Abstract Identifying crucial nodes in complex networks is paid more attention in recent years. Some classical methods, such as degree centrality, betweenness centrality and closeness centrality, have their advantages and disadvantages. Recently, the gravity model is applied to describe the relationship of nodes in a complex network. However, the interaction force in gravity model follows the square law of distance, which is inconsistent with the actual situation. Most people are generally affected by those who are surrounding them, which means that local influence should be emphasized. To address this issue, we propose an indexing method called localized decreasing gravity centrality by maximizing the local influence of a node. In the proposed measure, the mass and radius of gravity model are redefined, which can represent the spreading ability of the node. In addition, a decreasing weight is added to strengthen the local influence of a node. To evaluate the performance of the proposed method, we utilize four different types of networks, including interaction networks, economic networks, collaboration networks and animal social networks. Also, two different infectious disease models, susceptible-infectious-recovered (SIR) and susceptible-exposed-low risk-high risk-recovered (SELHR), are utilized to examine the spreading ability of influential nodes.

High volumes of real-time energy consumption data are generated by smart meters each day, which may create tremendous values if shared to third parties, e.g., government agencies, real estate agents, and travel agencies, etc. However, significant security and privacy challenges are always in place in case these sensitive digital assets are directly shared outside the grid utilities without any protection. It is, therefore, vital to guarantee the data security and privacy while maintaining its values. To meet this gap, in this paper we propose a secure and efficient data sharing scheme with anti-collusion for smart grids. In this scheme, we devise a privacy-preserving data acquisition algorithm for smart meters based on a modified Paillier cryptosystem, and also an anti-collusion proxy re-encryption algorithm for the control center & cloud server to achieve secure energy consumption data sharing of its mean and variance. Importantly, the proposed scheme is also designed to support customer identity preservation while requesting data sharing services. Security analysis strictly demonstrate the security of the proposed scheme, and extensive experiments validate the high efficiency of the proposed scheme.

The immense therapeutic and economic values of medicinal plants have attracted increasing attention from the worldwide researchers. It has been recognized that production of the authentic and high-quality herbal drugs became the prerequisite for maintaining the healthy development of the traditional medicine industry. To this end, intensive research efforts have been devoted to the basic studies, in order to pave a way for standardized authentication of the plant materials, and bioengineering of the metabolic pathways in the medicinal plants. In this paper, the recent advances of omics studies on the medicinal plants were summarized from several aspects, including phenomics and taxonomics, genomics, transcriptomics, proteomics and metabolomics. We proposed a multi-omics data-based workflow for medicinal plant research. It was emphasized that integration of the omics data was important for plant authentication and mechanistic studies on plant metabolism. Additionally, the computational tools for proper storage, efficient processing and high-throughput analyses of the omics data have been introduced into the workflow. According to the workflow, authentication of the medicinal plant materials should not only be performed at the phenomics level but also be implemented by genomic and metabolomic marker-based examination. On the other hand, functional genomics studies, transcriptional regulatory networks and protein-protein interactions will contribute greatly for deciphering the secondary metabolic pathways. Finally, we hope that our work could inspire further efforts on the bioinformatics-assisted, integrated omics studies on the medicinal plants.

Most of the microRNAs (miRNAs) play their regulatory roles through posttranscriptional target decay or translational inhibition. For both plants and animals, these regulatory events were previously considered to take place in cytoplasm, as mature miRNAs were observed to be exported to the cytoplasm for Argonaute (AGO) loading and subsequent target binding. Recently, this notion was challenged by increasing pieces of evidence in the animal cells that uncovered the nuclear importation and action of the AGO-associated miRNAs. The nuclear-localized regulatory mode was also reported for the plant miRNAs. However, evidence is still lacking to show the universality and conservation of the miRNA-mediated regulation in the plant nuclei. Here, we introduced a bioinformatics workflow for genome-wide investigation of miRNA-guided, cleavage-based regulation of the nascent nuclear transcripts. Facilitated by the tool package PmiRNTSA (Plant microRNA-mediated nascent transcript slicing analyzer), plant biologists could perform a comprehensive search for the miRNA slicing sites located within the introns or the exon-intron/intron-exon junctions of the target transcripts, which are supported by degradome sequencing data. The results enable the researchers to examine the co-transcriptional regulatory model of the miRNAs for a specific plant species. Moreover, a case study was performed to search for the slicing sites located within the exon-intron/intron-exon junctions in two model plants. A case study was performed to show the feasibility and reliability of our workflow. Together, we hope that this work could inspire much more innovative research efforts to expand the current understanding of the miRNA action modes in plants.

High-throughput sequencing (HTS) has opened up a new era for small RNA (sRNA) exploration. Using HTS data for a global survey of sRNAs in 26 angiosperms, elevated GC contents were detected in the monocots, whereas the 5(')-terminal compositions were quite uniform among the angiosperms. Chromosome-wide distribution patterns of sRNAs were investigated by using scrolling-window analysis. We performed de novo natural antisense transcript (NAT) prediction, and found that the overlapping regions of trans-NATs, but not cis-NATs, were hotspots for sRNA generation. One cis-NAT generates phased natural antisense short interfering RNAs (nat-siRNAs) specifically from flowers in Arabidopsis, while one in rice produces phased nat-siRNAs from grains, suggesting their organ-specific regulatory roles.