Homo sapiens

Inflammatory macrophage Classical monocyte Cd4-positive, alpha-beta t cell Non-classical monocyte Leukocyte Macrophage Mucosal invariant t cell Cholangiocyte Cd16-negative, cd56-bright natural killer cell, human Endothelial cell of periportal hepatic sinusoid Neutrophil Periportal region hepatocyte Dendritic cell, human Conventional dendritic cell Fibroblast Effector memory cd8-positive, alpha-beta t cell B cell Hepatic stellate cell Plasma cell Endothelial cell of pericentral hepatic sinusoid Plasmacytoid dendritic cell Effector memory cd8-positive, alpha-beta t cell, terminally differentiated Midzonal region hepatocyte Natural killer cell Cd16-positive, cd56-dim natural killer cell, human Centrilobular region hepatocyte

Liver Caudate lobe of liver

66-year-old stage 70-year-old stage Young adult stage 77-year-old stage 21-year-old stage Prime adult stage 46-year-old stage 52-year-old stage 44-year-old stage 64-year-old stage 45-year-old stage 65-year-old stage 67-year-old stage 75-year-old stage Adult stage 28-year-old stage 58-year-old stage 68-year-old stage 34-year-old stage 49-year-old stage 53-year-old stage 72-year-old stage 73-year-old stage 26-year-old stage 69-year-old stage 41-year-old stage 55-year-old stage

Normal

Female Male

Cel-seq2 10x 3' v3 10x 3' v2

Cell Nucleus

Mus musculus

Astrocyte Oligodendrocyte precursor cell Oligodendrocyte Neural stem cell Leptomeningeal cell Microglial cell Pericyte Endothelial cell

Orbitofrontal cortex Anterior olfactory nucleus Caudate-putamen Dentate gyrus of hippocampal formation Primary somatosensory cortex Olfactory cortex Lateral septal complex Primary auditory cortex Anterior cerebral artery Pallidum Cerebral cortex Primary motor cortex Hippocampal field Piriform cortex Nucleus accumbens Secondary somatosensory cortex

Prime adult stage

Normal

Male

Scatac-seq

Nucleus

Homo sapiens

Macrophage Mast cell Neutrophil Monocyte Fibroblast Endothelial cell B cell Dendritic cell Plasma cell T cell Smooth muscle cell Natural killer cell

Coronary artery Femoral artery Carotid artery segment

80-year-old stage 82-year-old stage 66-year-old stage 79-year-old stage 77-year-old stage 76-year-old stage 62-year-old stage 46-year-old stage 64-year-old stage 89-year-old stage 74-year-old stage 65-year-old stage 67-year-old stage 75-year-old stage 71-year-old stage 78-year-old stage 59-year-old stage 54-year-old stage 58-year-old stage 87-year-old stage 81-year-old stage 83-year-old stage

Atherosclerosis

Female Male

10x 3' v3 10x 3' v2

Cell

Homo sapiens

Radial glial cell Oligodendrocyte Macrophage Neural crest cell Neuroblast (sensu vertebrata) Cell Neuroblast (sensu nematoda and protostomia) Fibroblast Neuroplacodal cell Erythrocyte Neuron Glioblast

Cerebellar peduncular complex Midbrain Midbrain tectum

9th week post-fertilization stage 13th week post-fertilization stage 12th week post-fertilization stage 10th week post-fertilization stage 15th week post-fertilization stage Carnegie stage 15 Carnegie stage 20 Carnegie stage 16

Normal

10x 3' v3 10x 3' v2

Cell

Homo sapiens

Epithelial cell of thymus Naive b cell Cd4-positive, alpha-beta memory t cell Cd4-positive, alpha-beta t cell Double-positive, alpha-beta thymocyte Lymphocyte Macrophage Medullary thymic epithelial cell Mast cell Monocyte Megakaryocyte Double negative thymocyte Progenitor cell Cd8-positive, alpha-beta memory t cell Vascular associated smooth muscle cell Fibroblast Group 3 innate lymphoid cell Endothelial cell Alpha-beta t cell Cd8-alpha-alpha-positive, alpha-beta intraepithelial t cell Cd8-positive, alpha-beta t cell Early t lineage precursor Cortical thymic epithelial cell Dendritic cell Plasma cell Erythrocyte Regulatory t cell T cell Memory b cell Plasmacytoid dendritic cell Precursor b cell Natural killer cell Gamma-delta t cell

