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Wheat research and breeding in the new era of a high-quality reference genome

Rudi APPELS

《农业科学与工程前沿（英文）》 2019年 第6卷 第3期   页码 225-232 doi: 10.15302/J-FASE-2019265

摘要：

The publications of the International Wheat Genome Sequencing Consortium (IWGSC) released in August 2018 are reviewed and placed into the context of developments arising from the availability of the high-quality wheat genome assembly.

关键词： assembly technology     molecular markers     polyploidy     transcript networks     wheat genome    

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Novel interpretable mechanism of neural networks based on network decoupling method

《工程管理前沿（英文）》 2021年 第8卷 第4期   页码 572-581 doi: 10.1007/s42524-021-0169-x

摘要： The lack of interpretability of the neural network algorithm has become the bottleneck of its wide application. We propose a general mathematical framework, which couples the complex structure of the system with the nonlinear activation function to explore the decoupled dimension reduction method of high-dimensional system and reveal the calculation mechanism of the neural network. We apply our framework to some network models and a real system of the whole neuron map of Caenorhabditis elegans. Result shows that a simple linear mapping relationship exists between network structure and network behavior in the neural network with high-dimensional and nonlinear characteristics. Our simulation and theoretical results fully demonstrate this interesting phenomenon. Our new interpretation mechanism provides not only the potential mathematical calculation principle of neural network but also an effective way to accurately match and predict human brain or animal activities, which can further expand and enrich the interpretable mechanism of artificial neural network in the future.

关键词： neural networks     interpretability     dynamical behavior     network decouple    

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FUNCTIONAL GAIN OF FRUIT NETTED-CRACKING IN AN INTROGRESSION LINE OF TOMATO WITH HIGHER EXPRESSION OF THE FNC GENE

《农业科学与工程前沿（英文）》 2021年 第8卷 第2期

摘要：

Fruit cracking is a major disorder that affects the integrity of fruit and reduces the commercial value of tomato and other fleshy fruit. Here, we have found a novel fruit ‘netted-cracking’ (FNC) phenotype in tomato introgression line IL4-4 which is present in neither the donor parent (LA0716) nor the receptor parent (M82). An F2 population was generated by crossing IL4-4 with M82 to genetically characterize the FNC gene and this showed that a single dominant gene determined fruit netted-cracking. Further map-based cloning narrowed down the FNC locus to a 230 kb region on chromosome 4. Sequencing and annotation analysis show that FNC(Solyc04 g082540) was the most likely candidate gene. Functional characterization of FNC by overexpressing FNCAC and FNCIL4-4resulted in the fruit netted-cracking phenotype, suggesting that the FNC transcript level results in the functional gain of fruit netted-cracking. These findings were further confirmed by FNC ortholog in netted-cracking pepper and melon, indicating a common regulatory mechanism in different plant species. Furthermore, cytoplasm and nucleus-localized FNC indicates increased expression of genes involved in suberin, lignin, lipid transport and cell wall metabolism. These findings provide novel genetic insights into fruit netted-cracking and offer a way to promote molecular improvement toward cracking resistant cultivars.

 

关键词： fine mapping / fruit netted-cracking / introgression line / transcript level    

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Factors affecting early embryonic development in cattle: relevance for bovine cloning

