Neelam Jha
Bioinformatics Beginner
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Coronavirus Resources !
By Neelam Jha 1494 days ago Comments (15)
https://bigd.big.ac.cn/ncov/about
2019nCoVR features comprehensive integration of genomic and proteomic sequences as well as their metadata information from the GISAID, NCBI, NMDC and CNCB/NGDC. It also incorporates a wide range of relevant information including scientific literatures, news, and popular articles for science dissemination, and provides visualization functionalities for genome variation analysis results based on all collected 2019-nCoV strains.
Annotation
https://bigd.big.ac.cn/ncov/variation/annotation
Genome wharehouse
https://bigd.big.ac.cn/gwh/browse/index
Released Genome
https://bigd.big.ac.cn/ncov/release_genome
Download data
ftp://download.big.ac.cn/Genome/Viruses/Coronaviridae/
Raw data
Comments
UK resource in CoViD19 http://cov-glue.cvr.gla.ac.uk/#/home
https://macman123.shinyapps.io/ugi-scov2-alignment-screen/
CoViD Selection analysis http://virological.org/t/selection-analysis-of-gisaid-sars-cov-2-data/448
UK Covid consortium https://www.cogconsortium.uk/data/
SARS-CoV-2 SNP Calling pipeline https://github.com/DamienFr/CoV-homoplasy
Genome detective https://www.genomedetective.com/app/typingtool/virus/
Corona virus data resources https://www.covid19dataportal.org/
Raw and assembled sequences related to the COVID-19 outbreak, including outbreak isolates and records relating to coronavirus biology. Includes extensive sampling information. https://www.covid19dataportal.org/sequences?db=embl
SARS-CoV-2 protein structures, highlighting important structural features to support the development of treatments and vaccines.
https://www.covid19dataportal.org/structures?db=structures
Curated functional and classification data on the SARS-CoV-2 protein entries and associated protein receptors. https://www.covid19dataportal.org/proteins?db=uniprot-covid19
Curated range of SARS-CoV-2 compound activity data.https://www.covid19dataportal.org/compounds?db=chembl-document
Range of SARS-CoV-2 and SARS-CoV data for drug target identification and prioritisation. https://www.covid19dataportal.org/targets?db=complex-portal
Gene and protein expression data of human genes implicated in the virus infection of the host cells. Identifying cell types and genes with highest expression in SARS-CoV-2 infections.
https://www.covid19dataportal.org/expression?db=expression
Some important resources here https://artic.network/ncov-2019
Illumina toolkit for SARS-CoV2
https://sapac.illumina.com/informatics/biological-interpretation/coronavirus-software.html#about
Intersting piece of information
https://www.cdc.gov/coronavirus/2019-ncov/variants/variant-info.html