Search results for: Breeding biology

Authors: Alexei M. Mikhailov

Abstract:

The paper attempts to elucidate the columnar structure of the cortex by answering the following questions. (1) Why the cortical neurons with similar interests tend to be vertically arrayed forming what is known as cortical columns? (2) How to describe the cortex as a whole in concise mathematical terms? (3) How to design efficient digital models of the cortex?

Keywords: Cortex, pattern recognition, artificial neural cortex, computational biology, brain and neural engineering.

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Authors: Yuanqing Li, Changyi Lei, Zhaopeng Xue, Zhuo Zheng, Yanbo Long

Abstract:

In agricultural production and breeding, implementing automatic picking robot in orchard farming to reduce human labour and error is challenging. The core function of it is automatic identification based on machine vision. This paper focuses on apple detection and counting in orchards and implements several deep learning methods. Extensive datasets are used and a semi-automatic annotation method is proposed. The proposed deep learning models are in state-of-the-art YOLO family. In view of the essence of the models with various backbones, a multi-dimensional comparison in details is made in terms of counting accuracy, mAP and model memory, laying the foundation for realising automatic precision agriculture.

Keywords: Agricultural object detection, Deep learning, machine vision, YOLO family.

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Authors: Abdulsalam. I. Rafida, Ehae. Abo-Jnha, Kald. Tainah

Abstract:

This study mainly aims at assessing the level of microbial pollution of the water used in the chair system in dental clinics. For this purpose 36 samples have been randomly collected from a number of dental surgeries in the city of Tripoli in Libya. However, 32 of the samples have tested positive to microbial pollution including 13 of the samples, which have tested positives to Pseudomonas aeruginosa. Based on the results of the test a further investigation of the biofilms incorporated within the dental chair system has been conducted. The laboratory tests of biofilms with similar design to those found in dental chairs have proved that bacterial pollution takes place through saliva of the patients who use the chairs, and that this saliva is rich with nutrients which provides a suitable breeding ground for all types of bacteria.

Keywords: Pseudomonas aeruginosa, Biofilm.

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Authors: Manpreet Singh, Parvinder Singh Sandhu, Basant Raj Singh

Abstract:

Hybridization refers to the crossing breeding of two plants. Coefficient of Parentage (COP) is used by the plant breeders to determine the genetic diversity across various varieties so as to incorporate the useful characters of the two varieties to develop a new crop variety with particular useful characters. Genetic Diversity is the prerequisite for any cultivar development program. Genetic Diversity depends upon the pedigree information of the varieties based on particular levels. Pedigree refers to the parents of a particular variety at various levels. This paper discusses the searching and analyses of different possible pairs of varieties selected on the basis of morphological characters, Climatic conditions and Nutrients so as to obtain the most optimal pair that can produce the required crossbreed variety. An algorithm was developed to determine the coefficient of parentage (COP) between the selected wheat varieties. Dummy values were used wherever actual data was not available.

Keywords: Coefficient of Parentage, Morphological characters, Pedigree, Genetic Diversity.

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Authors: Zhongxu Chen, Jun Yang, Heyue Mao, Xiaoyu Zheng

Abstract:

Hemorrhage Disease of Grass Carp (HDGC) is a kind of commonly occurring illnesses in summer, and the extremely high death rate result in colossal losses to aquaculture. As the complex connections among each factor which influences aquiculture diseases, there-s no quit reasonable mathematical model to solve the problem at present.A BP neural network which with excellent nonlinear mapping coherence was adopted to establish mathematical model; Environmental factor, which can easily detected, such as breeding density, water temperature, pH and light intensity was set as the main analyzing object. 25 groups of experimental data were used for training and test, and the accuracy of using the model to predict the trend of HDGC was above 80%. It is demonstrated that BP neural network for predicating diseases in HDGC has a particularly objectivity and practicality, thus it can be spread to other aquiculture disease.

Keywords: Aquaculture, Hemorrhage Disease of Grass Carp, BP Neural Network

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Authors: Ehsan Shahrabian, Ali Soleymani

Abstract:

Several yield-based stress indices have been developed that may be more applicable to work on drought tolerance. In this study, we investigate possibility of using stress susceptibility index (SSI), tolerance index (TOL), yield stability index (YSI), yield index (YI), stress tolerance index (STI), geometric mean productivity (GMP), harmonic mean (HARM), mean productivity (MP) to identify genotypic performance of some maize cultivars under normal and stressed condition. The results indicate that it was possible to identify superior genotypes for drought tolerance based on their stress indices and generally SSI indices which showed the lowest negative correlation with dry matter yield can be used as the best index for maize breeding programs to introduce drought tolerant hybrids. It was found that SC 647 showed the best behavior under drought stress condition based on TOL and SSI. A higher STI, GMP, and HARM values were attained for ko_6. It can be suggested that ko₆ should be cultivated in moderate stressful environment of Iran.

