly mediated by their sequences, it is desired to set up a probabilistic model to explain the binding between a microRNA sequence and the sequence of a putative target. To this end, we introduce a new model of microRNA-target binding, which transforms an aligned duplex to a new sequence and defines the likelihood of this sequence using a Variable Length Markov Chain. It offers a complementary representation of microRNA-mRNA pairs for microRNA target prediction tools or other probabilistic frameworks of integrative gene regulation analysis. The performance of present model is evaluated by its ability to predict microRNA-mRNA interaction given a mature microRNA sequence and a putative mRNA binding site. In regard to classification accuracy, it outperforms a recent method based on support vector machines

A probabilistic approach to microRNA-target binding

Elucidation of microRNA activity is a crucial step in understanding gene regulation. One key problem in this effort is how to model the pairwise interactions of microRNAs with their targets. As this interaction is strongly mediated by their sequences, it is desired to set-up a probabilistic model to explain the binding preferences between a microRNA sequence and the sequence of a putative target. To this end, we introduce a new model of microRNA-target binding, which transforms an aligned duplex to a new sequence and defines the likelihood of this sequence using a Variable Length Markov Chain. It offers a complementary representation of microRNA-mRNA pairs for microRNA target prediction tools or other probabilistic frameworks of integrative gene regulation analysis. The performance of present model is evaluated by its ability to predict microRNA-target mRNA interaction given a mature microRNA sequence and a putative mRNA binding site. In regard to classification accuracy, it outperforms two recent methods based on thermodynamic stability and sequence complementarity. The experiments can also unveil the effects of base pairing types and non-seed region in duplex formation

Assessment of extensive countrywide electrical power quality measurements through a database architecture

This paper describes countrywide electrical power quality (PQ) assessments of the Turkish Electricity Transmission System through a genuine PQ database. The database stores the output of mobile PQ measurement systems which are established at 172 transformer substations of the transmission system. At 601 measurement points in these substations, which are potentially critical in terms of PQ, measurements are carried out by the mobile systems for a period of 1 week. PQ parameters defined in the IEC-61000-4-30 standard in addition to power values are calculated from acquired raw data by the mobile-monitoring system and the resulting data are transferred to the PQ database. The database, based on a novel PQ data model, enables its users to take PQ snapshots of the transmission system countrywide and can be accessed through several interfaces including a visual query interface, a natural language interface, and a map interface. The overall PQ status of the measured points, representing the characteristics of the transmission system, is assessed through these interfaces and problematic points are determined while deriving important conclusions about the transmission system's PQ behavior. Moreover, several novel PQ assessment methods are proposed and their applications on the PQ data are demonstrated especially through the map interface

Power quality assessment of grid-connected wind farms considering regulations in turkey

This paper presents measurement system and detailed analysis of power quality at the substation of two different wind farm sites which are of low and high power rate. Measurement system has been designed using a data acquisition board (DAQ), Labview software, Matlab programming and a portable PC. The system has been installed at medium voltage level at substation of both wind farms. The real measurement results at substations are compared to current regulations in Turkey.Wind power Power quality Harmonics Flicker Voltage unbalance

Is it possible to treat osteosarcoma using oligonucleotides confined into controlled release drug delivery systems?

WOS: 000407701900010PubMed ID: 28641566Purpose: The present study aimed to analyze the researches that are at the experimental phase concerning osteosarcoma treatment. The researches included drug delivery systems which allow controlled release and imbue small interfering-/micro-ribonucleic acid. Methods: Without any language preference, we searched US National Library of Medicine National Institutes of Health, Embase, OVID, Cochrane Library database of clinical trials from 1843 to May 25, 2016 and traced all the references of incorporated documents. The data were evaluated using descriptive statistics and the results are shown as frequency (%). Results: We haven't encountered any drug delivery system in which Small interfering ribonucleic acid/ micro ribonucleic acid oligonucleotides were embedded successfully against osteosarcoma. There has been only one research in which hairpin-ribonucleic acid was embedded. Conclusion: It was considered that drug delivery system enabling controlled oligonucleotide release in the treatment period of osteosarcoma was not projected for the clinical use. However, it cannot be neglected that the mentioned experimental studies with regard to osteosarcoma treatment establish the basis of target therapies. The method in question looks promising regarding effective treatment of osteosarcoma in the future

A Current Source Converter-Based Active Power Filter for Mitigation of Harmonics at the Interface of Distribution and Transmission Systems