Thymus

9th week post-fertilization stage 6-month-old stage 15-month-old stage 3-month-old stage Fourth decade stage 13th week post-fertilization stage 12th week post-fertilization stage 10th week post-fertilization stage Juvenile stage (5-14 yo) 2-year-old stage 10-month-old stage 11th week post-fertilization stage 17th week post-fertilization stage 15th week post-fertilization stage Organogenesis stage 16th week post-fertilization stage Third decade stage

Normal

Female Male

10x 5' v1 10x 3' v3 10x 3' v2

Cell

Homo sapiens

Epithelial cell Conjunctival epithelial cell

Corneal epithelium Sclera Tunica fibrosa of eyeball Cornea Corneo-scleral junction Substantia propria of cornea Ocular surface region

16-year-old stage 70-year-old stage 77-year-old stage 32-year-old stage 86-year-old stage 62-year-old stage 22-year-old stage 48-year-old stage 64-year-old stage 45-year-old stage 25-year-old stage 74-year-old stage 33-year-old stage 65-year-old stage 67-year-old stage 1-year-old stage 2-year-old stage Postnatal stage Eighth decade stage 75-year-old stage 27-year-old stage 61-year-old stage 34-year-old stage 51-year-old stage 53-year-old stage 10-year-old stage 72-year-old stage 13-year-old stage 84-year-old stage 39-year-old stage Newborn stage (0-28 days) 69-year-old stage 43-year-old stage 90 year-old and over stage 87-year-old stage 41-year-old stage 55-year-old stage 83-year-old stage 11-year-old stage

Normal

Female Male

10x 3' v3 10x 3' v2

Cell

Homo sapiens

Pro-b cell Naive b cell Igg plasma cell Iga plasma cell Plasmablast Memory b cell Precursor b cell Igm plasma cell Germinal center b cell

Epithelium of esophagus Gingiva Lamina propria of mucosa of colon Body of stomach Duodenal epithelium Ileum Rectum Ileum lamina propria Mesenteric lymph node Parotid gland Epithelium of rectum Caecum Small intestine Esophagus Colonic epithelium Epithelium of stomach Jejunum Transverse colon Labial gland Epithelium of small intestine Pyloric antrum Sigmoid colon Periodontium Duodenum Ileal epithelium Pylorus Colon Intestine Descending colon Ascending colon Stomach Rectosigmoid junction Buccal mucosa Vermiform appendix Colonic mucosa

80-year-old stage 9th week post-fertilization stage 85-year-old stage 66-year-old stage 70-year-old stage Young adult stage Fourth decade stage 77-year-old stage 13th week post-fertilization stage 12th week post-fertilization stage 21-year-old stage 32-year-old stage 50-year-old stage 86-year-old stage 57-year-old stage 76-year-old stage 10th week post-fertilization stage 62-year-old stage Prime adult stage 46-year-old stage 52-year-old stage 60-year-old stage Juvenile stage (5-14 yo) 44-year-old stage 48-year-old stage 45-year-old stage 74-year-old stage 33-year-old stage 65-year-old stage 67-year-old stage 2-year-old stage Eighth decade stage 75-year-old stage 23-year-old stage 37-year-old stage Adult stage 11th week post-fertilization stage 14-year-old stage 6-year-old stage 28-year-old stage 19th week post-fertilization stage 63-year-old stage 17th week post-fertilization stage 59-year-old stage 54-year-old stage Fifth decade stage 31-year-old stage 2-month-old stage 15th week post-fertilization stage 56-year-old stage 58-year-old stage Pediatric stage 68-year-old stage 61-year-old stage 34-year-old stage 51-year-old stage 35-year-old stage 16th week post-fertilization stage 10-year-old stage 72-year-old stage 30-year-old stage 24-year-old stage 13-year-old stage 18th week post-fertilization stage Seventh decade stage 26-year-old stage 84-year-old stage 12-year-old stage 39-year-old stage Newborn stage (0-28 days) 4-year-old stage 9-year-old stage 69-year-old stage Third decade stage 43-year-old stage 5-year-old stage 29-year-old stage 41-year-old stage 81-year-old stage 55-year-old stage Sixth decade stage 11-year-old stage