Keywords: Index, productivity, stress, susceptibility tolerance, yield.

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Authors: M. R. Naghavi, S. Rashidi Monfared, A. H. Ahkami, M. A. Ombidbakhsh

Abstract:

Knowledge of patterns of genetic diversity enhances the efficiency of germplasm conservation and improvement. In this study 96 Iranian landraces of Triticum turgidum originating from different geographical areas of Iran, along with 18 durum cultivars from ten countries were evaluated for variation in morphological and high molecular weight glutenin subunit (HMW-GS) composition. The first two principal components clearly separated the Iranian landraces from cultivars. Three alleles were present at the Glu-A1 locus and 11 alleles at Glu-B1. In both cultivars and landraces of durum wheat, the null allele (Glu-A1c) was observed more frequently than the Glu-A1a and Glu-A1b alleles. Two alleles, namely Glu-B1a (subunit 7) and Glu-B1e (subunit 20) represented the more frequent alleles at Glu-B1 locus. The results showed that the evaluated Iranian landraces formed an interesting source of favourable glutenin subunits that might be very desirable in breeding activities for improving pasta-making quality.

Keywords: Triticum turgidum var. durum, glutenin subunits, morphological characters.

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Authors: Irisa Murniece, Zanda Kruma, Ilze Skrabule

Abstract:

Potatoes are a good source of carotenoids, which are lipophilic compounds synthesized in plastids from isoprenoids. The aim of this research was to determine the content of carotenoids in relationship with the colour of organically and conventionally cultivated potato genotypes before and after period of storage. In cooperation with the State Priekuli Plant Breeding Institute (Latvia), six potato genotypes were studied: 'Agrie dzeltenie', 'Prelma', 'Imanta', 'S-03135-10', 'S-99108-8' and 'S-01063-5'. All the genotypes were cultivated under three different conditions: organically and conventionally (two conditions). The content of carotenoids was determined by using spectrophotometer and the colour – L*a*b* system. The results of current research show that after the period of storage, carotenoid amount has increased and in conventionally cultivated potatoes it varies from 228.514 to 552.434 μg 100 g-1 while in organically cultivated potato genotypes – from 45.485 to 662.699 μg 100 g-1 FW. Colour of potato flesh was changing during storage.

Keywords: carotenoids, colour, organic and conventional cultivation, potato genotypes, storage

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Authors: Alexei M. Mikhailov

Abstract:

The paper discusses the mathematics of pattern indexing and its applications to recognition of visual patterns that are found in video clips. It is shown that (a) pattern indexes can be represented by collections of inverted patterns, (b) solutions to pattern classification problems can be found as intersections and histograms of inverted patterns and, thus, matching of original patterns avoided.

Keywords: Artificial neural cortex, computational biology, data mining, pattern recognition.

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Authors: Panchalee Sukjit, Herwig Unger

Abstract:

IT infrastructures are becoming more and more difficult. Therefore, in the first industrial IT systems, the P2P paradigm has replaced the traditional client server and methods of self-organization are gaining more and more importance. From the past it is known that especially regular structures like grids may significantly improve the system behavior and performance. This contribution introduces a new algorithm based on a biologic analogue, which may provide the growth of several regular structures on top of anarchic grown P2P- or social network structures.

Keywords: P2P, Pattern generation, Grid, Social network, Inheritance, Reproduction

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Authors: Nurul' Ain Ab Jalil, Hassan Basri

Abstract:

This paper reviews the objectives, methods and results of previous studies on biodrying of solid waste in several countries. Biodrying of solid waste is a novel technology in developing countries such as in Malaysia where high moisture content in organic waste makes the segregation process for recycling purposes complicated and diminishes the calorific value for the use of fuel source. In addition, the high moisture content also encourages the breeding of vectors and disease-bearing animals. From the laboratory results, the average moisture content of organic waste, paper, plastics and metals are 58.17%, 37.93%, 29.79% and 1.03% respectively for UKM campus. Biodrying of solid waste is a simple method of waste treatment as well as a cost-efficient technology to dry the solid waste. The process depends on temperature monitoring and air flow control along with the natural biodegradable process of organic waste. This review shows that the biodrying of solid waste method has high potential in treatment and recycling of solid waste, be useful for biodrying study and implementation in Malaysia.