Yanna DANG, Kun ZHANG

《农业科学与工程前沿（英文）》 2019年 第6卷 第1期   页码 33-41 doi: 10.15302/J-FASE-2018228

摘要：

Female infertility represents a major challenge for improving the production efficiency in the dairy industry. Historically, fertility has declined whereas milk yield has increased tremendously due to intensive genetic selection. evidence reveals about 60% pregnancy loss takes place during the first month following fertilization. Meanwhile, early embryo development is significant for somatic cell nuclear transfer in cattle as a large proportion of cloned embryos fail to develop beyond peri-implantation stage. Oocyte quality is of utmost importance for the early embryo to develop to term for both fertilized and cloned embryos. Epigenetic reprogramming is a key process occurring after fertilization and critical roles of epigenetic modifiers during preimplantation development are now clear. Incomplete epigenetic reprogramming is believed to be a major limitation to cloning efficiency. Treatment of cloned embryos with epigenetic modifying drugs (e.g., Trichostatin A) could greatly improve cloning efficiency in both mice and cattle. Recently, the rapid progress in high-throughput sequencing technologies has enabled detailed deciphering of the molecular mechanisms underlying these events. The robust efficiency of genomic editing tools also presents an alternative approach to the functional annotation of genes critical to early development.

关键词： bovine cloning     embryo development     somatic cell nuclear transfer     X-inactive specific transcript    

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Capacity analysis for cognitive heterogeneous networks with ideal/non-ideal sensing

Tao HUANG, Ying-lei TENG, Meng-ting LIU, Jiang LIU

《信息与电子工程前沿（英文）》 2015年 第16卷 第1期   页码 1-11 doi: 10.1631/FITEE.1400129

摘要： Due to irregular deployment of small base stations (SBSs), the interference in cognitive heterogeneous networks (CHNs) becomes even more complex; in particular, the uncertainty of spectrum mobility aggravates the interference context. In this case, how to analyze system capacity to obtain a closed-form expression becomes a crucial problem. In this paper we employ stochastic methods to formulate the capacity of CHNs and achieve a closed-form expression. By using discrete-time Markov chains (DTMCs), the spectrum mobility with respect to the arrival and departure of macro base station (MBS) users is modeled. Then an integral method is proposed to derive the interference based on stochastic geometry (SG). Also, the effect of sensing accuracy on network capacity is discussed by concerning false-alarm and miss-detection events. Simulation results are illustrated to show that the proposed capacity analysis method for CHNs can approximate the conventional sum methods without rigorous requirement for channel station information (CSI). Therefore, it turns out to be a feasible and efficient way to capture the network capacity in CHNs.

关键词： Cognitive heterogeneous networks     Markov chain     Stochastic geometry     Homogeneous Poisson point process (HPPP)    

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渠网恒定流及非恒定流数学模型的研究及应用

张明亮,沈永明

《中国工程科学》 2007年 第9卷 第8期   页码 92-96

摘要：

从求解一维圣维南方程组的Preissmann 4点隐式差分格式出发, 建立了一维河网及渠网数学模型，并对计算中所涉及的一些关键技术问题进行了较为详细的阐述。利用模型对树状渠网的恒定流及复杂的环状渠网和河网的非恒定流对模型进行验证。验证结果表明，水位和流量过程计算值与Islam的计算值吻合较好，各渠道的流量分配计算结果精度也较高，为河网及渠网的水量调度提供了一个较为简便实用的工具，为建立渠网及河网的综合水质生态数学模型打下基础。

关键词： Preissmann格式     渠网及河网     流量分配     水质模型    

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Evaluation of the situational awareness effects for smart distribution networks under the novel

Leijiao GE, Yuanliang LI, Suxuan LI, Jiebei ZHU, Jun YAN

《能源前沿（英文）》 2021年 第15卷 第1期   页码 143-158 doi: 10.1007/s11708-020-0703-2

摘要： As a key application of smart grid technologies, the smart distribution network (SDN) is expected to have a high diversity of equipment and complexity of operation patterns. Situational awareness (SA), which aims to provide a critical visibility of the SDN, will enable a significant assurance for stable SDN operations. However, the lack of systematic evaluation through the three stages of perception, comprehensive, and prediction may prevent the SA technique from effectively achieving the performance necessary to monitor and respond to events in SDN. To analyze the feasibility and effectiveness of the SA technique for the SDN, a comprehensive evaluation framework with specific performance indicators and systematic weighting methods is proposed in this paper. Besides, to implement the indicator framework while addressing the key issues of human expert scoring ambiguity and the lack of data in specific SDN areas, an improved interval-based analytic hierarchy process-based subjective weighting and a multi-objective programming method-based objective weighting are developed to evaluate the SDN SA performance. In addition, a case study in a real distribution network of Tianjin China is conducted whose outcomes verify the practicality and effectiveness of the proposed SA technique for SDN operating security.

