ST-Map:an Interactive Map for Discovering Spatial and Temporal Patterns in Bibliographic Data

Getting insight into the spatiotemporal distribution patterns of knowledge innovation is receiving increasing attention from policymakers and economic research organizations.Many studies use bibliometric data to analyze the popularity of certain research topics,well-adopted methodologies,influential authors,and the interrelationships among research disciplines.However,the visual exploration of the patterns of research topics with an emphasis on their spatial and temporal distribution remains challenging.This study combined a Space-Time Cube(STC)and a 3D glyph to represent the complex multivariate bibliographic data.We further implemented a visual design by developing an interactive interface.The effectiveness,understandability,and engagement of ST-Map are evaluated by seven experts in geovisualization.The results suggest that it is promising to use three-dimensional visualization to show the overview and on-demand details on a single screen.

A Novel Inter-Carrier Interference Cancellation Scheme in Highly Mobile Environments

In the current multi-carrier communications,Orthogonal Frequency Division Multiplexing(OFDM)is widely considered as a leading technology.For mobile applications,however,the orthogonality between subcarriers is deteriorated by Doppler frequency shift,which will introduce serious subcarrier phase rotation in the received signals and degrade the system performance.Thus,a method of differential grouping weighted symmetry data-conjugate(DWSCC)have been previously presented to obtain a better inter-carrier interference(ICI)suppressing effect and Bit Error Rate(BER)performance with no loss of spectral efficiency.In this paper,a novel scheme applying a completely different method of subcarrier interactive mapping is put forward.By mapping two different symbols which are both conjugated or multiplied by a complex weighting factor onto a pair of symmetric subcarriers,the presented scheme can greatly reduce the influence of subcarriers phase rotation caused by Doppler frequency shift in highly mobile environments.Analysis and simulation results indicate that comparing with the DWSCC method,our formulated scheme can not only maintain the spectrum utilization with no loss,but also have the advantages of an improvement on reduction effect and BER performance as well as a lower computational complexity in highly mobile environments.

Protein-protein interaction map is a key gateway into liver regeneration

Recent studies indicate that the process of liver regeneration involves multiple signaling pathways and a variety of genes,cytokines and growth factors. Protein-protein interactions(PPIs)play a role in nearly all events that take place within the cell and PPI maps should be helpful in further understanding the process of liver regeneration.In this review,we discuss recent progress in understanding the PPIs that occur during liver regeneration especially those in the transforming growth factorβsignaling pathways.We believe the use of large-scale PPI maps for integrating the information already known about the liver regeneration is a useful approach in understanding liver regeneration from the standpoint of systems biology.

Visualization issues in the development of electronic atlas in China

In this paper, we discuss the development of electronic atlas in China, with focus on the issues of visualization. We particularly categorise this development into four periods, and then analyse the characters in each period and discuss the visualization issues. The four periods are highlighted: 1) Infant period (<1990) characterized as computer assisted mapping with products of screen maps; 2) Starting period (1991-1995) characterized as object-oriented mapping with products of interactive maps/atlases; 3) Advancing period (1996-2000) characterized as integrated mapping with products of multimedia cartographic maps; 4) New era (> 2001) characterized as web mapping and adaptive map design with products of Internet maps and atlas as well as adaptive maps. It is obvious that the development follows the logical way from static to dynamic, and even real time visualization, from single user to multiple users, from presentation to exploration for effective communication and knowledge construction. Current research and development projects are focused on customisation of atlas information systems for real-time tasks, Internet operability, small displays and mobile environments. The major challenges involved in each of such customisation processes are identified and commented in relation to the further development of visualization.

Molecular mechanisms of Biyu decoction as treatment for psoriasis:A network pharmacology and molecular docking study

BACKGROUND The therapeutic effects of a combination of Chinese medicines called Biyu decoction have been clinically verified,although its molecular targets in psoriasis remain unknown.AIM To explore the molecular mechanisms of Biyu decoction for psoriasis treatment.METHODS In this network pharmacology and molecular docking study,the Traditional Chinese Medicine Systems Pharmacology database was searched for Biyu decoction active ingredients.GeneCards,Online Mendelian Inheritance in Man,PharmGkb,Therapeutic Target Database,and DrugBank databases were searched for psoriasis-related genes.The genes targeted by the decoction’s active ingredient and disease genes were intersected to obtain predictive targets of the drug during psoriasis treatment.Cytoscape 3.8.0 was used to construct a drug component/target disease network.The The functional protein association networks database and Cytoscape were used to construct a protein-protein interaction network and streamline the core network.The Gene Ontology and Kyoto Encyclopedia of Genes and Genomes were used for pathway enrichment analysis.Molecular docking technology was used to verify the drug component/target disease network.RESULTS We screened 117 major active ingredients,including quercetin,kaempferol,naringenin,and acetyl-shikonin,and identified 213 gene targets,such as MAPK3,JUN,FOS,MYC,MAPK8,STAT3,and NFKBIA.Using a molecular docking analysis,the main active ingredients demonstrated good binding to the core targets.The Gene Ontology analysis showed that these ingredients were significantly associated with biological activities,such as transcription factor DNA binding,RNA polymerase II-specific DNA binding of transcription factors,and cytokine receptor binding;responses to lipopolysaccharides,molecules of bacterial origin,and oxidative stress;and were mainly distributed in membrane rafts,microdomains,and regions.The Kyoto Encyclopedia of Genes and Genomes analysis showed that decoction ingredients act on Th17 cell differentiation,tumor necrosis factor and mitogen-activated protein signaling pathways,the interleukin-17 signaling pathway,and the PI3K-Akt signaling pathway.CONCLUSION Biyu decoction may be effective against psoriasis through multi-component,multi-target,and multi-channel synergy.

