Adaptive Kendall’s τ Correlation in Bipartite Network for Recommendation

2017 ◽  
pp. 389-399
Author(s):  
Xihan Shan ◽  
Junlong Zhao
Keyword(s):  
Bipartite Network ◽  
Kendall’S Τ

Validity of puberty self-report in children and adolescents in Ho Chi Minh City

MedPharmRes ◽  
2020 ◽  
Vol 4 (4) ◽  
pp. 33-37
Author(s):  
Tam M. Do ◽  
Thanh K. Van ◽  
Huyen TT. Bich ◽  
Thanh TK. Tran ◽  
Minh X. Ngo ◽  
...  
Keyword(s):  
Children And Adolescents ◽  
Sexual Maturation ◽  
Kappa Statistic ◽  
Community Context ◽  
Self Report ◽  
Ho Chi Minh City ◽  
Pubertal Stage ◽  
Perfect Agreement ◽  
Kendall’S Τ ◽  
High Concordance

Background: Puberty is a milestone in child and adolescent development, yet a feasible tool to accurately assess pubertal stage in community context has not been validated in Vietnam. Aim: This study was conducted to validate pubertal self-report among Ho Chi Minh City children and adolescents in comparison with paediatrician’s assessment. Methods: 80 girls and 76 boys aged from 6 to 17 years old from 5 schools in Ho Chi Minh City were recruited. Self-administered questionnaires about sexual maturation were distributed to participants and results were compared with physician’s pubertal examination. Kappa statistic and Kendall’s τ b were used to evaluate validity of the questionnaire. Results: Boys tended to overestimate their development stages while girls tended to underestimate. Fair to almost perfect agreement between students’ reports and paediatricians’ evaluation, along with high concordance was recorded, however younger boys (aged 6-11) showed limited evaluation of their own sexual maturation. Conclusion: This method was inaccurate to evaluate younger boys’ sexual maturation; however, acceptable accuracy in sexual maturation estimation among younger girls and adolescents could allow it to serve as an effective screening tool in community context.

Automated Assessment of Binding Affinity via Alchemical Free Energy Calculations

2020 ◽  
Author(s):  
Maximilian Kuhn ◽  
Stuart Firth-Clark ◽  
Paolo Tosco ◽  
Antonia S. J. S. Mey ◽  
Mark Mackey ◽  
...  
Keyword(s):  
Free Energy ◽  
Protein Structures ◽  
Free Energy Calculations ◽  
Distinct Advantage ◽  
Binding Affinities ◽  
Structure Based Drug Design ◽  
Energy Calculations ◽  
Kendall’S Τ ◽  
Experimental Values ◽  
Better Than

Free energy calculations have seen increased usage in structure-based drug design. Despite the rising interest, automation of the complex calculations and subsequent analysis of their results are still hampered by the restricted choice of available tools. In this work, an application for automated setup and processing of free energy calculations is presented. Several sanity checks for assessing the reliability of the calculations were implemented, constituting a distinct advantage over existing open-source tools. The underlying workflow is built on top of the software Sire, SOMD, BioSimSpace and OpenMM and uses the AMBER14SB and GAFF2.1 force fields. It was validated on two datasets originally composed by Schrödinger, consisting of 14 protein structures and 220 ligands. Predicted binding affinities were in good agreement with experimental values. For the larger dataset the average correlation coefficient Rp was 0.70 ± 0.05 and average Kendall’s τ was 0.53 ± 0.05 which is broadly comparable to or better than previously reported results using other methods. <br>

A performative network theory of attitudes

2020 ◽  
Author(s):  
Michael Quayle
Keyword(s):  
Attitude Change ◽  
Network Structure ◽  
Network Theory ◽  
Social Group ◽  
Group Structure ◽  
Social Identities ◽  
Bipartite Network ◽  
Identity Change ◽  
Multilayer Network ◽  
Dynamic Phenomena

In this paper I propose a network theory of attitudes where attitude agreements and disagreements forge a multilayer network structure that simultaneously binds people into groups (via attitudes) and attitudes into clusters (via people who share them). This theory proposes that people have a range of possible attitudes (like cards in a hand) but these only become meaningful when expressed (like a card played). Attitudes are expressed with sensitivity to their potential audiences and are socially performative: when we express attitudes, or respond to those expressed by others, we tell people who we are, what groups we might belong to and what to think of us. Agreement and disagreement can be modelled as a bipartite network that provides a psychological basis for perceived ingroup similarity and outgroup difference and, more abstractly, group identity. Opinion-based groups and group-related opinions are therefore co-emergent dynamic phenomena. Dynamic fixing occurs when particular attitudes become associated with specific social identities. The theory provides a framework for understanding identity ecosystems in which social group structure and attitudes are co-constituted. The theory describes how attitude change is also identity change. This has broad relevance across disciplines and applications concerned with social influence and attitude change.