Ulcerative colitis Inflammatory bowel disease Normal Crohn disease Colorectal cancer Gastric cancer

Female Male

10x 5' v2 10x 5' v1 10x 3' v3 10x 5' transcription profiling 10x 3' v1 10x 3' v2

Cell

Mus musculus

Hypendymal cell Glutamatergic neuron Vascular leptomeningeal cell Oligodendrocyte precursor cell Gabaergic neuron Neural progenitor cell Microglial cell Blood vessel endothelial cell Ependymal cell Erythrocyte Neuron Glioblast

Diencephalon

Theiler stage 24 Theiler stage 26 Theiler stage 20 Theiler stage 22

Normal

Female Male

10x 3' v3

Cell

Homo sapiens

Naive b cell Cd4-positive, alpha-beta memory t cell Double-positive, alpha-beta thymocyte Naive thymus-derived cd4-positive, alpha-beta t cell Mucosal invariant t cell Memory t cell Double negative thymocyte Plasmablast Cd8-positive, alpha-beta memory t cell Naive thymus-derived cd8-positive, alpha-beta t cell Regulatory t cell T cell Memory b cell Gamma-delta t cell

Blood

66-year-old stage 79-year-old stage 70-year-old stage 77-year-old stage 32-year-old stage 50-year-old stage 57-year-old stage 76-year-old stage 52-year-old stage 60-year-old stage 45-year-old stage 74-year-old stage 67-year-old stage 40-year-old stage 37-year-old stage 71-year-old stage 78-year-old stage 63-year-old stage 59-year-old stage 54-year-old stage 47-year-old stage 58-year-old stage 61-year-old stage 51-year-old stage 49-year-old stage 35-year-old stage 53-year-old stage 73-year-old stage 30-year-old stage 24-year-old stage 84-year-old stage 55-year-old stage

Normal Covid-19

Female Male

10x 5' v1

Cell

Homo sapiens

Schwann cell Mural cell Muscle cell Lymphocyte Endothelial cell of vascular tree Epithelial cell Fibroblast Odontoblast Melanocyte Myeloid cell

Gingiva Submandibular gland Mucosa of lip Parotid gland Minor salivary gland Sublingual gland Mucosa of dorsum of tongue Soft palate Hard palate Periodontium Dental pulp Buccal mucosa

Young adult stage Fourth decade stage 21-year-old stage 32-year-old stage 57-year-old stage 62-year-old stage 22-year-old stage 48-year-old stage 33-year-old stage 65-year-old stage 40-year-old stage 28-year-old stage 59-year-old stage 20-year-old stage 31-year-old stage 56-year-old stage 68-year-old stage 61-year-old stage 34-year-old stage 51-year-old stage 35-year-old stage 53-year-old stage 30-year-old stage 24-year-old stage Seventh decade stage 26-year-old stage 39-year-old stage 69-year-old stage 29-year-old stage Sixth decade stage

Normal

Female Male

10x 3' v3 10x 3' v2

Cell

Homo sapiens

Schwann cell Pancreatic ductal cell Leukocyte Pancreatic acinar cell Mast cell Type b pancreatic cell Pancreatic epsilon cell Pancreatic d cell Endothelial cell Pancreatic stellate cell Pancreatic pp cell Pancreatic a cell

