Community Discovery in Weighted Networks Based on the Similarity of Common Neighbors

Miaomiao Liu,Jingfeng Guo,Jing Chen 한국정보처리학회 2019 Journal of information processing systems Vol.15 No.5

In view of the deficiencies of existing weighted similarity indexes, a hierarchical clustering method initializeexpand-merge (IEM) is proposed based on the similarity of common neighbors for community discovery inweighted networks. Firstly, the similarity of the node pair is defined based on the attributes of their commonneighbors. Secondly, the most closely related nodes are fast clustered according to their similarity to form initialcommunities and expand the communities. Finally, communities are merged through maximizing themodularity so as to optimize division results. Experiments are carried out on many weighted networks, whichhave verified the effectiveness of the proposed algorithm. And results show that IEM is superior to weightedcommon neighbor (CN), weighted Adamic-Adar (AA) and weighted resources allocation (RA) when usingthe weighted modularity as evaluation index. Moreover, the proposed algorithm can achieve more reasonablecommunity division for weighted networks compared with cluster-recluster-merge-algorithm (CRMA)algorithm.

Community Discovery in Weighted Networks Based on the Similarity of Common Neighbors

Liu, Miaomiao,Guo, Jingfeng,Chen, Jing Korea Information Processing Society 2019 Journal of information processing systems Vol.15 No.5

In view of the deficiencies of existing weighted similarity indexes, a hierarchical clustering method initialize-expand-merge (IEM) is proposed based on the similarity of common neighbors for community discovery in weighted networks. Firstly, the similarity of the node pair is defined based on the attributes of their common neighbors. Secondly, the most closely related nodes are fast clustered according to their similarity to form initial communities and expand the communities. Finally, communities are merged through maximizing the modularity so as to optimize division results. Experiments are carried out on many weighted networks, which have verified the effectiveness of the proposed algorithm. And results show that IEM is superior to weighted common neighbor (CN), weighted Adamic-Adar (AA) and weighted resources allocation (RA) when using the weighted modularity as evaluation index. Moreover, the proposed algorithm can achieve more reasonable community division for weighted networks compared with cluster-recluster-merge-algorithm (CRMA) algorithm.

Investigate the Effect of Potassium on Nodule Symbiosis and Uncover an HAK/KUP/KT Member, GmHAK5, Strongly Responsive to Root Nodulation in Soybean

Liu Jianjian,Liu Jinhui,Cui Miaomiao,Chen Xiao,Liu Junli,Chen Jiadong,Chen Aiqun,Xu Guohua 한국식물학회 2022 Journal of Plant Biology Vol.65 No.6

Leguminous plants form root nodule organs with soil rhizobia bacteria, which can fix atmospheric nitrogen (N2) and supply ammonia to the host plant. It is established that the symbiotic N fixation efficiency is substantially influenced by plant nutrients, such as molybdenum (Mo), phosphorus (P), copper (Cu), and zinc (Zn). Potassium (K+) is the most abundant cation in plant cells; however, little evidence regarding the potential link between K nutrition and symbiotic N fixation efficiency is available to date. Here, we showed that K+ deficiency reduced the efficiency of symbiotic nitrogen fixation, and inoculated with rhizobia strain USDA110 could improve plant K+ acquisition. Furthermore, we identified a potassium transporter gene (GmHAK5) that was highly expressed in the root steles and in the vasculature cells of nodules. The GmHAK5 protein was localized at the plasma membrane and could rescue the growth phenotype of yeast K+ uptake-defective mutant. The results obtained from this study provides new insights for the understanding of the potential role of K+ nutrition in modulating symbiotic N fixation in soybean.