Keywords: Biodrying of solid waste, Organic waste, Fuel source.

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Authors: Itgel Bayarsaikhan, Jimin Lee, Sejong Oh

Abstract:

Classification is one of the primary themes in computational biology. The accuracy of classification strongly depends on quality of a dataset, and we need some method to evaluate this quality. In this paper, we propose a new graphical analysis method using 'Membership-Deviation Graph (MDG)' for analyzing quality of a dataset. MDG represents degree of membership and deviations for instances of a class in the dataset. The result of MDG analysis is used for understanding specific feature and for selecting best feature for classification.

Keywords: feature, classification, machine learning algorithm.

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Authors: Azmi Ibrahim, Nor Azan Mat Zin, Noraidah Sahari Ashaari

Abstract:

Dengue fever is prevalent in Malaysia with numerous cases including mortality recorded over the years. Public education on the prevention of the desease through various means has been carried out besides the enforcement of legal means to eradicate Aedes mosquitoes, the dengue vector breeding ground. Hence, other means need to be explored, such as predicting the seasonal peak period of the dengue outbreak and identifying related climate factors contributing to the increase in the number of mosquitoes. Simulation model can be employed for this purpose. In this study, we created a simulation of system dynamic to predict the spread of dengue outbreak in Hulu Langat, Selangor Malaysia. The prototype was developed using STELLA 9.1.2 software. The main data input are rainfall, temperature and denggue cases. Data analysis from the graph showed that denggue cases can be predicted accurately using these two main variables- rainfall and temperature. However, the model will be further tested over a longer time period to ensure its accuracy, reliability and efficiency as a prediction tool for dengue outbreak.

Keywords: dengue fever, prediction, system dynamic, simulation

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Authors: Abdelrasoul, Khalid Ahmed Elrabie

Abstract:

The study was conducted on Sahiwal cattle bulls maintained at the Artificial Breeding Complex, NDRI, Karnal, Hayana, India, to determine the effect of exercise on the sexual behavior and semen quality. Fourteen Sahiwal bulls were classified into two groups of seven each. Group-1, bulls were exercised by walking in a bull exerciser once a week one hour before semen collection, whereas bulls in group-2 were exercised daily. Sexual behavior and semen quality traits studied were: Reaction time (RT), Dismounting time (DMT), Total time taken in mounts (TTTM), Flehmen response (FR), Erection Score (ES), Protrusion Score (PS), Intensity of thrust (ITS), Temperament Score (TS), Libido Score (LS), Semen volume, Physical appearance, Mass activity, Initial progressive motility, Non-eosinophilic spermatozoa count (NESC) and post thaw motility percent. Data were analyzed by least squares technique. Group-2 showed significantly (p < 0.01) higher value in RT (sec), DMT (sec), TTTM (sec), ES, PS, ITS, LS, semen volume, semen color density and mass activity.

Keywords: Exercise, Sahiwal bulls, semen quality, sexual behavior.

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Authors: Arkady Bolotin

Abstract:

In many ways, biomedical analysis is analogous to possibilistic reasoning. In spite of that, there are hardly any applications of possibility theory in biology or medicine. The aim of this work is to demonstrate the use of possibility theory in an epidemiological study. In the paper, we build the possibility distribution for the controlled bloodstream concentrations of any physiologically active substance through few approximate considerations. This possibility distribution is tested later against the empirical histograms obtained from the panel study of the eight different physiologically active substances in 417 individuals.

Keywords: Possibility distributions, physiologically activesubstances, bloodstream concentrations.

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Authors: B. K. Yadav, A. Gandhi, A. K. Verma, T. S. Rao, A. Saraswat, E. R. Kumar, M. Sarkar, K. N. Vyas

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This paper deals with the conceptual design of Experimental Helium Cooling Loop (EHCL) for Indian Test Blanket Module (TBM) and its related thermal hydraulic experiments. Indian TBM team is developing Lead Lithium cooled Ceramic Breeder (IN-LLCB) TBM to be tested in ITER. The TBM box structure is cooled by high pressure (8 MPa) and high temperature (300-500C) helium gas.