scholarly journals Insights into the molecular mechanisms of Huangqi decoction on liver fibrosis via computational systems pharmacology approaches

2021 ◽  
Vol 16 (1) ◽  
Author(s):  
Biting Wang ◽  
Zengrui Wu ◽  
Weihua Li ◽  
Guixia Liu ◽  
Yun Tang
Keyword(s):  
Molecular Docking ◽  
Liver Fibrosis ◽  
Molecular Mechanisms ◽  
Docking Simulation ◽  
Chinese Herbs ◽  
Network Pharmacology ◽  
Bipartite Network ◽  
Metabolomics Data ◽  
Metabolic Products ◽  
Compound Target

Abstract Background The traditional Chinese medicine Huangqi decoction (HQD) consists of Radix Astragali and Radix Glycyrrhizae in a ratio of 6: 1, which has been used for the treatment of liver fibrosis. In this study, we tried to elucidate its action of mechanism (MoA) via a combination of metabolomics data, network pharmacology and molecular docking methods. Methods Firstly, we collected prototype components and metabolic products after administration of HQD from a publication. With known and predicted targets, compound-target interactions were obtained. Then, the global compound-liver fibrosis target bipartite network and the HQD-liver fibrosis protein–protein interaction network were constructed, separately. KEGG pathway analysis was applied to further understand the mechanisms related to the target proteins of HQD. Additionally, molecular docking simulation was performed to determine the binding efficiency of compounds with targets. Finally, considering the concentrations of prototype compounds and metabolites of HQD, the critical compound-liver fibrosis target bipartite network was constructed. Results 68 compounds including 17 prototype components and 51 metabolic products were collected. 540 compound-target interactions were obtained between the 68 compounds and 95 targets. Combining network analysis, molecular docking and concentration of compounds, our final results demonstrated that eight compounds (three prototype compounds and five metabolites) and eight targets (CDK1, MMP9, PPARD, PPARG, PTGS2, SERPINE1, TP53, and HIF1A) might contribute to the effects of HQD on liver fibrosis. These interactions would maintain the balance of ECM, reduce liver damage, inhibit hepatocyte apoptosis, and alleviate liver inflammation through five signaling pathways including p53, PPAR, HIF-1, IL-17, and TNF signaling pathway. Conclusions This study provides a new way to understand the MoA of HQD on liver fibrosis by considering the concentrations of components and metabolites, which might be a model for investigation of MoA of other Chinese herbs.

scholarly journals Wealth Rheology

Entropy ◽  
2021 ◽  
Vol 23 (7) ◽  
pp. 842
Author(s):  
Zdzislaw Burda ◽  
Malgorzata J. Krawczyk ◽  
Krzysztof Malarz ◽  
Malgorzata Snarska
Keyword(s):  
Exchange Rate ◽  
Simple Model ◽  
Real Data ◽  
Ranking List ◽  
Kendall’S Τ ◽  
The World ◽  
The Usa ◽  
Overlap Ratio ◽  
Growth Volatility ◽  
Wealth Rank

We study wealth rank correlations in a simple model of macroeconomy. To quantify rank correlations between wealth rankings at different times, we use Kendall’s τ and Spearman’s ρ, Goodman–Kruskal’s γ, and the lists’ overlap ratio. We show that the dynamics of wealth flow and the speed of reshuffling in the ranking list depend on parameters of the model controlling the wealth exchange rate and the wealth growth volatility. As an example of the rheology of wealth in real data, we analyze the lists of the richest people in Poland, Germany, the USA and the world.

scholarly journals Bipartite Network of Interest (BNOI): Extending Co-Word Network with Interest of Researchers Using Sensor Data and Corresponding Applications as an Example

Sensors ◽  
2021 ◽  
Vol 21 (5) ◽  
pp. 1668
Author(s):  
Zongming Dai ◽  
Kai Hu ◽  
Jie Xie ◽  
Shengyu Shen ◽  
Jie Zheng ◽  
...  
Keyword(s):  
Feature Fusion ◽  
Extraction Methods ◽  
Knowledge Network ◽  
Sensor Data ◽  
Support Vector ◽  
Bipartite Network ◽  
Classification Models ◽  
Text Data ◽  
Domain Experts ◽  
Problems And Solutions

