CD45 negative cells from human liver dataset

Summary

CD45- structural cells/nuclei (15,481) were identified in larger dataset of all cells, isolated and reclustered with scVI. Corresponds to Figure 5A in publication.

Metadata

Dataset Type

Integrated. The file includes an integrated collection of datasets.

Total Cells

15,481

organism

Homo sapiens

tissue

liver

assay

10x 3' v3 (15,020 cells)10x 3' v2 (461 cells)

disease

normal

reported_diseases

[cholecystolithiasis,obesity disorder] (7,699 cells)[type 2 diabetes mellitus,obstructive sleep apnea syndrome,obesity disorder,hypertensive disorder,depressive disorder,coronary artery disorder] (5,212 cells)[cholelithiasis,obesity disorder] (1,322 cells)[meningitis,injury,migraine disorder] (307 cells)[metastatic malignant neoplasm,colorectal cancer] (288 cells)[nasal cavity polyp,cholecystolithiasis,asthma,obesity disorder] (262 cells)[hepatocellular adenoma,endometriosis,vitamin deficiency disorder,hydrosalpinx] (130 cells)[chronic obstructive pulmonary disease,prostate cancer,colorectal cancer,squamous cell carcinoma] (113 cells)[hypothyroidism,morbid obesity] (42 cells)[type 1 diabetes mellitus,abscess] (41 cells)[Parkinson disease,type 2 diabetes mellitus,abdominal obesity-metabolic syndrome,hepatocellular carcinoma,cystadenocarcinoma,hemorrhoid] (31 cells)[hepatocellular adenoma] (21 cells)[cataract,cholecystolithiasis,carpal tunnel syndrome] (8 cells)[obesity disorder] (5 cells)

mapped_reference_annotation

GENCODE 19

typeSample

nucSeq (10,513 cells)scRnaSeq (4,869 cells)citeSeq (99 cells)

digest

nuclei (10,513 cells)exVivo Collagenase A and DNase (4,968 cells)

sample

CS170 (3,933 cells)CS171 (3,766 cells)CS167 (2,294 cells)CS166 (2,260 cells)CS161 (721 cells)CS169 (658 cells)CS162 (601 cells)CS111 (245 cells)CS127 (245 cells)CS31 (218 cells)CS46 (130 cells)CS110 (62 cells)CS85 (53 cells)CS112 (42 cells)ABU8 (41 cells)CS43 (40 cells)CS41 (27 cells)CS42 (25 cells)CS109 (24 cells)CS44 (21 cells)CS101 (21 cells)CS87 (17 cells)CS126 (17 cells)CS83 (8 cells)CS108 (7 cells)CS164 (5 cells)

tissue_type

Liver

donor_id

H38 (7,699 cells)H37 (5,212 cells)H30 (1,322 cells)H22 (307 cells)H25 (262 cells)H02 (218 cells)H07 (130 cells)H06 (113 cells)H16 (70 cells)H23 (42 cells)H33 (41 cells)H21 (31 cells)H18 (21 cells)H14 (8 cells)H32 (5 cells)

sex

female (9,892 cells)male (5,589 cells)

Cell Labels

author_cell_type (8)

15,481 cells

Hepatocytes

10,766

LSECs

2,474

Stellate cells

1,090

Cholangiocytes

669

Portal Vein Endothelial cells

228

Central Vein Endothelial cells

132

Fibroblasts

103

VSMCs

19