Islet of langerhans

66-year-old stage 21-year-old stage 32-year-old stage 50-year-old stage 57-year-old stage 62-year-old stage 52-year-old stage 60-year-old stage 48-year-old stage 45-year-old stage 25-year-old stage 40-year-old stage 37-year-old stage 63-year-old stage 59-year-old stage 54-year-old stage 58-year-old stage 61-year-old stage 34-year-old stage 51-year-old stage 49-year-old stage 42-year-old stage 35-year-old stage 53-year-old stage 30-year-old stage 26-year-old stage 38-year-old stage 55-year-old stage

Normal Prediabetes syndrome Type 2 diabetes mellitus

Female Male

10x 3' v3 10x 3' v2

Cell

Mus musculus

Kidney loop of henle thick ascending limb epithelial cell Kidney cell Immature t cell Bladder cell Smooth muscle cell of the pulmonary artery Kupffer cell Cardiac neuron Promonocyte Schwann cell Pulmonary interstitial fibroblast Pancreatic ductal cell Naive b cell Endothelial cell of hepatic sinusoid Mesenchymal stem cell Classical monocyte Cardiac muscle cell Endothelial cell of lymphatic vessel Endothelial cell of coronary artery Kidney loop of henle ascending limb epithelial cell Dn3 thymocyte Cd4-positive, alpha-beta t cell Pulmonary alveolar type 2 cell Club cell Pulmonary neuroendocrine cell Intestinal crypt stem cell Non-classical monocyte Leukocyte Lymphocyte Macrophage Pancreatic acinar cell Kidney distal convoluted tubule epithelial cell Alveolar macrophage Endocardial cell Enterocyte of epithelium of large intestine Late pro-b cell Stromal cell Dn4 thymocyte Kidney collecting duct principal cell Mast cell Basal cell Blood cell Epithelial cell Type b pancreatic cell Multiciliated columnar cell of tracheobronchial tree Megakaryocyte-erythroid progenitor cell Duct epithelial cell Macrophage dendritic cell progenitor Naive t cell Pancreatic d cell Neutrophil Basal epithelial cell of tracheobronchial tree Monocyte Cell of skeletal muscle Myeloid dendritic cell Basal cell of epidermis Granulocytopoietic cell Keratinocyte stem cell Luminal epithelial cell of mammary gland Immature b cell Double negative thymocyte Tuft cell Epithelial cell of proximal tubule Vein endothelial cell Granulocyte Bladder urothelial cell Fibroblast Hepatocyte Hematopoietic precursor cell Hematopoietic stem cell Pericyte Endothelial cell Skeletal muscle satellite cell Myeloid leukocyte Erythroid progenitor cell, mammalian Pancreatic stellate cell Pancreatic pp cell Adventitial cell Mesenchymal cell Pancreatic a cell Intermediate monocyte Erythroblast B cell Thymocyte Epidermal cell Kidney capillary endothelial cell Immature nk t cell Cd8-positive, alpha-beta t cell Lung macrophage Hepatic stellate cell Bronchial smooth muscle cell Kidney proximal straight tubule epithelial cell Dendritic cell Plasma cell Mesangial cell Erythrocyte Regulatory t cell Fibroblast of cardiac tissue Mature nk t cell T cell Mesenchymal stem cell of adipose tissue Plasmacytoid dendritic cell Smooth muscle cell of trachea Precursor b cell Neuroendocrine cell Fenestrated endothelial cell Kidney proximal convoluted tubule epithelial cell Stem cell of epidermis Kidney collecting duct epithelial cell Fibroblast of lung Smooth muscle cell Basophil Proerythroblast Plasmatocyte Large intestine goblet cell Epithelial cell of large intestine Keratinocyte Natural killer cell Chondrocyte Kidney cortex artery cell Professional antigen presenting cell Langerhans cell Myeloid cell

Thymus Liver Spleen Lung Trachea Mammary gland Kidney Pancreas Adipose tissue Tongue Limb muscle Bone marrow Skin of body Bladder lumen Heart Large intestine

3-month-old stage 20-month-old stage and over 18-month-old stage 4-week-old stage

Normal

Female Male

10x 3' v2

Cell