Overview

Since COVID-19 epidemic is still expanding around the world and posing serious threat to human life and health, we develop such a 2019nCoVAS webservice that not only offers online epidemic transmission prediction and LAUPs (Lineage-associated Underrepresented Permutations) analysis service to investigate the spreading trend and genome sequence characteristics, but also provides psychological stress assessment based on the emotion dictionary we build for 2019-nCoV.

Epidemic transmission prediction

To predict the epdemic transmission and basic reproduction number(R0) for 2019-nCoV, we offer three epidemic transmission predictive models: SIR, SEIR and SEIRQ. Especially, the SEIRQ model considers quarantined case factor, which can be used to predict epidemic situation under the condition of suspected cases quarantine. View details

Genome sequence analysis

In order to analyze the LAUPs sequence characteris-tics for 2019-nCoV genome, we use JBLA (Jellyfish-based LAUPs analysis application) to compute the underrepresented sequence and common LAUPs. We also introduced the MOTIF discovery method to find the most frequent arrangement pattern in the common LAUPs and provide data download service to help users for further sequence and phylogenetic analysis. View details

Psychological stress assesment

We developed two corresponding features for our web server. One is to build an emotional dictionary for 2019-nCoV, which can highlight its high frequent vocabulary. The other is to assess and visualize the dynamic changes for the public's positive and negative emotions in response to 2019-nCoV at different time point. These features not only are able to provide the retrospective assessment function for psychologists, but also can be used as the references for national policies development. View details

Citation

Xiao M, Liu G, Xie J, Dai Z, Wei Z, Ren Z, Yu J, Zhang L *. 2019nCoVAS: Developing the Web Service for Epidemic Transmission Prediction, Genome Analysis, and Psychological Stress Assessment for 2019-nCoV. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2021, DOI:10.1109/TCBB.2021.3049617.

Funding Support

This work was supported by National Science and Tech-nology Major Project [2018ZX10201002] and Sichuan University Postdoctoral Research and Development Foundation [2020SCU12056].

Contact Us

Address: College of Computer Science, Sichuan University. No. 24 South Section 1, Yihuan Road, Chengdu Sichuan, China, 610065.
E-mail: xiaoming@scu.edu.cn zhangle06@scu.edu.cn