Fatigue-Creep Interaction Fracture Maps and Life Prediction under Combined Fatigue-Creep Stress Cycling

The purpose of this paper is to introduce sys- tematically the theory of fatigue-creep interaction fracture map and its application.

Visualization of geologic geospatial datasets through X3D in the frame of WebGIS

3D geo spatial data have become the normal.However,to view the data,usually expert software is required,which have up to now hindered the wide spread use of 3D scenes for the display of geological data.The internet real time 3D rendering framework X3D is assessed regarding its suitability for building a geological GIS on the internet.Especially important for geological data,3D rendering enhances the intuitive grasp of the data and enables the user to interactively explore it.It is often necessary to find a solution to distribute this data to a wide range of interested parties,experts and non-experts alike.According to the nature of 3D data,the best technique to display geo-data,the modeling of objects and unresolved issues have to be taken into consideration.The internet is the apparent tool for the public distribution and visualization of 3D data and it was found that through the open ISO-standardized format X3D it offers a multitude of possibilities.A 3D geological interactive map was created with these prerequisites to identify challenges and possibilities through this process.It was found that the use of lead to satisfactory results,that could probably not have been achieved with another technology.

Network pharmacology assessment of Qingkailing injection(清开灵注射液)treatment of cholestatic hepatitis

OBJECTIVE:To investigate the targets and mechanisms of action of Qingkailing injection(清开灵注射液,QKL)in the treatment of cholestatic hepatitis.METHODS:A network pharmacology method was implemented using drug and disease databases to target QKL and cholestasis hepatitis,respectively.The functional protein association network STRING database was used to construct a protein-protein interaction network using R language and the Bioconductor toolkit.The org.Hs.eg.db and cluster Profiler packages were used for gene ontology and Kyoto Encyclopedia of Genes and Genomes pathway enrichment analysis,which explored biological functions and pathways of potential targets.Targets were then visualized using Cytoscape 3.6.0 software.RESULTS:We screened 121 compounds in QKL and identified 112 targets for the treatment of cholestatic hepatitis.QKL played a role in the treatment of cholestatic hepatitis through 305 biology process terms,15 cellular component and 29 molecular function terms.The mechanism of QKL action was mainly related to tumor necrosis factor,mitogen-activated protein kinase,and PI3 K-Akt signaling pathways.CONCLUSION:The treatment of cholestatic hepatitis by QKL involved multiple targets,biological functions,and signaling pathways that are closely associated with the disease.

Constructing protein-protein interaction network of hypertension with blood stasis syndrome via digital gene expression sequencing and database mining

OBJECTIVE： To construct a protein-protein interaction（PPI） network in hypertension patients with blood-stasis syndrome（BSS） by using digital gene expression（DGE） sequencing and database mining techniques.METHODS： DGE analysis based on the Solexa Genome Analyzer platform was performed on vascular endothelial cells incubated with serum of hypertension patients with BSS. The differentially expressed genes were f iltered by comparing the expression levels between the different experimental groups. Then functional categories and e nriched pathways of the unique genes for BSS were analyzed using Database for Annotation, Visualization and Integrated Discovery（DAVID） to select those in the enrichment pathways. I nterologous Interaction Database（I2D） was used to construct PPI networks with the selected genes for hypertension patients with BSS. The potential candidate genes related to BSS were identif ied by comparing the number of relationships among genes. Confi rmed by quantitative reverse transcription-polymerase chain reaction（q RTPCR）, gene ontology（GO） analysis was used to infer the functional annotations of the potential candidate genes for BSS.RESULTS： With gene enrichment analysis using DAVID, a list of 58 genes was chosen from the unique genes. The selected 58 genes were analyzed using I2 D, and a PPI network was constructed. Based on the network analysis results, candidate genes for BSS were identifi ed：DDIT3, JUN, HSPA8, NFIL3, HSPA5, HIST2H2 BE, H3F3 B, CEBPB, SAT1 and GADD45 A. Verif ied through qRT-PCR and analyzed by GO, the functional annotations of the potential candidate genes were explored.CONCLUSION： Compared with previous methodologies reported in the literature, the present DGE analysis and data mining method have shown a great improvement in analyzing BSS.