Experimental and numerical study on pre-peak cyclic shear mechanism of artificial rock joints

Xinrong Liu,Yongquan Liu,Yuming Lu,Miaomiao Kou 국제구조공학회 2020 Structural Engineering and Mechanics, An Int'l Jou Vol.74 No.3

The pre-peak cyclic shear mechanism of two-order asperity degradation of rock joints in the direct shear tests with static constant normal loads (CNL) are investigated using experimental and numerical methods. The laboratory testing rock specimens contains the idealized and regular two-order triangular-shaped asperities, which represent the specific geometrical conditions of natural and irregular waviness and unevenness of rock joint surfaces, in the pre-peak cyclic shear tests. Three different shear failure patterns of two-order triangular-shaped rock joints can be found in the experiments at constant horizontal shear velocity and various static constant normal loads in the direct and pre-peak cyclic shear tests. The discrete element method is adopted to simulate the pre-peak shear failure behaviors of rock joints with two-order triangular-shaped asperities. The rock joint interfaces are simulated using a modified smooth joint model, where microscopic scale slip surfaces are applied at contacts between discrete particles in the upper and lower rock blocks. Comparing the discrete numerical results with the experimental results, the microscopic bond particle model parameters are calibrated. Effects of cyclic shear loading amplitude, static constant normal loads and initial waviness asperity angles on the pre-peak cyclic shear failure behaviors of triangular-shaped rock joints are also numerically investigated.

Fasting Blood Glucose, Cholesterol, and Risk of Primary Liver Cancer: The Kailuan Study

Xiangming Ma,Haozhe Cui,Miaomiao Sun,Qian Liu,Xining Liu,Guangjian Li,Yaochen Wei,Qingjiang Fu,Siqing Liu,Liying Cao 대한암학회 2021 Cancer Research and Treatment Vol.53 No.4

Purpose The influence of fasting blood glucose (FBG) and cholesterolemia primary liver cancer (PLC) in China was analyzed via a large prospective cohort study based on a community population, and the combined effects between them were investigated. Materials and Methods Overall, 98,936 staff from the Kailuan Group who participated in and finished physical examinations bet-ween 2006 and 2007 were included in the cohort study. Their medical information was collected and they were followed up after examination. The correlations of serum FBG or total cholesterol (TC) with PLC were analyzed. Then, we categorized all staff into four groups: normal FBG/non-hypocholesterolemia, normal FBG/hypocholesterolemia, elevated FBG/non-hypocholesterolemia, elevated FBG/hypocholesterolemia, and normal FBG/non-hypocholesterolemia was used as a control group. The combined effects of elevated FBG and hypocholesterolemia with PLC were analyzed using the Age-scale Cox proportional hazard regression model. Results During 1,134,843.68 person-years follow-up, a total of 388 PLC cases occurred. We found the elevated FBG and hypocholesterolemia increase the risk for PLC, respectively. Compared with the non-hypocholesterolemia/normal FBG group, the risk of PLC was significantly increased in the non-hypocholesterolemia/elevated FBG group (hazard artio [HR], 1.19; 95% confidence interval [CI], 0.88 to 1.62) and hypocholesterolemia/normal FBG group (HR, 1.53; 95% CI, 1.19 to 1.97), and in the hypocholesterolemia/elevated FBG group (HR, 3.16; 95% CI, 2.13 to 4.69). And, a significant interaction effect was found of FBG and TC on PLC. All results were independent from the influence of liver disease. Conclusion Elevated serum FBG and hypocholesterolemia are risk factors for PLC, especially when combined. Thus, for the prevention and treatment of PLC, serum FBG and TC levels should be investigated.

A surfactant-free microemulsion containing diethyl malonate, ethanol, and water: Microstructure, micropolarity and solubilizations

Miaomiao Song,Wenjiao Liu,Qian Wang,Jiao Wang,Jinling Chai 한국공업화학회 2020 Journal of Industrial and Engineering Chemistry Vol.83 No.-

