HCA Gut Cell Atlas v1 Lymphoid Lineage

Main

Cell Metadata

Summary

Healthy and adjacent-to-disease control data from 27 gut single-cell RNAseq datasets were collected and integrated to form v1 of the Human Gut Cell Atlas lymphoid lineage

Metadata

Dataset Type: Integrated. The file includes an integrated collection of datasets.
Total Cells: 579,238
organism: Homo sapiens
assay: 10x 3' v3 (302,644 cells)10x 3' v2 (129,893 cells)10x 5' v1 (87,164 cells)10x 5' v2 (38,839 cells)10X 5' v3 (20,698 cells)
disease: normal (463,562 cells)Crohn disease (64,781 cells)colorectal cancer (17,165 cells)digestive system disorder; inflammatory disease (14,671 cells)

Summary

Healthy and adjacent-to-disease control data from 27 gut single-cell RNAseq datasets were collected and integrated to form v1 of the Human Gut Cell Atlas lymphoid lineage

Metadata

Dataset Type: Integrated. The file includes an integrated collection of datasets.
Total Cells: 579,238
organism: Homo sapiens
assay: 10x 3' v3 (302,644 cells)10x 3' v2 (129,893 cells)10x 5' v1 (87,164 cells)10x 5' v2 (38,839 cells)10X 5' v3 (20,698 cells)
disease: normal (463,562 cells)Crohn disease (64,781 cells)colorectal cancer (17,165 cells)digestive system disorder; inflammatory disease (14,671 cells)

tissue

ileum (186,030 cells)jejunum (171,792 cells)colon (159,787 cells)gastrointestinal system mesentery (26,120 cells)caecum (9,249 cells)transverse colon (8,913 cells)sigmoid colon (8,751 cells)duodenum (5,235 cells)rectum (1,539 cells)small intestine (802 cells)vermiform appendix (608 cells)descending colon (412 cells)

Prelim annotation

Description

Cell annotations (Prelim annotation) are based on the finest possible label that could be used to describe each of the ~500 clusters found during integration and subclustering

Annotation Method

both