Mus musculus

L2/3 intratelencephalic projecting glutamatergic neuron L6 intratelencephalic projecting glutamatergic neuron Vascular leptomeningeal cell Astrocyte Oligodendrocyte precursor cell Oligodendrocyte Sncg gabaergic interneuron L6 corticothalamic-projecting glutamatergic cortical neuron L4/5 intratelencephalic projecting glutamatergic neuron Sst gabaergic interneuron L5/6 near-projecting glutamatergic neuron L5 intratelencephalic projecting glutamatergic neuron Microglial cell Lamp5 gabaergic interneuron L6b glutamatergic cortical neuron Pericyte Endothelial cell Perivascular macrophage Smooth muscle cell L5 extratelencephalic projecting glutamatergic cortical neuron Vip gabaergic interneuron Pvalb gabaergic interneuron

Cerebral cortex

Prime adult stage

Normal

Male

10x 3' v3

Nucleus

Homo sapiens

Cardiac neuron Mural cell Cardiac endothelial cell Cardiac muscle cell Lymphocyte Mast cell Adipocyte Fibroblast of cardiac tissue Myeloid cell

Apex of heart Heart left ventricle

19-year-old stage 70-year-old stage 21-year-old stage 32-year-old stage 52-year-old stage 64-year-old stage 25-year-old stage Eighth decade stage 27-year-old stage 28-year-old stage Fifth decade stage 31-year-old stage 61-year-old stage 49-year-old stage 30-year-old stage 24-year-old stage Seventh decade stage 26-year-old stage Third decade stage 29-year-old stage 38-year-old stage 55-year-old stage Sixth decade stage

Normal Myocarditis

Female Male

10x 3' v3 10x 3' v2

Nucleus

Homo sapiens

Schwann cell Neuroblast (sensu vertebrata) Fibroblast

Neck Adrenal gland Liver Cervical lymph node Chest Abdomen Lymph node

6-month-old stage 15-month-old stage 16-month-old stage 20-month-old stage 2-year-old stage 12-month-old stage 21-month-old stage 13-year-old stage 3-year-old stage 12-year-old stage 7-year-old stage 4-year-old stage 18-month-old stage 5-year-old stage

Neuroblastoma

Female Male

10x 3' v3

Nucleus

Mus musculus

Kidney connecting tubule epithelial cell Parietal epithelial cell Kidney loop of henle ascending limb epithelial cell Macrophage Kidney distal convoluted tubule epithelial cell Kidney loop of henle descending limb epithelial cell Kidney collecting duct principal cell Epithelial cell of proximal tubule Kidney collecting duct intercalated cell Ureteric bud cell Epithelial cell of proximal tubule segment 2 Conventional dendritic cell Fibroblast Podocyte Urothelial cell Epithelial cell of proximal tubule segment 1 Endothelial cell Metanephric nephron tubule epithelial cell Plasma cell T cell Epithelial cell of proximal tubule segment 3

Kidney

Theiler stage 24 21-day-old stage 21-month-old stage 12-month-old stage 3-6 month-old mature stage Theiler stage 27

Normal

Female Male

10x multiome

Nucleus

Homo sapiens

Slow muscle cell Capillary endothelial cell Mural cell Mesenchymal stem cell Endothelial cell of lymphatic vessel Lymphocyte Macrophage Secondary lymphoid organ macrophage Skeletal muscle satellite stem cell Mast cell Erythroid lineage cell Adipocyte Tendon cell Cell of skeletal muscle Vein endothelial cell Fibroblast Pericyte Endothelial cell of artery Fast muscle cell

Muscle tissue Muscle of abdomen Skeletal muscle organ, vertebrate Muscle of pelvic diaphragm Rectus abdominis muscle

82-year-old stage 19-year-old stage 79-year-old stage 70-year-old stage 77-year-old stage 21-year-old stage 76-year-old stage 62-year-old stage 22-year-old stage 74-year-old stage 75-year-old stage 71-year-old stage Adult stage 59-year-old stage 54-year-old stage 20-year-old stage 61-year-old stage 72-year-old stage 90-year-old stage 43-year-old stage 38-year-old stage 81-year-old stage

Normal

Female Male

Smart-seq2 10x 5' v1 10x 3' v3 10x 5' transcription profiling 10x 3' v2

Cell Nucleus

Homo sapiens

Innate lymphoid cell Cd4-positive, alpha-beta t cell Macrophage Mast cell Naive t cell Neutrophil Monocyte Conventional dendritic cell Intraepithelial lymphocyte B cell Cd8-positive, alpha-beta t cell Dendritic cell Plasma cell Regulatory t cell T cell Plasmacytoid dendritic cell Natural killer cell