关键词： distribution networks     operation and maintenance     expert systems    

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Predicting the yield of pomegranate oil from supercritical extraction using artificial neural networks

J. Sargolzaei, A. Hedayati Moghaddam

《化学科学与工程前沿（英文）》 2013年 第7卷 第3期   页码 357-365 doi: 10.1007/s11705-013-1336-3

摘要： Various simulation tools were used to develop an effective intelligent system to predict the effects of temperature and pressure on an oil extraction yield. Pomegranate oil was extracted using a supercritical CO (SC-CO ) process. Several simulation systems including a back-propagation neural network (BPNN), a radial basis function neural network (RBFNN) and an adaptive-network-based fuzzy inference system (ANFIS) were tested and their results were compared to determine the best predictive model. The performance of these networks was evaluated using the coefficient of determination ( ) and the mean square error (MSE). The best correlation between the predicted and the experimental data was achieved using the BPNN method with an of 0.9948.

关键词： oil recovery     artificial intelligence     extraction     neural networks     supercritical extraction    

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The use of Artificial Neural Networks to estimate seismic damage and derive vulnerability functions for

Tiago Miguel FERREIRA, João ESTÊVÃO, Rui MAIO, Romeu VICENTE

《结构与土木工程前沿（英文）》 2020年 第14卷 第3期   页码 609-622 doi: 10.1007/s11709-020-0623-6

摘要： This paper discusses the adoption of Artificial Intelligence-based techniques to estimate seismic damage, not with the goal of replacing existing approaches, but as a mean to improve the precision of empirical methods. For such, damage data collected in the aftermath of the 1998 Azores earthquake (Portugal) is used to develop a comparative analysis between damage grades obtained resorting to a classic damage formulation and an innovative approach based on Artificial Neural Networks (ANNs). The analysis is carried out on the basis of a vulnerability index computed with a hybrid seismic vulnerability assessment methodology, which is subsequently used as input to both approaches. The results obtained are then compared with real post-earthquake damage observation and critically discussed taking into account the level of adjustment achieved by each approach. Finally, a computer routine that uses the ANN as an approximation function is developed and applied to derive a new vulnerability curve expression. In general terms, the ANN developed in this study allowed to obtain much better approximations than those achieved with the original vulnerability approach, which has revealed to be quite non-conservative. Similarly, the proposed vulnerability curve expression was found to provide a more accurate damage prediction than the traditional analytical expressions.

关键词： Artificial Neural Networks     seismic vulnerability     masonry buildings     damage estimation     vulnerability curves    

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Exploring self-organization and self-adaption for smart manufacturing complex networks

《工程管理前沿（英文）》 2023年 第10卷 第2期   页码 206-222 doi: 10.1007/s42524-022-0225-1

摘要： Trends toward the globalization of the manufacturing industry and the increasing demands for small-batch, short-cycle, and highly customized products result in complexities and fluctuations in both external and internal manufacturing environments, which poses great challenges to manufacturing enterprises. Fortunately, recent advances in the Industrial Internet of Things (IIoT) and the widespread use of embedded processors and sensors in factories enable collecting real-time manufacturing status data and building cyber–physical systems for smart, flexible, and resilient manufacturing systems. In this context, this paper investigates the mechanisms and methodology of self-organization and self-adaption to tackle exceptions and disturbances in discrete manufacturing processes. Specifically, a general model of smart manufacturing complex networks is constructed using scale-free networks to interconnect heterogeneous manufacturing resources represented by network vertices at multiple levels. Moreover, the capabilities of physical manufacturing resources are encapsulated into virtual manufacturing services using cloud technology, which can be added to or removed from the networks in a plug-and-play manner. Materials, information, and financial assets are passed through interactive links across the networks. Subsequently, analytical target cascading is used to formulate the processes of self-organizing optimal configuration and self-adaptive collaborative control for multilevel key manufacturing resources while particle swarm optimization is used to solve local problems on network vertices. Consequently, an industrial case based on a Chinese engine factory demonstrates the feasibility and efficiency of the proposed model and method in handling typical exceptions. The simulation results show that the proposed mechanism and method outperform the event-triggered rescheduling method, reducing manufacturing cost, manufacturing time, waiting time, and energy consumption, with reasonable computational time. This work potentially enables managers and practitioners to implement active perception, active response, self-organization, and self-adaption solutions in discrete manufacturing enterprises.

