Genomic databases
| NCBI SARS-CoV-2 Resources |
https://www.ncbi.nlm.nih.gov/sars-cov-2/ |
- A portal to SARS-CoV-2 related resources at NCBI
- Includes Literature (PubMed and LitCovid), Sequence Resources (RefSeq, GenBank, BLAST, SRA, GEO, Structure, and PubChem), and Clinical Resources
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| GISAID |
https://www.gisaid.org/
https://www.gisaid.org/epiflu-applications/next-hcov-19-app/ (Genomic epidemiology of hCoV-19) |
- Promotes the rapid sharing of data from SARS-CoV-2
- Metadata include clinical, epidemiological, geographical, species-specific data
- For registered users, analysis results are available for the full genome trees, mutation analysis, receptor binding surveillance, spike glycoprotein receptor binding domain, etc.
- Registered users can download/upload data
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| EMBL-EBI COVID-19 Data Portal |
https://www.covid19dataportal.org/ |
- A central data portal through EMBL-EBI
- Includes genomes, expression data, protein annotation, structures, drug target data, and literature
- Links are also available to external resources
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| CNCB/NGDC Resource for Coronavirus 2019 (RCoV19) |
https://ngdc.cncb.ac.cn/ncov/?lang=en |
- Comprehensive integration of genomic and proteomic sequences as well as metadata and various analysis tools related to SARS-CoV-2
- Provides visualization of viral evolution (global haplotype landscape/network and phylogenetic tree) and genomic variation (nucleotide and amino acid levels)
- Offers a suite of tools for genome assembly, annotation, and analysis
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| SIB ViralZone: SARS-CoV-2/COVID-19 Coronavirus Resource |
https://viralzone.expasy.org/9056 |
- Part of SIB knowledge-resource for all viral genus and families
- Includes the "Betacoronavirus Fact Sheet" and other information on genome, gene expression, proteome, interactome, antiviral drugs, treatments,
as well as links to the reference genome and proteome
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| COVID-19 Pandemic Resources at UCSC |
https://genome.ucsc.edu/covid19.html |
- UCSC Genome Browser for SARS-CoV-2
- Incorporates relevant biomedical dataset such as single-cell lung gene expression
- Contains links to SARS-CoV-2 related resources and literature repositories
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| FDA-ARGOS SARS-CoV-2 Reference Grade Sequence Data |
https://www.fda.gov/medical-devices/database-reference-grade-microbial-sequences-fda-argos/fda-argos-sars-cov-2-reference-grade-sequence-data |
- Contains an alternative reference genome to the NCBI RefSeq; the two sequences are identical
- Includes links to the reference sequences from shotgun and target-capture as well as raw data and protocols from sequencing
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