A medium-power current source converter (CSC)-based shunt active power filter (APF) system is designed and implemented to suppress the amplification of low-order harmonics at the medium-voltage (MV) interface bus between the distribution and transmission systems, owing to the presence of large shunt capacitor banks installed only for reactive power compensation. Four CSC-based APF modules designed at 1.0 kV are operated in parallel and connected to the 31.5-kV MV bus via a specially designed coupling transformer. In each APF module, a specially designed LC-type input filter eliminates the switching ripples, and active damping method embedded into the control software suppresses harmonic frequencies around the corner frequency of the input filter. The resulting system can operate at relatively high frequencies in the range from 2.0 to 3.0 kHz, depending upon which selected harmonics among 5th, 7th, 11th, and 13th are to be eliminated. Furthermore, in order to reduce the installed capacity of CSCs, selective harmonic amplification method is applied to the APF system described in the paper. MV APF system has been built as a mobile system for temporary connection to a problematic MV interface bus until a permanent solution is found for that location in the distribution system

An extensible database architecture for nationwide power quality monitoring

Electrical power quality (PQ) data is one of the prevalent types of engineering data. Its measurement at relevant sampling rates leads to large volumes of PQ data to be managed and analyzed. In this paper, an extensible database architecture is presented based on a novel generic data model for PQ data. The proposed architecture is operated on the nationwide PQ data of the Turkish Electricity Transmission System measured in the field by mobile PQ monitoring systems. The architecture is extensible in the sense that it can be used to store and manage PQ data collected by any means with little or no customization. The architecture has three modules: a PQ database corresponding to the implementation of the generic data model, a visual user query interface to enable its users to specify queries to the PQ database and a query processor acting as a bridge between the query interface and the database. The operation of the architecture is illustrated on the field PQ data with several query examples through the visual query interface. The execution of the architecture on this data of considerable volume supports its applicability and convenience for PQ data

Electrical Power Quality of Iron and Steel Industry in Turkey

The iron and steel industry has been growing increasingly in Turkey in the last decade. Today, its electricity demand is nearly one tenth of the installed generation capability of 40 GW in the country. In this paper, power quality (PQ) investigations based on the arc furnace installations of the iron and steel plants using field measurements according to the international standard IEC 61000-4-30 are documented. Interharmonics and voltage flicker problems occurring both at the common-coupling points of those plants and at the arc furnace and static var compensator (SVC) systems of the plants themselves are determined with the use of GPS receiver synchronization modules attached to the mobile PQ measurement systems. It has been observed that flicker and interharmonic problems are dominant at the points of common couplings where arc furnace installations are supplied. Based on the field measurements obtained with collaborative work of five arc furnace plants, it is possible to say that contemporary SVC systems cause interharmonic amplification problems around the second harmonic, and novel methods are required to solve this problem

Can a biodegradable implanted bilayered drug delivery system loaded with BMP-2/BMP-12 take an effective role in the biological repair process of bone-tendon injuries? A preliminary report

WOS: 000402656700001Background. Use of biodegradable and biocompatible materials in the orthopedic surgery is gaining popularity. In this research, the rate of controlled release of a bilayered prototype biomaterial designed to promote osteoblastic and tenoblastic activity was calculated using pharmacochemical methods. Methods. The first part of the design, composed of a sodium tetraborate, polyvinyl alcohol, and starch based hydrogel, was loaded with bone morphogenic protein-2. The second part which was composed of a sodium tetraborate, polyvinyl alcohol, and chitosan based hydrogel was loaded with bone morphogenic protein-12. Osteochondral and tendon tissue specimens were obtained from patients with a diagnosis of gonarthrosis and primary bone cells and tendon cells cultures were prepared following treatment with collagenase enzyme. Cell samples were collected from the groups by means of an invert light microscope and environmental scanning electron microscope underwent at the 1st and 21st days. Thelevel of osteogenic differentiation was measured by the activity of alkaline phosphatase. For the statistical evaluation of the obtained data, groups were compared with post hoc Tukey test following analysis of variance. Level of significance was accepted to be <0,01. Results. Both osteogenic and tenogenic stimulation were observed in the cultured specimens. In comparison to the control groups, the rate of proliferation of healthy cells was found to be higher in the groups to which the design was added (P < 0.01). Conclusions. Our research is a preliminary report that describes a study conducted in an in vitro experimental setting. We believe that such prototype systems may be pioneers in targeted drug therapies after reconstructional surgeries