Ileum Ileum lamina propria Small intestine Epithelium of small intestine Lamina propria of small intestine Ileal epithelium

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

Normal Crohn disease

Female Male

10x 3' v3 10x 3' v2

Cell

Homo sapiens

Naive b cell Classical monocyte Innate lymphoid cell Non-classical monocyte Leukocyte Macrophage Mucosal invariant t cell Effector memory cd4-positive, alpha-beta t cell Mast cell Cd16-negative, cd56-bright natural killer cell, human Erythroid lineage cell Neutrophil Megakaryocyte Plasmablast Dendritic cell, human Conventional dendritic cell Central memory cd4-positive, alpha-beta t cell Effector memory cd8-positive, alpha-beta t cell Endothelial cell Central memory cd8-positive, alpha-beta t cell B cell Plasma cell Erythrocyte Regulatory t cell Memory b cell Plasmacytoid dendritic cell Effector memory cd8-positive, alpha-beta t cell, terminally differentiated T follicular helper cell Hematopoietic multipotent progenitor cell Gamma-delta t cell Cd16-positive, cd56-dim natural killer cell, human

Spleen

Eighth decade stage 59-year-old stage Fifth decade stage 31-year-old stage 61-year-old stage Seventh decade stage 69-year-old stage Third decade stage Sixth decade stage

Normal

Female Male

Smart-seq2 10x 5' v2 10x 5' v1 10x 3' v3 10x 5' transcription profiling 10x 3' v2

Cell

Mus musculus

Schwann cell Luminal hormone-sensing cell of mammary gland Innate lymphoid cell Cd4-positive, alpha-beta t cell Macrophage Mast cell Luminal adaptive secretory precursor cell of mammary gland Migratory dendritic cell Neutrophil Perivascular cell Fibroblast of mammary gland Conventional dendritic cell Blood vessel endothelial cell Myeloid leukocyte B cell Cd8-positive, alpha-beta t cell Cycling t cell Cd4-positive, cd25-positive, alpha-beta regulatory t cell Plasma cell Lactocyte Plasmacytoid dendritic cell Basal-myoepithelial cell of mammary gland Natural killer cell Mammary gland epithelial cell

Mammary gland

11-month-old stage 12-month-old stage 3-month-old stage 10-month-old stage 18-month-old stage 9-month-old stage 13-month-old stage 8-month-old stage 7-month-old stage

Neoplasm Normal

Female

10x 3' v3 10x 3' v2

Cell

Mus musculus

Endothelial cell of lymphatic vessel Preadipocyte Macrophage Mesothelial cell Mast cell Epithelial cell Adipocyte Neutrophil Monocyte Pericyte Endothelial cell B cell Dendritic cell Mature nk t cell T cell Smooth muscle cell Mammary gland epithelial cell

Epididymal fat pad Periovarian fat pad Inguinal fat pad

19-week-old stage

Normal

Female Male

10x 3' v3

Nucleus

Homo sapiens

Astrocyte Oligodendrocyte precursor cell Oligodendrocyte Macrophage Mast cell Interneuron Microglial cell Fibroblast Ependymal cell Pericyte Endothelial cell B cell T cell Neuron Choroid plexus epithelial cell

Normal Alzheimer disease

10x 3' v3

Homo sapiens

Schwann cell Skin fibroblast Inflammatory macrophage Innate lymphoid cell Endothelial cell of lymphatic vessel Cytotoxic t cell Helper t cell Macrophage Monocyte-derived dendritic cell Mast cell Endothelial cell of vascular tree Conventional dendritic cell Pericyte Dendritic cell Plasma cell Regulatory t cell Keratinocyte Natural killer cell Melanocyte Langerhans cell

Skin epidermis Dermis

Adult stage

Normal

Female

10x 3' v2

Cell

Homo sapiens

Capillary endothelial cell Endothelial cell of lymphatic vessel Mesothelial cell Vein endothelial cell Pericyte Endothelial cell Smooth muscle cell Endothelial cell of artery

Interventricular septum Apex of heart Heart left ventricle Left cardiac atrium Right cardiac atrium Heart right ventricle

Eighth decade stage Fifth decade stage Seventh decade stage Sixth decade stage

Normal

Female Male

10x 3' v3 10x 3' v2

Cell Nucleus