Single Cell Data Portal • SignacX

Here, we provide interactive access to data from the pre-print with SPRING Viewer. Just click the “Explore” links below, and search your favorite gene.

Note:

Cell type annotations are provided at four levels (immune, celltypes, cellstates and novel celltypes).
When available, we also provided information about sample covariates (i.e., disease, age, gender, FACs etc.).
Cell type annotations for all 13 data sets were generated with the Signac function with the default settings without changing any settings or parameters.

Links	Tissue	Disease	Number of cells	Number of samples	Source	Signac version
Explore	Kidney	Cancer	48,037	47	Stewart et al. 2019	v2.0.7
Explore	Kidney and urine	Lupus nephritis and healthy	5,886	39	Arazi et al. 2019	v2.0.7
Explore	Lung	Cancer	42,844	18	Zilionis et al. 2020	v2.0.7
Explore	Lung	Fibrosis	96,461	31	Habermann et al. 2020	v2.0.7
Explore	Lung	Fibrosis	109,421	16	Reyfman et al. 2019	v2.0.7
Explore	Monkey PBMCs	Healthy	5,491	1	Chamberlain et al. 2021	v2.0.7
Explore	Monkey PBMCs	Healthy	5,220	1	Chamberlain et al. 2021	v2.0.7
Explore	Monkey T cells	Healthy	5,496	1	Chamberlain et al. 2021	v2.0.7
Explore	PBMCs	Cancer	14,048	8	Zilionis et al. 2020	v2.0.7
Explore	PBMCs	Healthy	7,902	1	10X Genomics	v2.0.7
Explore	PBMCs	Healthy	4,784	1	10X Genomics	v2.0.7
Explore	Skin	Atopic dermatitis	36,690	17	He et al. 2020	v2.0.7
Explore	Synovium	Rheumatoid arthritis and osteoarthritis	8,920	26	Zhang et. al 2019	v2.0.7

Special thanks to Allon Klein’s lab (particularly Caleb Weinreb and Sam Wolock) for hosting the data.

Data portal with CD56^bright NK cells

In Figure 4 of the pre-print, we demonstrated that Signac mapped cell type labels from one single cell data set to another; learning CD56^bright NK cells from CITE-seq data. Here, we provide a vignette for reproducing this analysis, which can be used to map cell populations (or clusters of cells) from one data set to another. We also provide interactive access to the single cell data that were annotated with the CD56^bright NK cell-model (Note: the CD56^bright NK cells appear in the “CellStates” annotation layer as red cells).

Links	Tissue	Disease	Number of cells	Number of samples	Source	Signac version
Explore	Kidney	Cancer	48,037	47	Stewart et al. 2019	v2.0.7 + CD56^bright NK
Explore	Kidney and urine	Lupus nephritis and healthy	5,886	39	Arazi et al. 2019	v2.0.7 + CD56^bright NK
Explore	Lung	Cancer	42,844	18	Zilionis et al. 2020	v2.0.7 + CD56^bright NK
Explore	Lung	Fibrosis	96,461	31	Habermann et al. 2020	v2.0.7 + CD56^bright NK
Explore	Lung	Fibrosis	109,421	16	Reyfman et al. 2019	v2.0.7 + CD56^bright NK
Explore	Monkey PBMCs	Healthy	5,491	1	Chamberlain et al. 2021	v2.0.7 + CD56^bright NK
Explore	Monkey PBMCs	Healthy	5,220	1	Chamberlain et al. 2021	v2.0.7 + CD56^bright NK
Explore	Monkey T cells	Healthy	5,496	1	Chamberlain et al. 2021	v2.0.7 + CD56^bright NK
Explore	PBMCs	Cancer	14,048	8	Zilionis et al. 2020	v2.0.7 + CD56^bright NK
Explore	PBMCs	Healthy	4,784	1	10X Genomics	v2.0.7 + CD56^bright NK
Explore	Skin	Atopic dermatitis	36,690	17	He et al. 2020	v2.0.7 + CD56^bright NK
Explore	Synovium	Rheumatoid arthritis and osteoarthritis	8,920	26	Zhang et. al 2019	v2.0.7 + CD56^bright NK