Global:
There are 6 global maps;
i.e., weekly cases, weekly deaths, the case change from 2-week ago,
cumulative cases, cumulative cases per million people,
& monthly mortality ratio.
Domestic:
There are 2 charts and their datasets.
One is a daily chart of cases and deaths
with a table of their numbers that are added information
on the main variants & mutations.
Another is a weekly chart of cases
in age groups (if any) and deaths.
Variant:
There are 4 networks or charts;
i.e., 1) a network between variant,
2) a network between mutations,
3) line charts showing the transition of mutations
before the development of the variant ,
& 4) a network between mutations
in the subvariants of the variant.
Mutation:
There are 5 views;
i.e., 1) the relationship of the mutation
to variants (WHO lables),
2) a mutation network,
3) bar charts for mutation pairs,
4) a time series of the mutation share,
& 5) a global map for the mutation.
★ Concept
The Vcorn SARS-CoV-2 database provides
integrated information on COVID-19 cases & SARS-CoV-2 mutation.
Especially, one of the main goal of the database is
to unveil the transition of mutation in the S protein of SARS-CoV-2.
★ History
2020-04-22
The Gcorn viral COVID-19,
which provided information on COVID-19 obtained from WHO, was released.
2021-08-12
The Vcorn SARS-CoV-2,
integrated information on COVID-19 & SARS-CoV-2, was released.
2021-08-31
In the 1st renewal version, a network between SARS-CoV-2 mutations was added.
2022-05-04
An article on the database was published by BMC Genomic Data
(PMID:
35508965).
2022-05-12
In the 2nd renewal version, a network between variants was added.
2022-09-01
The renewal version (ver. 3) was released.
2023-03-15
The renewal version (ver. 4) was released.
In the version,
a monthly chart of variant/subvariant share
and a table of an analysis to each COVID-19 peak
were added.
★ Pipeline
Data acquisition:
FASTA files, metadata, & a list of mutation of SARS-CoV-2 were downloaded
from the NCBI Virus database (monthly).
BLAST search:
The nucleotide sequences of S proteins in these FASTA files were compared
with that of the SARS-CoV-2 reference genome using the BLASTN program
to detect mutations from the reference genome.
COVID-19 & SARS-CoV-2:
Based on the metadata, the mutation data was classified
by nation, date, & variant.
Mutation network:
Mutations were associated to each other
based on the ratio of samples that share them
to depict a network between mutations.
Pre-variant approach:
The transition of mutation occurred in each variant with WHO label was presumed
based on the ratio of samples that contains mutations specific to the variant.
Post-variant approach:
The transition of mutation occurred in subvariants of each variant was presumed
based on the ratio of mutations occurred by them.
