Homo sapiens

Plasmablast Effector memory cd4-positive, alpha-beta t cell Mucosal invariant t cell Germinal center b cell Cd16-positive, cd56-dim natural killer cell, human Mast cell Dendritic cell, human Alveolar macrophage Pro-b cell Alpha-beta t cell Memory b cell Plasma cell Gamma-delta t cell Regulatory t cell Megakaryocyte Naive thymus-derived cd4-positive, alpha-beta t cell Naive thymus-derived cd8-positive, alpha-beta t cell Non-classical monocyte Precursor b cell Plasmacytoid dendritic cell Cd4-positive helper t cell Erythroid lineage cell Lymphocyte Progenitor cell Effector memory cd8-positive, alpha-beta t cell, terminally differentiated Cd16-negative, cd56-bright natural killer cell, human Macrophage Group 3 innate lymphoid cell Conventional dendritic cell Cd8-positive, alpha-beta memory t cell Classical monocyte Cd8-positive, alpha-beta memory t cell, cd45ro-positive Naive b cell T follicular helper cell

Sigmoid colon Lung Transverse colon Caecum Mesenteric lymph node Liver Lamina propria Jejunal epithelium Ileum Blood Bone marrow Omentum Spleen Thymus Skeletal muscle tissue Duodenum Thoracic lymph node

Sixth decade stage Eighth decade stage Seventh decade stage

Normal

Female Male

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

Cell

Homo sapiens

Myeloid cell Mast cell Epithelial cell Stromal cell B cell Hepatocyte Plasmacytoid dendritic cell Lymphocyte Erythrocyte Endothelial cell

Primary biliary cholangitis Hepatocellular carcinoma Metabolic dysfunction-associated steatohepatitis Alcoholic liver cirrhosis Normal

10x 3' v3 10x 3' v2

Homo sapiens

Cd14-low, cd16-positive monocyte Intermediate monocyte Cd14-positive, cd16-negative classical monocyte

Blood

35-year-old stage 62-year-old stage 27-year-old stage 26-year-old stage 61-year-old stage 57-year-old stage 36-year-old stage 12-year-old stage 59-year-old stage 30-year-old stage 55-year-old stage 58-year-old stage 64-year-old stage 29-year-old stage 11-year-old stage 33-year-old stage 32-year-old stage 28-year-old stage 31-year-old stage 63-year-old stage 60-year-old stage 25-year-old stage 56-year-old stage 65-year-old stage 34-year-old stage

Cytomegalovirus infection Normal

Female Male

10x 3' v3

Cell

Homo sapiens

Embryonic fibroblast Group 3 innate lymphoid cell, human Placental villous trophoblast Granulocyte Epithelial cell Stromal cell Plasma cell Uterine smooth muscle cell Decidual natural killer cell, human Dendritic cell B cell Regulatory t cell Hofbauer cell Endothelial cell of uterus Endothelial cell of lymphatic vessel Natural killer cell Macrophage Extravillous trophoblast Syncytiotrophoblast cell T cell Trophoblast giant cell Endothelial cell of placenta

Placenta Blood Decidua Decidua basalis

Carnegie stage 18 10th week post-fertilization stage Carnegie stage 23 Carnegie stage 22 Carnegie stage 14 11th week post-fertilization stage 12th week post-fertilization stage 9th week post-fertilization stage Carnegie stage 16

Normal

Female

10x multiome 10x 3' v3 10x 3' v2

Cell Nucleus

Homo sapiens

Fibroblast Enteroendocrine cell Keratinocyte Eurydendroid cell Glial cell Smooth muscle cell Melanocyte Epithelial cell Stromal cell Interstitial cell of cajal Chondrocyte Vascular associated smooth muscle cell Epithelial cell of nephron Myofibroblast cell Hepatocyte Cell of skeletal muscle Skeletal muscle satellite cell Osteoblast Mesothelial cell Neuron Endothelial cell

Skin of body Mesenteric lymph node Liver Gut wall Bone marrow Kidney Spleen Yolk sac Thymus