The microstructure, micropolarity and solubilizations of a surfactant-free microemulsion (SFME)containing diethyl malonate (DEM), ethanol (EtOH), and water were investigated in details. The ternaryphase diagram of the SFME was constructed, and the single-phase region of the diagram was divided intooil in water (O/W), bicontinuous (B.C.), and water in oil (W/O) subregions. The dynamic light scattering(DLS) results showed that there is an orderly microstructure in each subregion of the system. The UV–visabsorbance spectra of CoCl2 indicated the formation of complete W/O SFME droplets, when the watercontent is relatively large. With an increase in water content, the association between Cu2+ and watermolecules increases, resulting in a red shift of the UV–vis absorbance spectra of CuCl2. The solubilizationof K3Fe(CN)6 in the W/O SFME was investigated, and found that the SFME has better solubilization effecton inorganic salts. Riboflavin also has a strong solubilizing effect in the W/O SFME, and the absorbanceconforms to Lambert–Beer’s law. When the water content is small, the absorbance deviates fromLambert–Beer’s law. This is in agreement with the results of the solubilization of CoCl2. A complete W/OSFME could be formed when the water mass fraction (W) exceeds 0.10.

Study on rock fracture behavior under hydromechanical loading by 3-D digital reconstruction

Miaomiao Kou,Xinrong Liu,Yunteng Wang 국제구조공학회 2020 Structural Engineering and Mechanics, An Int'l Jou Vol.74 No.2

The coupled hydro-mechanical loading conditions commonly occur in the geothermal and petroleum engineering projects, which is significantly important influence on the stability of rock masses. In this article, the influence of flaw inclination angle of fracture behaviors in rock-like materials subjected to both mechanical loads and internal hydraulic pressures is experimentally studied using the 3-D X-ray computed tomography combined with 3-D reconstruction techniques. Triaxial compression experiments under confining pressure of 8.0 MPa are first conducted for intact rock-like specimens using a rock mechanics testing system. Four pre-flawed rock-like specimens containing a single open flaw with different inclination angle under the coupled hydro-mechanical loading conditions are carried out. Then, the broken pre-flawed rock-like specimens are analyzed using a 3-D X-ray computed tomography (CT) scanning system. Subsequently, the internal damage behaviors of failed pre-flawed rock-like specimens are evaluated by the 3-D reconstruction techniques, according to the horizontal and vertical cross-sectional CT images. The present experimental does not only focus on the mechanical responses, but also pays attentions to the internal fracture characteristics of rock-like materials under the coupled hydro-mechanical loading conditions. The conclusion remarks are significant for predicting the rock instability in geothermal and unconventional petroleum engineering.

Adiponectin induced AMP-activated protein kinase impairment mediates insulin resistance in Bama mini-pig fed high-fat and high-sucrose diet

Miaomiao Niu,Lei Xiang,Yaqian Liu,Yuqiong Zhao,Jifang Yuan,Xin Dai,Hua Chen 아세아·태평양축산학회 2017 Animal Bioscience Vol.30 No.8

Objective: Adipose tissue is no longer considered as an inert storage organ for lipid, but instead is thought to play an active role in regulating insulin effects via secretion adipokines. However, conflicting reports have emerged regarding the effects of adipokines. In this study, we investigated the role of adipokines in glucose metabolism and insulin sensitivity in obese Bama mini-pigs. Methods: An obesity model was established in Bama mini-pigs, by feeding with high-fat and high-sucrose diet for 30 weeks. Plasma glucose and blood biochemistry levels were measured, and intravenous glucose tolerance test was performed. Adipokines, including adiponectin, interleukin-6 (IL-6), resistin and tumor necrosis factor alpha (TNF-α), and glucose-induced insulin secretion were also examined by radioimmunoassay. AMP-activated protein kinase (AMPK) phosphorylation in skeletal muscle, which is a useful insulin resistance marker, was examined by immunoblotting. Additionally, associations of AMPK phosphorylation with plasma adipokines and homeostasis model assessment of insulin resistance (HOMA-IR) index were assessed by Pearce's correlation analysis. Results: Obese pigs showed hyperglycemia, high triglycerides, and insulin resistance. Adiponectin levels were significantly decreased (p<0.05) and IL-6 amounts dramatically increased (p<0.05) in obese pigs both in serum and adipose tissue, corroborating data from obese mice and humans. However, circulating resistin and TNF-α showed no difference, while the values of TNF-α in adipose tissue were significantly higher in obese pigs, also in agreement with data from obese humans but not rodent models. Moreover, strong associations of skeletal muscle AMPK phosphorylation with plasma adiponectin and HOMA-IR index were obtained. Conclusion: AMPK impairment induced by adiponectin decrease mediates insulin resistance in high-fat and high-sucrose diet induction. In addition, Bama mini-pig has the possibility of a conformable model for human metabolic diseases.