The first wall of TBM made of complex channel geometry having several parallel channels carrying helium gas for efficient heat extraction. Several mock-ups of these channels need to be tested before finalizing the TBM first wall design and fabrication. Besides the individual testing of such mock-ups of breeding blanket, the testing of Pb-Li to helium heat exchanger, the operational experience of helium loop and understanding of the behavior of high pressure and high temperature system components are very essential for final development of Helium Cooling System for LLCB TBM in ITER. The main requirements and characteristics of the EHCL and its conceptual design are presented in this paper.

Keywords: DEMO, EHCL, ITER, LLCB TBM.

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Authors: Hamid Abbasdokht , Mohammad Reza Edalatpishe, Ahmad Gholami

Abstract:

In order to study of hydropriming and halopriming on germination and early growth stage of wheat (Triticum aestivum) an experiment was carried out in laboratory of the Department of Agronomy and Plant breeding, Shahrood University of Technology. Seed treatments consisted of T1: control (untreated seeds), T2: soaking in distilled water for 18 h (hydropriming). T3: soaking in - 1.2 MPa solution of CaSO4 for 36 h (halopriming). Germination and early seedling growth were studied using distilled water (control) and under osmotic potentials of -0.4, -0.8 and -1.2 MPa for NaCl and polyethylene glycol (PEG 6000), respectively. Results showed that Hydroprimed seeds achieved maximum germination seedling dry weight, especially during the higher osmotic potentials. Minimum germination was recorded at untreated seeds (control) followed by osmopriming. Under high osmotic potentials, hydroprimed seeds had higher GI (germination index) as compared to haloprimed or untreated seeds. Interaction effect of seed treatment and osmotic potential significantly affected the seedling vigour index (SVI).

Keywords: Wheat, hydropriming, halopriming, germination

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Authors: Christian Mayr, Matthias Ehrlich, Stephan Henker, Karsten Wendt, René Schüffny

Abstract:

Traditionally, VLSI implementations of spiking neural nets have featured large neuron counts for fixed computations or small exploratory, configurable nets. This paper presents the system architecture of a large configurable neural net system employing a dedicated mapping algorithm for projecting the targeted biology-analog nets and dynamics onto the hardware with its attendant constraints.

Keywords: Large scale VLSI neural net, topology mapping, complex pulse communication.

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Authors: Heinz Stockinger

Abstract:

Certain sciences such as physics, chemistry or biology, have a strong computational aspect and use computing infrastructures to advance their scientific goals. Often, high performance and/or high throughput computing infrastructures such as clusters and computational Grids are applied to satisfy computational needs. In addition, these sciences are sometimes characterised by scientific collaborations requiring resource sharing which is typically provided by Grid approaches. In this article, I discuss Grid computing approaches in High Energy Physics as well as in bioinformatics and highlight some of my experience in both scientific domains.

Keywords: Grid computing, Web services, physics, bioinformatics

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Authors: Ngono Mindzeng Terencia

Abstract:

Community based tourism, as a sustainable tourism approach, has been adopted as a tool for development among local communities in third world countries with income generation as the main driver. However, an analysis of community based tourism and development brings to light another driving force which is paramount to development strategies in the difficult conditions of third world countries: this driving force is “place revitalization”. This paper seeks to assess the relevance of “place revitalization” to the enhancement of development within the challenging context of developing countries. The research provides a community based tourism model to development in third world countries through a three step process based on awareness, mentoring and empowerment at the local level. It also tries to examine how effectively this model can address the development problems faced by the local communities of third world countries. The case study for this research is the Bamiléké region of Cameroon, the breeding ground of community based tourism initiatives and a region facing the difficulties of third world countries that are great impediments to community based tourism.

Keywords: Awareness, empowerment, local communities, mentoring, place revitalization, third world countries.

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Authors: Khalid Ahmed Elrabie Abdelrasoul

Abstract:

The present study was carried out on Sahiwal cattle bulls maintained at the Artificial Breeding Complex, NDRI, Karnal, Hayana, India, to assess the effect of cooling using mist cooling and fanning on Sahiwal bulls in the dry hot summer season. Fourteen Sahiwal bulls were divided into two groups of seven each. Sexual behavior and semen quality traits considered were: Reaction time (RT), Dismounting time (DMT), Total time taken in mounts (TTTM), Flehmen response (FR), Erection Score (ES), Protrusion Score (PS), Intensity of thrust (ITS), Temperament Score (TS), Libido Score (LS), Semen volume, Physical appearance, Mass activity, Initial progressive motility, Non-eosinophilic spermatozoa count (NESC) and post thaw motility percent. Data were analyzed by least squares technique. Group-1 was the control, whereas group-2 (treatment group) bulls were exposed to mist cooling and fanning (thrice a day 15 min each) in the dry hot summer season. Group-2 showed significantly (p < 0.01) higher value in DMT (sec), ES, PS, ITS, LS, semen volume (ml), semen color density, mass activity, initial motility, progressive motility and live sperm.

