Interactive Web‐based Data Visualization and Analysis Tool for Synthetizing on‐farm Research Networks Data

UNSTRUCTURED Survival analysis is a cornerstone of medical research enabling the assessment of clinical outcome for disease progression and treatment efficiency. Despite its central importance, neither commonly used spreadsheet software can handle it nor is there a web server for its computation. Here we introduce a web-based tool capable to perform uni- and multivariate Cox proportional hazards survival analysis using data generated by genomic, transcriptomic, proteomic, or metabolomics studies. We implemented different methods to establish cutoff values for trichotomization or for the dichotomization of continuous data. False discovery rate is computed to correct for multiple hypothesis testing. Multivariate analysis option enables comparing omics data with clinical variables. The registration-free web-service is available at https://kmplot.com/custom_data. The tool fills a gap and will be an invaluable help for basic medical and clinical research.

Download Full-text

iCn3D: from Web-based 3D Viewer to Structure Analysis Tool in Batch Mode

10.1101/2021.09.10.459868 ◽

2021 ◽

Author(s):

Jiyao Wang ◽

Philippe Youkharibache ◽

Aron Marchler-Bauer ◽

Christopher Lanczycki ◽

Dachuan Zhang ◽

...

Keyword(s):

Protein Interaction ◽

Large Data ◽

Accessible Surface Area ◽

Solvent Accessible Surface Area ◽

Analysis Tool ◽

Batch Mode ◽

Data Set ◽

Web Based ◽

Protein Protein Interaction ◽

Link Type

AbstractiCn3D was originally released as a web-based 3D viewer, which allows users to create a custom view in a life-long, shortened URL to share with colleagues. Recently, iCn3D was converted to use JavaScript classes and could be used as a library to write Node.js scripts. Any interactive features in iCn3D can be converted to Node.js scripts to run in batch mode for a large data set. Currently the following Node.js script examples are available at https://github.com/ncbi/icn3d/tree/master/icn3dnode: ligand-protein interaction, protein-protein interaction, change of interactions due to residue mutations, DelPhi electrostatic potential, and solvent accessible surface area. iCn3D PNG images can also be exported in batch mode using a Python script. Other recent features of iCn3D include the alignment of multiple chains from different structures, realignment, dynamic symmetry calculation for any subsets, 2D cartoons at different levels, and interactive contact maps. iCn3D can also be used in Jupyter Notebook as described at https://pypi.org/project/icn3dpy.

Download Full-text

WA VIS: A Web-based Augmented Reality Text Data Visual Analysis Tool

2019 International Conference on Virtual Reality and Visualization (ICVRV) ◽

10.1109/icvrv47840.2019.00011 ◽

2019 ◽

Author(s):

Yunqiang Pei ◽

Yadong Wu ◽

Song Wang ◽

Fupan Wang ◽

Hongyu Jiang ◽

...

Keyword(s):

Augmented Reality ◽

Visual Analysis ◽

Analysis Tool ◽

Text Data ◽

Web Based

Download Full-text

Web-Based Data Visualization Platform for MATSim

Transportation Research Record Journal of the Transportation Research Board ◽

10.1177/0361198120935109 ◽

2020 ◽

Vol 2674 (10) ◽

pp. 124-133

Author(s):

Billy Charlton ◽

Janek Laudan

Keyword(s):

User Interface ◽

Open Source ◽

Data Visualization ◽

Aggregate Level ◽

Web Based ◽

Client Server ◽

Web Technologies ◽

Front End ◽

Advanced User ◽

Simulation Results

There are many tools available for analyzing MATSim transport simulation results, both open-source and commercial. This research builds a new open-source visualization platform for MATSim outputs that is entirely web-based. After initial experiments with many different web technologies, a client-server platform design emerges which leverages the advanced user interface capabilities of modern browsers on the front-end, and relies on back-end server processing for more processor-intensive tasks. The initial platform is now operational and includes several aggregate-level visualizations including origin–destination flows, transit supply, and emissions levels as well as a fully disaggregate traffic animation visualization. These visualizations are general enough to be useful for various projects. Further work is needed to make them more compelling and the platform more useful for practitioners.

Download Full-text

Restful Web Service and Web-Based Data Visualization for Environmental Monitoring

International Journal of Software Innovation ◽

10.4018/ijsi.2015010106 ◽

2015 ◽

Vol 3 (1) ◽

pp. 75-94 ◽

Cited By ~ 2

Author(s):

Sungchul Lee ◽

Ju-Yeon Jo ◽

Yoohwan Kim

Keyword(s):

Web Service ◽

Data Visualization ◽

Water Environment ◽

Environmental Data ◽

Renewable Energy Resources ◽

Service Architecture ◽

Web Based ◽

Research Fields ◽

Restful Web Service ◽

Rest Api

The Nevada Solar Energy-Water-Environment Nexus project collects a large amount of environmental data from a variety of sensors such as soil, atmosphere, biology, and ecology. Mostly, the environmental data is related to a development of renewable energy resources in the Nexus project. The environmental data can have an impact on other research fields if it can easily be shared with other researchers, students, teachers, and general users. Therefore, Nevada Climate Change Portal (NCCP) site was created for Nexus project with a purpose of sharing such data. However, there are some challenges to address in utilizing such data, collecting the data, and sharing the data among the users. In this research, the authors propose Extended Web Service Architecture for solving these challenges. The authors implement Arduino instead of CR1000 as a collector due to its cost effectiveness. The authors also use REST API to overcome the limitations of Arduino. Moreover, the authors experiment with popular Web-based data visualization tools such as Google Chart, Flex, OFC, and D3 to visualize NCCP data.

Download Full-text