Carnegie stage 19 Carnegie stage 20 14th week post-fertilization stage 10th week post-fertilization stage Carnegie stage 23 16th week post-fertilization stage Carnegie stage 22 Carnegie stage 13 15th week post-fertilization stage 11th week post-fertilization stage 13th week post-fertilization stage 12th week post-fertilization stage 9th week post-fertilization stage 17th week post-fertilization stage

Normal

Female Male

10x 5' v1 10x 3' v2

Cell

Homo sapiens

Fibroblast Alveolar type 1 fibroblast cell Plasmablast Effector memory cd4-positive, alpha-beta t cell Ionocyte Cd16-positive, cd56-dim natural killer cell, human Mast cell Effector memory cd8-positive, alpha-beta t cell Dendritic cell, human Vein endothelial cell Alveolar macrophage Central memory cd4-positive, alpha-beta t cell Memory b cell Plasma cell Regulatory t cell Fibroblast of lung Capillary endothelial cell Alveolar capillary type 2 endothelial cell Pericyte Myofibroblast cell Club cell Smooth muscle cell of the pulmonary artery Non-classical monocyte Pulmonary alveolar type 2 cell Plasmacytoid dendritic cell Goblet cell Muscle cell Pulmonary alveolar type 1 cell Effector memory cd8-positive, alpha-beta t cell, terminally differentiated Endothelial cell of lymphatic vessel Cd16-negative, cd56-bright natural killer cell, human Natural killer cell Macrophage Erythrocyte Conventional dendritic cell Basal cell Classical monocyte Mesothelial cell T cell Lung multiciliated epithelial cell Naive b cell T follicular helper cell Endothelial cell of artery

Lower lobe of left lung Lung Bronchus Lung parenchyma Upper lobe of left lung

54-year-old stage 35-year-old stage 62-year-old stage 21-year-old stage 61-year-old stage Sixth decade stage 49-year-old stage 41-year-old stage 59-year-old stage Eighth decade stage 23-year-old stage 58-year-old stage 75-year-old stage 22-year-old stage 50-year-old stage 51-year-old stage 64-year-old stage 29-year-old stage 66-year-old stage 32-year-old stage Fifth decade stage 31-year-old stage 25-year-old stage 56-year-old stage 37-year-old stage 46-year-old stage 67-year-old stage 20-year-old stage 65-year-old stage Seventh decade stage

Normal

Female Male

10x 5' transcription profiling 10x 3' v2

Cell

Mus musculus

Peritubular capillary endothelial cell Fibroblast Renal cortical fibroblast Epithelial cell of proximal tubule segment 3 Kidney loop of henle thin descending limb epithelial cell Kidney loop of henle thick ascending limb epithelial cell Schwann cell Kidney efferent arteriole endothelial cell Inflammatory macrophage Parietal epithelial cell Glomerular capillary endothelial cell Kidney resident macrophage Kidney loop of henle short descending thin limb epithelial cell Epithelial cell of proximal tubule Podocyte Kidney cortex collecting duct principal cell Vasa recta ascending limb cell Kidney cortex peritubular capillary cell Vein endothelial cell Kidney connecting tubule epithelial cell Kidney loop of henle cortical thick ascending limb epithelial cell Adventitial fibroblast Vasa recta descending limb cell Plasma cell Kidney collecting duct alpha-intercalated cell Dendritic cell B cell Kidney inner medulla collecting duct epithelial cell Epithelial cell of proximal tubule segment 1 Vascular associated smooth muscle cell Renal beta-intercalated cell Myofibroblast cell Juxtaglomerular complex cell Kidney interstitial fibroblast Kidney loop of henle thin ascending limb epithelial cell Adipocyte Endothelial cell of venule Kidney distal convoluted tubule epithelial cell Mesangial cell Natural killer cell Macrophage Papillary tips cell Renal medullary fibroblast Kidney loop of henle medullary thick ascending limb epithelial cell Macula densa epithelial cell Classical monocyte Kidney collecting duct principal cell Epithelial cell of proximal tubule segment 2 T cell Endothelial cell

Kidney

12-month-old stage 2-month-old stage 7-month-old stage 20-month-old stage 4-month-old stage 3-6 month-old mature stage 3-month-old stage

