Summary

Myeloid cells (40,821) identified in larger dataset of all cells were isolated and reclustered using TotalVI. Corresponds to Figure 4H in publication.

Metadata

Dataset Type

Integrated. The file includes an integrated collection of datasets.

Total Cells

40,821

organism

Homo sapiens

tissue

liver

assay

10x 3' v2 (33,111 cells)10x 3' v3 (7,710 cells)

disease

normal

reported_diseases

[colorectal cancer,chronic obstructive pulmonary disease,prostate cancer,squamous cell carcinoma] (22,121 cells)[colorectal cancer,metastatic malignant neoplasm] (11,549 cells)[morbid obesity,hypothyroidism] (1,452 cells)[type 2 diabetes mellitus,abdominal obesity-metabolic syndrome,cystadenocarcinoma,hemorrhoid,hepatocellular carcinoma,Parkinson disease] (1,257 cells)[nasal cavity polyp,cholecystolithiasis,asthma,obesity disorder] (1,093 cells)[meningitis,injury,migraine disorder] (808 cells)[endometriosis,hydrosalpinx,hepatocellular adenoma,vitamin deficiency disorder] (804 cells)[hepatocellular adenoma] (632 cells)[cholecystolithiasis,thyroid tumor,chronic kidney disease,cataract,spinal stenosis,type 2 diabetes mellitus,bursitis,prostatitis] (624 cells)[cataract,cholecystolithiasis,carpal tunnel syndrome] (178 cells)[cholecystolithiasis,idiopathic progressive polyneuropathy,ovarian cyst,pulmonary arterial hypertension,cystic hygroma,congenital diaphragmatic hernia,hemorrhoid,chronic kidney disease,type 2 diabetes mellitus,obstructive sleep apnea syndrome,pituitary gland adenoma] (115 cells)[hyperlipidemia,abscess,urticaria,pulmonary arterial hypertension,acute myocardial infarction,morbid obesity] (95 cells)[Hashimoto thyroiditis,insomnia,gastroesophageal reflux disease,spinal stenosis,morbid obesity,carpal tunnel syndrome] (93 cells)

mapped_reference_annotation

GENCODE 19

typeSample

scRnaSeq (22,526 cells)citeSeq (18,295 cells)

digest

exVivo Collagenase A + DNase

sample

CS41 (6,481 cells)CS44 (5,798 cells)CS43 (5,239 cells)CS42 (4,603 cells)CS34 (3,408 cells)CS112 (1,452 cells)CISE07 (1,354 cells)CISE06 (1,297 cells)CISE09 (1,250 cells)CISE08 (1,184 cells)CS126 (1,093 cells)CS109 (890 cells)CS87 (824 cells)CS32 (824 cells)CS46 (804 cells)CS33 (754 cells)CS110 (656 cells)CS85 (654 cells)CS101 (632 cells)CS81 (624 cells)CS108 (367 cells)CS83 (178 cells)CS111 (152 cells)CS71 (95 cells)CS73 (93 cells)CS37 (58 cells)CS38 (57 cells)

tissue_type

Liver

donor_id

H06 (22,121 cells)H02 (10,071 cells)H16 (1,478 cells)H23 (1,452 cells)H21 (1,257 cells)H25 (1,093 cells)H22 (808 cells)H07 (804 cells)H18 (632 cells)H13 (624 cells)H14 (178 cells)H04 (115 cells)H10 (95 cells)H11 (93 cells)

sex

male (32,911 cells)female (7,910 cells)

Cell Labels

author_cell_type (10)

40,821 cells

Mono

19,112

Pat Mono

7,842

cDC2s

3,849

ResKCs

3,442

Mac1

2,264

Pre-moKCs and moKCs

1,732

cDC1s

1,196

immature LAMs

761

mature LAMs

531

Mig cDCs

92