Keywords: Mist cooling, Sahiwal bulls, semen quality, sexual behavior.

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Authors: Raju Bhukya, DVLN Somayajulu

Abstract:

Pattern matching is one of the fundamental applications in molecular biology. Searching DNA related data is a common activity for molecular biologists. In this paper we explore the applicability of a new pattern matching technique called Index based Forward Backward Multiple Pattern Matching algorithm(IFBMPM), for DNA Sequences. Our approach avoids unnecessary comparisons in the DNA Sequence due to this; the number of comparisons of the proposed algorithm is very less compared to other existing popular methods. The number of comparisons rapidly decreases and execution time decreases accordingly and shows better performance.

Keywords: Comparisons, DNA Sequence, Index.

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Authors: Solvita Kalnina, Tatjana Rakcejeva, Daiga Kunkulberga, Anda Linina

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Triticale is a manmade hybrid of wheat and rye that carries the A and B genome of durum wheat and the R genome of rye. In the scientific literature information about in Latvia harvested organic and conventional triticale grain physically-chemical composition was not found in general. Therefore, the main purpose of the current research was to investigate physically-chemical parameters of in Latvia harvested organic and convectional triticale grains. The research was accomplished on in Year 2012 from State Priekuli Plant Breeding Institute (Latvia) harvested organic and conventional triticale grains: “Dinaro”, “9403-97”, “9405-23” and “9402-3”. In the present research significant differences in chemical composition between organic and conventional triticale grains harvested in Latvia was found. It is necessary to mention that higher 1000 grain weight, bulk density and gluten index was obtained for conventional and organic triticale grain variety “9403-97”. However higher falling number, gluten and protein content was obtained for triticale grain variety “9405-23”.

Keywords: Physically-chemical parameters, technological properties, triticale grains.

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Authors: Vita Sterna, Sanita Zute, Inga Jansone, Linda Brunava, Inara Kantane

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Grains, including oats (Avena sativa L.), have been recognized functional foods, because provide beneficial effect on the health of the consumer and decrease the risk of various diseases. Oats are good source of soluble fibre, essential amino acids, unsaturated fatty acids, vitamins and minerals. Oat breeders have developed oat varieties and improved yielding ability potential of oat varieties. Therefore, the aim of investigation was to analyze the composition of perspective oat varieties and breeding lines grains grown in different conditions and evaluate functional properties. In the studied samples content of protein, starch, β-glucans, total dietetic fibre, composition of amino acids and vitamin E were determined. The results of analysis showed that protein content depending of varieties ranged 9.70% to 17.30% total dietary fibre 13.66 g100g-1 to 30.17 g100g-1, content of β-glucans 2.7 g100g-1 to 3.5 g100g-1, amount of vitamin E (α-tocopherol) determined from 4 mgkg-1 to 9.9 mgkg-1. The sums of essential amino acids in oat grain samples were determined from 31.63 gkg-1 to 54.90 gkg-1. It is concluded that amino acids composition of husked and naked oats grown in organic or conventional conditions is close to optimal for human health.

Keywords: Amino acids, β-glucans, dietetic fibre, nutrition value.

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Authors: Mohammad Reza Farzami Pour

Abstract:

Determination of genetic variation is useful for plant breeding and hence production of more efficient plant species under different conditions, like drought stress. In this study a sample of 28 recombinant inbred lines (RILs) of wheat developed from the cross of Norstar and Zagross varieties, together with their parents, were evaluated for two years (2010-2012) under normal and water stress conditions using split plot design with three replications. Main plots included two irrigation treatments of 70 and 140 mm evaporation from Class A pan and sub-plots consisted of 30 genotypes. The effect of genotypes and interaction of genotypes with years and water regimes were significant for all characters. Significant genotypic effect implies the existence of genetic variation among the lines under study. Heritability estimates were high for 1000 grain weight (0.87). Biomass and grain yield showed the lowest heritability values (0.42 and 0.50, respectively). Highest genotypic and phenotypic coefficients of variation (GCV and PCV) belonged to harvest index. Moderate genetic advance for most of the traits suggested the feasibility of selection among the RILs under investigation. Some RILs were higher yielding than either parent at both environments.

