I had a question about the pre-processing of the datasets hosted on the covid19cellatlas.org<http://covid19cellatlas.org>. I am sorry if I reached out on a wrong address, and I would be grateful if you could forward me to the right person.
Specifically, I am interested in the information on the normalization/processing of the raw expression values, used to generate the .h5ad files for the healthy donors. I noted on the data ingestion information that the raw counts are always pre-processed, but no information on what that processing is or for what datasets that affected. So, I would be grateful if you could clarify this.
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We've recently generated spatially-resolved single-cell data of
post-mortem lung tissue of COVID-19 patients and other lung infections
Would there be interest in adding this dataset to the COVID-19 portal of
We already provide a h5ad file with the single-cell data
(https://urldefense.proofpoint.com/v2/url?u=https-3A__zenodo.org_record_4139… ), but
perhaps this could help researchers having a one-stop place for COVID-19
single cell data?
Of importance, our features do not represent gene expression but protein
abundance for 36 selected proteins, so this is in contrast to most other
datasets which I believe are scRNA-seq.
*André Rendeiro, Ph.D.
*Postdoctoral Associate, Elemento Lab
Englander Institute for Precision Medicine
Institute for Computational Biomedicine
*Weill Cornell Medicine
*1305 York Ave., Y13.13
New York, NY (USA) 10021