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      • KCI등재

        EpiSIM: simulation of multiple epistasis, linkage disequilibrium patterns and haplotype blocks for genome-wide interaction analysis

        Junliang Shang,Junying Zhang,Xiujuan Lei,Wenying Zhao,Yafei Dong 한국유전학회 2013 Genes & Genomics Vol.35 No.3

        Epistasis is a ubiquitous phenomenon in genetics,and is considered to be one of the main factors in current efforts to detect missing heritability for complex diseases. Simulation is a critical tool in developing methodologies that can more effectively detect and study epistasis. Here we present a simulator, epiSIM (epistasis SIMulator), that can simulate some of the statistical properties of genetic data. EpiSIM is capable of expanding the range of the epistasis models that current simulators offer, including epistasis models that display marginal effects and those that display no marginal effects. One or more of these epistasis models can be embedded simultaneously into a single simulation data set, jointly determining the phenotype. In addition,epiSIM is independent of any outside data source in generating linkage disequilibrium patterns and haplotype blocks. We demonstrate the wide applicability of epiSIM by performing several data simulations, and examine its properties by comparing it with current representative simulators and by comparing the data that it generates with real data. Our experiments demonstrate that epiSIM is a valuable addition and a nice complement to the existing epistasis simulators. The software package is available online at https://sourceforge.net/projects/episimsimulator/files/.

      • KCI등재

        A mode transition strategy from air to oxyfuel combustion in a 35MW coal-fired power plant boiler

        Zixue Luo,Wenfeng Cheng,Bo Wu,Yongchun Zhao,Junying Zhang 한국화학공학회 2017 Korean Journal of Chemical Engineering Vol.34 No.5

        The atmosphere under the conditions of a coal combustion reaction in the furnace is the factor that makes the most significant difference during mode transition from traditional air to oxy-fuel combustion. The flue gas is adopted as the primary air and secondary air for pulverized-coal conveying and the support of combustion; it has a high carbon dioxide concentration during the oxy-fuel combustion. The air-leakage reduces CO2 enrichment and leads to thermal NOx production. A control strategy of this shift operation is conducted in a 35MW oxy-fuel combustion power plant boiler by adjusting the furnace pressure, regulating the recirculation rate of the flue gas and amending the oxygen concentration in the inlet stream. The furnace pressure can be changed smoothly and stabilized at a micro-positive level as the pressurized air flow is monitored at a suitable range. The combustion-supporting flue gas is modified by the oxygen content in the furnace outlet, and the circulation rate of the flue gas verifies the regulation process. Results show that the CO2 concentration in the flue gas can be rapidly increased along with the increment of furnace pressure and oxygen in the inlet stream; then, this procedure gradually becomes flattened. The CO2 content in the flue gas correlates with the recirculation rate of the flue gas and oxygen concentration in the inlet stream. The two operation parameters should be maintained at a high CO2 concentration in a range from 0.6-0.7 and 29.5%-30.5%, respectively. Sampling analysis shows that SO2 and NOx emissions were 26 (±1.5) mg/MJ and 90 (±11.7) mg/MJ in air condition, 14 (±0.4) mg/MJ and 34 (±1.6) mg/MJ in oxy-fuel combustion; the burnout rate, mechanical losses of incomplete combustion and the unburned carbon rate remained similar at these two stable combustion modes. This mode transition scheme should provide a reference for monitoring and diagnostics, design and operation control of an oxygen-enriched pulverized-coal combustion power plant boiler.

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        Genome-wide identification of drought-responsive microRNAs and their target genes in Chinese jujube by deep sequencing

        Zhang Luhe,Li Yi,Yang Jiangwei,Huang Huali,Lu Qian,Zhao Junying,Wang Fang,Wang Duofeng 한국유전학회 2023 Genes & Genomics Vol.45 No.2

        Background MicroRNAs (miRNAs) are about 21 snucleotide (nt) long, non-coding RNAs that play an important role in plant abiotic stress responses. Chinese jujube is a native fruit tree in China, which is also an admittedly drought-resistant plant. But the drought-related miRNAs have little been reported in jujube. Objective To identify possibly drought-responsive microRNAs and their target genes in Chinese Jujube. Methods Twelve small RNA libraries were constructed from two jujube genotypes both drought treated and control samples with three replicates to identify known and novel miRNAs in Chinese Jujube, DESeq2 was used to identify expression pattern of miRNAs between drought treatment and control samples, TargetFinder program was used to predict potential target genes of conserved and novel miRNAs, RT-qPCR were used to analysis the expression levels of drought-related miRNAs and their potential targets. The RNA ligase-mediated RLM-5′ RACE experiments were performed to validate predicted target genes of drought-related miRNAs. Results 43 known miRNAs and 431 novel miRNAs were identified in Chinese jujube. Expression analysis showed that 28 miRNAs were differential expressed under drought stress in jujube variety “Dongzao”, including 21 up-regulated miRNAs and 7 down-regulated miRNAs, 61 miRNAs were differential expressed under drought stress in Chinese jujube variety “Zanhuangdazao”, including 23 up-regulated miRNAs and 37 down-regulated miRNAs. Depend on miRNAs target prediction, functional annotation and expression analysis, we identified 9 drought-related miRNAs, and 7 target genes of 6 miRNAs were confirmed using the modified 5′-RACE method. Also, RT-qPCR analyses revealed that relative expression of those miRNAs and their targets have negative tendency. Conclusion We identified 6 drought-related miRNAs by high-throughout sequencing and target gene annotation from Chinese jujube, and targets of those miRNAs were confirmed by the modified 5′-RACE method. These findings provide molecular evidence for enhancing drought tolerance in Chinese jujube and other plants.

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