Acute kidney failure Normal

Female Male

10x multiome 10x 3' v2

Nucleus

Drosophila melanogaster

Enterocyte of anterior adult midgut epithelium Maxillary palp olfactory receptor neuron Eo sensory organ accessory cell Mechanosensory neuron of leg chordotonal organ Adult brain cell body glial cell Transmedullary neuron tm20 Adult olfactory receptor neuron gr21a/63a Cardial cell Adult abdominal pericardial cell T2a neuron Lamina monopolar neuron l5 Adult midgut enterocyte Medulla intrinsic neuron mi1 Adult malpighian tubule principal cell of initial segment Proximal medullary amacrine neuron pm2 Transmedullary neuron tm4 Transmedullary y neuron tmy8 Kenyon cell Transmedullary neuron tm1 Spermatid Lamina monopolar neuron l2 Dopaminergic neuron Posterior terminal follicle cell Early-mid elongation-stage spermatid Medulla intrinsic neuron mi15 Photoreceptor cell r8 Gustatory receptor neuron Transmedullary neuron tm5c Distal medullary amacrine neuron dm3 Outer photoreceptor cell Adult malpighian tubule principal cell of lower ureter Male accessory gland secondary cell Ocellar retinula cell Adult differentiating enterocyte Medulla intrinsic neuron mi4 Cns surface glial cell Transmedullary neuron tm2 Tormogen cell Adult antennal olfactory receptor neuron Escort cell Compound eye cone cell Copper cell Auditory sensory neuron Spermatocyte cyst cell T2 neuron Alpha'/beta' kenyon cell Multidendritic neuron Stretch follicle cell Adult olfactory receptor neuron or67d Neuron of aristal sensillum Johnston organ neuron Dorsal margin photoreceptor cell Adult enterocyte Hemocyte (sensu arthropoda) Adult astrocyte-like glial cell Adult tracheocyte Epithelial cell Transmedullary y neuron tmy14 Adult olfactory receptor neuron or13a Ensheathing glial cell Visceral muscle cell Proximal medullary amacrine neuron pm4 Adult malpighian tubule principal cell Antennal lobe projection neuron Subperineurial glial cell Antennal olfactory receptor neuron of coeloconic sensillum Adult olfactory receptor neuron or92a Mid-late elongation-stage spermatid Leg taste bristle chemosensory neuron Interfollicle cell Germline cell Lamina wide-field 1 neuron Visual pigment cell (sensu nematoda and protostomia) Adult malpighian tubule stellate cell of main segment Dorsal appendage forming follicle cell Adult dopaminergic pam neuron Intestinal stem cell Somatic muscle cell Ovarian sheath cell Centrifugal neuron c3 Adult olfactory receptor neuron or88a Crystal cell Adult enteroendocrine cell Spermatogonium Polar follicle cell Nociceptive neuron Medulla intrinsic neuron mi9 Transmedullary neuron tm29 Lobula columnar neuron lc12 Transmedullary neuron tm9 Lamina wide-field 2 neuron Lobula columnar neuron lc17 Cyst cell of testis Cell body glial cell Sensory neuron Transmedullary y neuron tmy4 Adult brain perineurial glial cell Chordotonal neuron Indirect flight muscle cell Adult glial cell Head cyst cell Adult neuron Cyst progenitor cell Perineurial glial cell Muscle cell Adult oenocyte Adult olfactory receptor neuron or65 Adult cholinergic neuron Enterocyte of posterior adult midgut epithelium Tendon cell Labral sense organ mechanosensory neuron Male accessory gland main cell Enteroblast Distal medullary amacrine neuron dm10 Antennal olfactory receptor neuron of basiconic sensillum Lobula columnar neuron lc10 Distal medullary amacrine neuron dm8a Transmedullary neuron tm3 Distal medullary amacrine neuron dm12 Adult optic chiasma glial cell Optic-lobe-associated cortex glial cell Transmedullary y neuron tmy5a Main body follicle cell T3 neuron Follicle cell of egg chamber Lamina monopolar neuron l1 Early elongation stage spermatid Eye photoreceptor cell Leg muscle motor neuron Olfactory receptor neuron Lamina monopolar neuron l4 Distal medullary amacrine neuron dm9 Midgut large flat cell Adult olfactory receptor neuron ir75d Enteroendocrine cell Fat body cell Spermatocyte Adult malpighian tubule bar-shaped cell of initial segment Adult olfactory receptor neuron or47b Columnar neuron t1 Adult renal stem cell Neuron Adult malpighian tubule principal cell of lower segment Centrifugal neuron c2 Distal medullary amacrine neuron dm11 Gustatory receptor neuron of the labellum Gamma kenyon cell Photoreceptor cell r7 Lamina monopolar neuron l3 Mechanosensory neuron