Keywords: Wheat, genetic gain, heritability, recombinant inbred lines.

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Authors: Mona Heydari, Ehsan Motamedian, Seyed Abbas Shojaosadati

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Prediction of perturbations after genetic manipulation (especially gene knockout) is one of the important challenges in systems biology. In this paper, a new algorithm is introduced that integrates microarray data into the metabolic model. The algorithm was used to study the change in the cell phenotype after knockout of Gss gene in Escherichia coli BW25113. Algorithm implementation indicated that gene deletion resulted in more activation of the metabolic network. Growth yield was more and less regulating gene were identified for mutant in comparison with the wild-type strain.

Keywords: Metabolic network, gene knockout, flux balance analysis, microarray data, integration.

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Authors: S. Wongkoon, M. Jaroensutasinee, K. Jaroensutasinee, W. Preechaporn, S. Chumkiew

Abstract:

This study investigated the number of Aedes larvae, the key breeding sites of Aedes sp., and the relationship between climatic factors and the incidence of DHF in Samui Islands. We conducted our questionnaire and larval surveys from randomly selected 105 households in Samui Islands in July-September 2006. Pearson-s correlation coefficient was used to explore the primary association between the DHF incidence and all climatic factors. Multiple stepwise regression technique was then used to fit the statistical model. The results showed that the positive indoor containers were small jars, cement tanks, and plastic tanks. The positive outdoor containers were small jars, cement tanks, plastic tanks, used cans, tires, plastic bottles, discarded objects, pot saucers, plant pots, and areca husks. All Ae. albopictus larval indices (i.e., CI, HI, and BI) were higher than Ae. aegypti larval indices in this area. These larval indices were higher than WHO standard. This indicated a high risk of DHF transmission at Samui Islands. The multiple stepwise regression model was y = –288.80 + 11.024xmean temp. The mean temperature was positively associated with the DHF incidence in this area.

Keywords: Dengue vectors, Aedes aegypti, Aedes albopictus, Container Index, House Index, Breteau Index, Aedes indices, Climatic factors, Temperature.

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Authors: U. Kairov, T. Karpenyuk, E. Ramanculov, A. Zinovyev

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The most common result of analysis of highthroughput data in molecular biology represents a global list of genes, ranked accordingly to a certain score. The score can be a measure of differential expression. Recent work proposed a new method for selecting a number of genes in a ranked gene list from microarray gene expression data such that this set forms the Optimally Functionally Enriched Network (OFTEN), formed by known physical interactions between genes or their products. Here we present calculation results of relative connectivity of genes from META-OFTEN network and tentative biological interpretation of the most reproducible signal. The relative connectivity and inbetweenness values of genes from META-OFTEN network were estimated.

Keywords: Microarray, META-OFTEN, gene network.

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Authors: Nazar Zaki, Safaai Deris, Hany Alashwal

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Detecting protein-protein interactions is a central problem in computational biology and aberrant such interactions may have implicated in a number of neurological disorders. As a result, the prediction of protein-protein interactions has recently received considerable attention from biologist around the globe. Computational tools that are capable of effectively identifying protein-protein interactions are much needed. In this paper, we propose a method to detect protein-protein interaction based on substring similarity measure. Two protein sequences may interact by the mean of the similarities of the substrings they contain. When applied on the currently available protein-protein interaction data for the yeast Saccharomyces cerevisiae, the proposed method delivered reasonable improvement over the existing ones.

Keywords: Protein-Protein Interaction, support vector machine, feature extraction, pairwise alignment, Smith-Waterman score.

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Authors: Yayun Hsu, Henry Horng-Shing Lu

Abstract:

This paper proposes a data-driven, biology-inspired neural segmentation method of 3D drosophila Brainbow images. We use Bayesian Sequential Partitioning algorithm for probabilistic modeling, which can be used to detect somas and to eliminate crosstalk effects. This work attempts to develop an automatic methodology for neuron image segmentation, which nowadays still lacks a complete solution due to the complexity of the image. The proposed method does not need any predetermined, risk-prone thresholds, since biological information is inherently included inside the image processing procedure. Therefore, it is less sensitive to variations in neuron morphology; meanwhile, its flexibility would be beneficial for tracing the intertwining structure of neurons.

Keywords: Brainbow, 3D imaging, image segmentation, neuron morphology, biological data mining, non-parametric learning.

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