关键词： cyber–physical systems     Industrial Internet of Things     smart manufacturing complex networks     self-organization and self-adaption     analytical target cascading     collaborative optimization    

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An overview of the reliability metrics for power grids and telecommunication networks

《工程管理前沿（英文）》 2021年 第8卷 第4期   页码 531-544 doi: 10.1007/s42524-021-0167-z

摘要： Power grids deliver energy, and telecommunication networks transmit information. These two facilities are critical to human society. In this study, we conduct a comprehensive overview of the development of reliability metrics for power grids and telecommunication networks. The main purpose of this review is to promote and support the formulation of communication network reliability metrics with reference to the development of power grid reliability. We classify the metrics of power grid into the reliability of power distribution and generation/transmission and the metrics of telecommunication network into connectivity-based, performance-based, and state-based metrics. Then, we exhibit and discuss the difference between the situations of the reliability metrics of the two systems. To conclude this study, we conceive a few topics for future research and development for telecommunication network reliability metrics.

关键词： reliability     metrics     power grids     telecommunication networks    

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Aslotted floor acquisitionmultiple access based MACprotocol for underwater acoustic networks withRTS

Liang-fang QIAN,Sen-lin ZHANG,Mei-qin LIU

《信息与电子工程前沿（英文）》 2015年 第16卷 第3期   页码 217-226 doi: 10.1631/FITEE.1400187

摘要： Long propagation delay, limited bandwidth, and high bit error rate pose great challenges in media access control (MAC) protocol design for underwater acoustic networks. A MAC protocol called slotted floor acquisition multiple access (slotted-FAMA) suitable for underwater acoustic networks is proposed and analyzed. This FAMA based protocol adds a time slot mechanism to avoid DATA packet collisions. However, slotted-FAMA is not suitable for dense networks since the multiple request-to-send (RTS) attempts problem in dense networks is serious and greatly limits the network throughput. To overcome this drawback, this paper proposes a slotted-FAMA based MAC protocol for underwater acoustic networks, called RC-SFAMA. RC-SFAMA introduces an RTS competition mechanism to keep the network from high frequency of backoff caused by the multiple RTS attempts problem. Via the RTS competition mechanism, useful data transmission can be completed successfully when the situation of multiple RTS attempts occurs. Simulation results show that RC-SFAMA increases the network throughput efficiency as compared with slotted-FAMA, and minimizes the energy consumption.

关键词： Underwater acoustic networks     Medium access control (MAC)     Request-to-send (RTS) competition     Throughput     Energy consumption    

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METABOLIC AND TRANSCRIPTOME ANALYSIS REVEALS METABOLITE VARIATION AND FLAVONOID REGULATORY NETWORKS IN

