Richard Scheuermann comments

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                                            Richard Scheuermann

Addition of marker genes to 52 cell types matched from the Human Lung Cell Atlas

@aleixpuigb I can do that as well

Addition of marker genes to 52 cell types matched from the Human Lung Cell Atlas

> @aleixpuigb I can do that as well Done

Addition of marker genes to 52 cell types matched from the Human Lung Cell Atlas

> Documenting other sources of CL mappings on Sikemma integrated lung (normal) dataset https://cellxgene.cziscience.com/e/066943a2-fdac-4b29-b348-40cede398e4e.cxg/ for discussion purposes: > > Here are the current Mappings on CxG (Note - table incomplete...

Addition of marker genes to 52 cell types matched from the Human Lung Cell Atlas

@dosumis the exactMatch was simply a match of the label strings and consistency with the CL definitions. But I agree that the "Secretory" label does not match the cluster hierarchy...

Addition of marker genes to 52 cell types matched from the Human Lung Cell Atlas

@emquardokus That sounds good. My main focus is on definitional marker gene combinations. I would defer to the SMEs for cell type names/labels. But one additional area that we are...

'CL:0000784 (plasmacytoid dendritic cell) should not have synonym 'DC2', 'type 2 DC'

In the HLCA lung atlas: DC1 skos:relatedMatch conventional dendritic cell (CL:0000990); selectively expressed the combination of CLEC9A and DNASE1L3 transcripts in human lung DC2 skos:relatedMatch CD1c-positive myeloid dendritic cell (CL:0002399);...

Define template for recording bags of markers

I would also like to have a template for this. But I would also like to make a distinction between a "bag of markers" and a set of markers that...

Define template for recording bags of markers

@dosumis yes, we just modified/modularized the NS-Forest code so that we can provide any set of markers along with a clustered cell x gene expression matrix and quantify classification performance....

Add region specific cortical cell types

@dosumis We've not analyzed these data yet, but we'll look into it.

Add region specific cortical cell types

Here is the email message I sent to them earlier today: Ed/Trygve/Rebecca, We are starting to work on preparing NS-Forest marker sets for the neocortical cell types reported in the...