Effects of coated cysteamine hydrochloride on muscle fiber characteristics and amino acid composition of finishing pigs

Miaomiao Bai,Hongnan Liu,Kang Xu,Rong Yu,Abimbola Oladele Oso,Jinping Deng,Yulong Yin 아세아·태평양축산학회 2019 Animal Bioscience Vol.32 No.9

Objective: This experiment was designed to determine the effects of coated cysteamine hydrochloride (CC) on muscle fiber characteristics, amino acid composition and transporters gene expression in the longissimus dorsi muscle (LDM) of finishing pigs. Methods: Two hundred and sixteen Duroc/Landrace/Yorkshire cross-bred male finishing pigs were fed with a corn-soybean basal diet supplemented with 0, 70, and 140 mg/kg cysteamine. Each group contained eight replicates of nine pigs per replicate. After 29 days, one pig was randomly selected from each replicate and slaughtered. Blood and LDM samples were collected and analyzed. Results: The results showed that supplemental dietary CC increased (p<0.05) the muscle fiber density. And CC supplementation also up-regulated (p<0.05) the expression of myosin heavy chain 1 (MyHC1) and MyHC2x mRNA levels, and down-regulated (p<0.05) MyHC2b expression in the LDM. Additionally, supplemental dietary CC reduced (p<0.05) the concentration of total cholesterol in the plasma and enhanced (p<0.05) the concentrations of essential amino acid and total amino acid in the LDM. The relative expression levels of chloramphenicol acetyltransferase 2, b0,+ amino acid transporter, and y+-L-type amino acid transporter 1 were up-regulated (p<0.05) in the LDM when pigs were fed with the dietary CC of 70 mg/kg. Conclusion: Cysteamine supplementation could increase fiber density and distribution of fiber types. It also improved the deposition of protein in the LDM by up-regulated the expression of amino acid transporters.

Siderophore Production by Rhizosphere Biological Control Bacteria Brevibacillus brevis GZDF3 of Pinellia ternata and Its Antifungal Effects on Candida albicans

Miaomiao Sheng,Huake Jia,Gongyou Zhang,Lina Zeng,Tingting Zhang,Yaohang Long,Jing Lan,Zuquan Hu,Zhu Zeng,Bing Wang,Hongmei Liu 한국미생물·생명공학회 2020 Journal of microbiology and biotechnology Vol.30 No.5

Brevibacillus brevis GZDF3 is a gram-positive, plant growth-promoting rhizosphere bacterium (PGPR) isolated from the rhizosphere soil of Pinellia ternata (an important herb in traditional Chinese medicine). The GZDF3 strain produces certain active compounds, such as siderophores, which are the final metabolite products of non-ribosomal peptide synthetase (NRPS) and independent non-ribosomal peptide synthetase (NIS) activity. With the present study, we attempted to investigate the siderophore production characteristics and conditions of Bacillus sp. GZDF3. The antibacterial activity of the siderophores on pathogenic fungi was also investigated. Optimal conditions for the synthesis of siderophores were determined by single factor method, using sucrose 15 g/l, asparagine 2 g/l, 32°C, and 48 h. The optimized sucrose asparagine medium significantly increased the production of siderophores, from 27.09% to 54.99%. Moreover, the effects of different kinds of metal ions on siderophore production were explored here. We found that Fe3+ and Cu2+ significantly inhibited the synthesis of siderophores. The preliminary separation and purification of siderophores by immobilized-metal affinity chromatography (IMAC) provides strong antibacterial activity against Candida albicans. The synergistic effect of siderophores and amphotericin B was also demonstrated. Our results have shown that the GZDF3 strain could produce a large amount of siderophores with strong antagonistic activity, which is helpful in the development of new biological control agents.