SARs-CoV2 Genome Browser is a great visualization tool

Submitted by admin on Wed, 10/07/2020 - 16:21

2020-10-07 by Quick Biology

Since the first case of COVID-19 was reported in Dec 2019, a large amount of SARS-CoV-2 strains have been fully sequenced, the transcriptome is also being functionally annotated. Such an explosion of omics data of SARS-CoV2 has created a need for storing, analyzing, comparing these data.   To well visualize, gain insights into SARS-CoV-2,  Wang Lab at Washing University School of Medicine in St. Louis builds  WashU Virus Genome Browser (https://virusgateway.wustl.edu/) (ref1, Figure 1);  Haussler lab at  UCSC Genomics Institute builds a similar interactive viewer for the SARS-CoV-2 into UCSC Genome browser (https://genome.ucsc.edu/covid19.html) (re2, Figure 2). The manuscripts describing how to use these web tools are published in Nature Genetics.

These comprehensive omics visualization resources offer but not limited to:

  1. 1. Genome organization and transcriptome features.
  2. 2. View sequence conservation with similar viruses and discover conserved immune-epitopes.
  3. 3. Guideline for PCR primer or CRISPR design for SARS-CoV-2 nucleic acid diagnostics.
  4. 4. Virus genome evolution, monitor, or track virus spreading.

Figure 1: Evaluating PCR primers for accumulating mutations with the WashU Virus Genome Browser. (ref1)

Figure 1 Evaluating PCR primers for accumulating mutations with the WashU Virus Genome Browser.png

Figure 2: UCSC Genome Browser user-interface structure.  (ref2)

Figure 2 UCSC Genome Browser user-interface structure..png

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Ref:

  1. 1. Flynn, J. A. et al. Exploring the coronavirus pandemic with the WashU Virus Genome Browser. Nat. Genet. 52, (2020).
  2. 2. Fernandes, J.D. et al. The UCSC SARS-CoV-2 Genome Browser. Nat. Genet. 52, (2020).