Traditional co-word networks do not discriminate keywords of researcher interest from general keywords. Co-word networks are therefore often too general to provide knowledge if interest to domain experts. Inspired by the recent work that uses an automatic method to identify the questions of interest to researchers like “problems” and “solutions”, we try to answer a similar question “what sensors can be used for what kind of applications”, which is great interest in sensor- related fields. By generalizing the specific questions as “questions of interest”, we built a knowledge network considering researcher interest, called bipartite network of interest (BNOI). Different from a co-word approaches using accurate keywords from a list, BNOI uses classification models to find possible entities of interest. A total of nine feature extraction methods including N-grams, Word2Vec, BERT, etc. were used to extract features to train the classification models, including naïve Bayes (NB), support vector machines (SVM) and logistic regression (LR). In addition, a multi-feature fusion strategy and a voting principle (VP) method are applied to assemble the capability of the features and the classification models. Using the abstract text data of 350 remote sensing articles, features are extracted and the models trained. The experiment results show that after removing the biased words and using the ten-fold cross-validation method, the F-measure of “sensors” and “applications” are 93.2% and 85.5%, respectively. It is thus demonstrated that researcher questions of interest can be better answered by the constructed BNOI based on classification results, comparedwith the traditional co-word network approach.

scholarly journals Opportunities and Challenges for Analyzing Cancer Data at the Inter- and Intra-Institutional Levels

2020 ◽  
pp. 743-756
Author(s):  
Julie Wu ◽  
Jordan Bryan ◽  
Samuel M. Rubinstein ◽  
Lucy Wang ◽  
Michele Lenoue-Newton ◽  
...  
Keyword(s):  
Clinical Data ◽  
Information Exchange ◽  
Cancer Center ◽  
Bipartite Network ◽  
Genotypic Differences ◽  
Cancer Type ◽  
Sample Type ◽  
Metastatic Tumors ◽  
Institutional Level ◽  
Cancer Data

PURPOSE Our goal was to identify the opportunities and challenges in analyzing data from the American Association of Cancer Research Project Genomics Evidence Neoplasia Information Exchange (GENIE), a multi-institutional database derived from clinically driven genomic testing, at both the inter- and the intra-institutional level. Inter-institutionally, we identified genotypic differences between primary and metastatic tumors across the 3 most represented cancers in GENIE. Intra-institutionally, we analyzed the clinical characteristics of the Vanderbilt-Ingram Cancer Center (VICC) subset of GENIE to inform the interpretation of GENIE as a whole. METHODS We performed overall cohort matching on the basis of age, ethnicity, and sex of 13,208 patients stratified by cancer type (breast, colon, or lung) and sample site (primary or metastatic). We then determined whether detected variants, at the gene level, were associated with primary or metastatic tumors. We extracted clinical data for the VICC subset from VICC’s clinical data warehouse. Treatment exposures were mapped to a 13-class schema derived from the HemOnc ontology. RESULTS Across 756 genes, there were significant differences in all cancer types. In breast cancer, ESR1 variants were over-represented in metastatic samples (odds ratio, 5.91; q < 10−6). TP53 mutations were over-represented in metastatic samples across all cancers. VICC had a significantly different cancer type distribution than that of GENIE but patients were well matched with respect to age, sex, and sample type. Treatment data from VICC was used for a bipartite network analysis, demonstrating clusters with a mix of histologies and others being more histology specific. CONCLUSION This article demonstrates the feasibility of deriving meaningful insights from GENIE at the inter- and intra-institutional level and illuminates the opportunities and challenges of the data GENIE contains. The results should help guide future development of GENIE, with the goal of fully realizing its potential for accelerating precision medicine.

Reliability assessment of offshore dynamic scour protections using copulas

2018 ◽  
Vol 43 (5) ◽  
pp. 506-538 ◽  
Author(s):  
T Fazeres-Ferradosa ◽  
F Taveira-Pinto ◽  
X Romão ◽  
MT Reis ◽  
L das Neves
Keyword(s):  
Wind Farm ◽  
Estimation Method ◽  
Information Criterion ◽  
Probability Of Failure ◽  
Parametric Estimation ◽  
Offshore Wind ◽  
Offshore Wind Turbine ◽  
Spectral Parameters ◽  
Peak Period ◽  
Kendall’S Τ

This article presents a methodology to assess the reliability of dynamic scour protections used to protect offshore wind turbine foundations. The computed probabilities of failure are based on a dataset of 124 months of hindcast data from the Horns Rev 3 offshore wind farm. Copula-based models are used to obtain the joint distribution function of the significant wave height and spectral peak period and to obtain the probability of failure of scour protections. The sensitivity of the probability of failure to each model is addressed. The influence of the duration of the waves’ time series is also studied. A sensitivity analysis of the probability of failure to physical constraints, such as the water depth, current’s velocity or the mean diameter of the armour units, is performed. The results show that probability of failure is dependent on the copula used to model the spectral parameters and the associated value of Kendall’s τ. It is shown that the copula presenting the best values of Akaike Information Criterion (AIC) and Bayesian Information Criterion (BIC) did not lead to the probabilities of failure that are closer to the non-parametric estimation, obtained by means of the bivariate version of the Kernel density estimation method. The application to the case study led to annual probabilities of failure, which are comparable with the values applied for other offshore components, according to the current offshore wind industry standards.

Sign in / Sign up

Export Citation Format

Share Document