Spike proteins sequences of all variants of Covid
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6 weeks ago

I want to download Spike proteins sequences of 11 variants of the corona:

1) Alpha (B.1.1.7 and Q lineages)

2) Beta (B.1.351 and descendent lineages)

3) Gamma (P.1 and descendent lineages)

4) Epsilon (B.1.427 and B.1.429)

5) Eta (B.1.525)

6) Iota (B.1.526)

7) Kappa (B.1.617.1)

8) Mu (B.1.621, B.1.621.1)

9) Zeta (P.2)

10) Delta (B.1.617.2 and AY lineages)

11) Omicron (B.1.1.529)

From where I could find and download these variant spike protein sequences?

NCBI Bioinformatics Protein • 492 views
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What about new COVID-19 variant Omicron. How we can save ourselves and society. Please guide us

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Just turn off the news.

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From https://www.ncbi.nlm.nih.gov/datasets/coronavirus/proteins/

You will need to pick and select the versions you want.

Note: This page appears to be under stress and download is not working.

Use command line client for NCBI datasets as shown on this page: https://www.ncbi.nlm.nih.gov/datasets/docs/v1/how-tos/virus/get-sars2-proteins/

datasets download virus protein S --host human --complete-only --exclude-gpff --exclude-pdb
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are all spike variants present on this link?

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You will get all spike protein sequences (looks like there are 1237 entries) in NCBI database. You will need to select ones you need from the full list.

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You mean this one: spike

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6 weeks ago
Hamid Ghaedi ★ 2.0k

From GSAID, it got more than 5 million submissions for the SARS-Cov-2 virus and a handful of customized database/knowledgebase

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but it requires registration before seeing any sequence

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