《农业科学与工程前沿（英文）》 2021年 第8卷 第2期

摘要：

Metabolites, especially secondary metabolites, are very important in the adaption of tea plants and the quality of tea products. Here, we focus on the seasonal variation in metabolites of fresh tea shoots and their regulatory mechanism at the transcriptional level. The metabolic profiles of fresh tea shoots of 10 tea accessions collected in spring, summer, and autumn were analyzed using ultra-performance liquid chromatography coupled with quadrupole-obitrap mass spectrometry. We focused on the metabolites and key genes in the phenylpropanoid/flavonoid pathway integrated with transcriptome analysis. Multivariate statistical analysis indicates that metabolites were distinctly different with seasonal alternation. Flavonoids, amino acids, organic acids and alkaloids were the predominant metabolites. Levels of most key genes and downstream compounds in the flavonoid pathway were lowest in spring but the catechin quality index was highest in spring. The regulatory pathway was explored by constructing a metabolite correlation network and a weighted gene co-expression network.

 

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Visualization of force networks in 2D dense granular materials

Jianguo LIU, Qicheng SUN, Feng JIN,

《结构与土木工程前沿（英文）》 2010年 第4卷 第1期   页码 109-115 doi: 10.1007/s11709-010-0003-8

摘要： Dense granular matter is a conglomeration of discrete solid and closely packed particles. As subjected to external loadings, the stress is largely transmitted by heavily stressed chains of particles forming a sparse network of larger contact forces. To understand the structure and evolution of force chains, a photoelastic technique was improved for determining stresses and strains in the assemblies of photoelastic granular disks in this paper. A two-dimensional vertical slab was designed. It contains 7200 polydispersed photoelastic disks and is subjected to a localized probe penetrating at the top of the slab to mimic the cone penetration test. The interparticle contact force distribution was found a peak around the mean value, a roughly exponential tail for greater force and a dip toward zero for smaller force. The force chain network around the probe tip was depicted, and the contact angle distribution of particles in force chains was found to be well aligned in the directions of major principal stress.

关键词： granular matter     force chain     multiscale modeling    

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标题 作者 时间 类型 操作

Wheat research and breeding in the new era of a high-quality reference genome

Rudi APPELS

期刊论文

Novel interpretable mechanism of neural networks based on network decoupling method

期刊论文

FUNCTIONAL GAIN OF FRUIT NETTED-CRACKING IN AN INTROGRESSION LINE OF TOMATO WITH HIGHER EXPRESSION OF THE FNC GENE

期刊论文

Factors affecting early embryonic development in cattle: relevance for bovine cloning

Yanna DANG, Kun ZHANG

期刊论文

Capacity analysis for cognitive heterogeneous networks with ideal/non-ideal sensing

Tao HUANG, Ying-lei TENG, Meng-ting LIU, Jiang LIU

期刊论文

渠网恒定流及非恒定流数学模型的研究及应用

张明亮,沈永明

期刊论文

Evaluation of the situational awareness effects for smart distribution networks under the novel

Leijiao GE, Yuanliang LI, Suxuan LI, Jiebei ZHU, Jun YAN

期刊论文

Predicting the yield of pomegranate oil from supercritical extraction using artificial neural networks

J. Sargolzaei, A. Hedayati Moghaddam

期刊论文

The use of Artificial Neural Networks to estimate seismic damage and derive vulnerability functions for

Tiago Miguel FERREIRA, João ESTÊVÃO, Rui MAIO, Romeu VICENTE

期刊论文

董朝阳：Interpretable Memristive-LSTM Networks for Probabilistic Power System Forecasting（2022年6月6日）

2022年07月07日

会议视频

Exploring self-organization and self-adaption for smart manufacturing complex networks

期刊论文

An overview of the reliability metrics for power grids and telecommunication networks

期刊论文

Aslotted floor acquisitionmultiple access based MACprotocol for underwater acoustic networks withRTS

Liang-fang QIAN,Sen-lin ZHANG,Mei-qin LIU

期刊论文

METABOLIC AND TRANSCRIPTOME ANALYSIS REVEALS METABOLITE VARIATION AND FLAVONOID REGULATORY NETWORKS IN

期刊论文

Visualization of force networks in 2D dense granular materials

Jianguo LIU, Qicheng SUN, Feng JIN,

期刊论文