Human PBMC atlas - T CD8 naive cells

Summary

Metadata

Dataset Type

Integrated. The file includes an integrated collection of datasets.

Total Cells

540,294

organism

Homo sapiens

tissue

blood

assay

10x 3' v2 (168,120 cells)10x 5' v2 (145,179 cells)10x 5' v1 (140,135 cells)10x 3' v3 (86,860 cells)

disease

normal (331,913 cells)COVID-19 (136,432 cells)systemic lupus erythematosus (50,579 cells)infectious disease with sepsis (6,413 cells)respiratory system disorder (4,745 cells)bacterial pneumonia (3,957 cells)post-COVID-19 disorder (3,499 cells)infectious disease (1,407 cells)influenza (864 cells)viral pneumonia (485 cells)

Cell Labels

Level_4

Description

Clustering was Leiden based before manual annotation and consensus agreement by multiple authors.

Annotation Method

manual

Cell Labels (16)

Cells (540,294)

T CD8 naive quiesc

165,991

T CD8 naive activ FOS_JUN

93,459

T CD8 naive CISH

56,859

T CD8 CM GATA3

38,015

T CD8 naive quiesc C1orf56

32,877

T CD8 CM CCL5

27,402

T CD8 CM HLA GATA3 LMNA

22,451

T CD8 EM activ NR4A2

22,283

T CD8 EM GZMK

20,240

T CD8 CM KLRC1

13,727

T CD8 naive activ NR4A2

13,412

T CD8 naive IFN

10,762

Level_1

Description

Similar clusters with shared features from level 2 were manually merged to one level higher in the hierarchy to determine clustering.

Annotation Method

manual

Cell Labels (1)

Cells (540,294)

TCD8_innate

540,294

Level_2

Description

Similar clusters with shared features from level 3 were manually merged to one level higher in the hierarchy to determine clustering.

Annotation Method

manual

Cell Labels (2)

Cells (540,294)

T CD8 Naive

388,582

T CD8 Memory/Effector

151,712

Level_3

Description

Similar clusters with shared features from level 4 were manually merged to one level higher in the hierarchy to determine clustering.

Annotation Method

manual

Cell Labels (3)

Cells (540,294)

T CD8 Naive

388,582

T CD8 CM

109,189

T CD8 EM

42,523