Dorsal vessel heart Digestive tract Open tracheal system trachea Arthropod fat body Panarthropod head Insect proboscis Body wall Post-embryonic organism Male reproductive gland Antenna Imaginal disc-derived wing Insect adult thorax Ovary Haltere Insect leg Malpighian tubule Testis

Day 2 of adulthood Day 1 of adulthood Day 5 of adulthood Day 3 of adulthood

Normal

Mixed sex Male Female

10x genomics v3

Mus musculus

Vein endothelial cell Endocardial cell Cerebral cortex endothelial cell Pericyte Embryonic blood vessel endothelial progenitor cell Brain pericyte Endothelial cell of lymphatic vessel Microvascular endothelial cell Endothelial cell of hepatic sinusoid Glomerular endothelial cell Endothelial cell Endothelial cell of artery

Embryo

Theiler stage 26 Theiler stage 18 Theiler stage 13 Theiler stage 24 Theiler stage 15 Theiler stage 14 Theiler stage 12 Theiler stage 23 Theiler stage 20 Theiler stage 22 Theiler stage 16 Theiler stage 21 Theiler stage 25 Theiler stage 27 Theiler stage 17 Theiler stage 19

Normal

Female Male

Sci-rna-seq3

Nucleus

Homo sapiens

Cardiac muscle cell

Heart left ventricle Apex of heart Interventricular septum Heart right ventricle

Third decade stage Postnatal stage Sixth decade stage Fourth decade stage Eighth decade stage Fifth decade stage Pediatric stage Seventh decade stage

Non-compaction cardiomyopathy Arrhythmogenic right ventricular cardiomyopathy Dilated cardiomyopathy Normal

Female Male

10x 3' v3 10x 3' v2

Nucleus

Mus musculus

Myotube Myofibroblast cell Muscle precursor cell Myoblast

Embryo

Theiler stage 26 Theiler stage 18 Theiler stage 13 Theiler stage 24 Theiler stage 15 Theiler stage 14 Theiler stage 12 Theiler stage 23 Theiler stage 20 Theiler stage 22 Theiler stage 16 Theiler stage 21 Theiler stage 25 Theiler stage 27 Theiler stage 17 Theiler stage 19

Normal

Female Male

Sci-rna-seq3

Nucleus

Homo sapiens

Kidney loop of henle thin descending limb epithelial cell Kidney loop of henle thick ascending limb epithelial cell Renal interstitial pericyte Parietal epithelial cell Mast cell Epithelial cell of proximal tubule Podocyte Kidney connecting tubule epithelial cell Neutrophil Mononuclear phagocyte Plasma cell B cell Non-classical monocyte Kidney interstitial alternatively activated macrophage Plasmacytoid dendritic cell, human Kidney interstitial fibroblast Kidney loop of henle thin ascending limb epithelial cell Neural cell Kidney distal convoluted tubule epithelial cell Papillary tips cell Kidney collecting duct intercalated cell Conventional dendritic cell Mature nk t cell Kidney collecting duct principal cell T cell Endothelial cell

Cortex of kidney Renal papilla Kidney Renal medulla

54-year-old stage Third decade stage 57-year-old stage Sixth decade stage Fourth decade stage 45-year-old stage 59-year-old stage Eighth decade stage 14-year-old stage 29-year-old stage 66-year-old stage 69-year-old stage 76-year-old stage Fifth decade stage 63-year-old stage Seventh decade stage

Chronic kidney disease Acute kidney failure Normal

Female Male

10x 3' v3

Nucleus