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hivdb / covid-drdb-payload

A relational database of SARS-CoV-2 resistance data.
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Huygens22, 10.1093/cid/ciac601 #380

Open philiptzou opened 2 years ago

philiptzou commented 2 years ago

Preprint: 10.1101/2022.04.06.22273503

philiptzou commented 2 years ago

So far I have located EPI_ISL_10680306 (2022-02-02) and EPI_ISL_10688814 (2022-02-22) which are corresponding to BA.1:P337L,D796Y and BA.1:E340A,D796Y,D839N. However, there are >1300 Omicron sequences with names start with "hCoV-19/Netherlands/ZH-EMC-". It is hard to distinguish them all.

I'll enter the partial mutation list to the database for now. This deserves a revisit when peer-reviewed version published.

philiptzou commented 2 years ago

It seems figure 1 mistyped D796Y as Y796D. According to the content, there are one third of BA.2 patients developed with D796Y, which should be 2 or 3 patients. The figure 1 listed two BA.2 with mutation at position 796 - one is D796Y and one is Y796D.

It seems also mistyped D936H as H936D.

philiptzou commented 2 years ago

What kinds of extra data are useful (especially for the 7 patients with mutations):

  1. GISAID numbers and the relationship to the patients and the timestamps
  2. Vaccination detail per patient (who received how many doses)