Mus musculus

B cell Cajal-retzius cell Gabaergic neuron Kupffer cell Leydig cell Purkinje cell Schwann cell precursor T cell Activated cd4-negative, cd8-negative type i nk t cell Adipocyte Adipose macrophage Amacrine cell Astrocyte Auditory epithelial cell Bistratified retinal ganglion cell Bladder urothelial cell Brain pericyte Brown adipocyte Brown preadipocyte Cardiac muscle cell Central nervous system macrophage Cerebral cortex gabaergic interneuron Cerebral cortex endothelial cell Chondrocyte Choroid plexus epithelial cell Ciliated cell Club cell Cochlea auditory hair cell Committed oligodendrocyte precursor Conjunctiva goblet cell Conventional dendritic cell Corneal epithelial cell Cranial motor neuron Duct epithelial cell Ectodermal cell Efferent neuron Embryonic blood vessel endothelial progenitor cell Endo-epithelial cell Endocardial cell Endothelial cell Endothelial cell of artery Endothelial cell of hepatic sinusoid Endothelial cell of lymphatic vessel Enteric neuron Ependymal cell Epithelial cell Epithelial cell of amnion Epithelial cell of pancreas Epithelial cell of parathyroid gland Epithelial cell of proximal tubule Epithelial cell of thymus Epithelial cell of thyroid gland Erythroid progenitor cell Extraembryonic cell Fibroblast Gingival epithelial cell Glomerular endothelial cell Glutamatergic neuron Granulocyte Hematopoietic stem cell Hepatocyte Hypothalamus cell Intermediate mesodermal cell Intestinal enteroendocrine cell Intestine goblet cell Intrahepatic cholangiocyte Iris pigment epithelial cell Keratinocyte Kidney collecting duct intercalated cell Kidney collecting duct principal cell Kidney connecting tubule epithelial cell Kidney distal convoluted tubule epithelial cell Kidney epithelial cell Kidney loop of henle ascending limb epithelial cell Lateral mesodermal cell Lens epithelial cell Lung endothelial cell Mast cell Megakaryocyte Melanocyte Mesodermal cell Metanephric mesenchyme stem cell Microglial cell Microvascular endothelial cell Monocyte Muscle precursor cell Myelinating schwann cell Myeloid suppressor cell Myoblast Myofibroblast cell Myotube Natural killer cell Neural cell Neural progenitor cell Neuron Notochordal cell Olfactory ensheathing cell Olfactory epithelial cell Olfactory receptor cell Oligodendrocyte precursor cell Osteoblast Osteoclast Pancreatic acinar cell Parasympathetic neuron Pericyte Perineuronal satellite cell Peripheral nervous system neuron Photoreceptor cell Pinealocyte Pituitary gland cell Plasmacytoid dendritic cell Podocyte Primitive erythroid progenitor Primordial germ cell Pulmonary alveolar type 1 cell Pulmonary alveolar type 2 cell Regulatory t cell Respiratory tract goblet cell Retina horizontal cell Retinal bipolar neuron Retinal cone cell Retinal ganglion cell Retinal pigment epithelial cell Retinal progenitor cell Retinal rod cell Sensory neuron of dorsal root ganglion Spinal cord motor neuron Spiral ganglion neuron Splanchnic mesodermal cell Starburst amacrine cell Sympathetic neuron Thalamic excitatory neuron Type i cell of adrenal cortex Vein endothelial cell

Embryo

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

Normal

Female Male

Sci-rna-seq3

Nucleus

Mus musculus

B cell Cajal-retzius cell Gabaergic neuron Kupffer cell Leydig cell Purkinje cell Schwann cell precursor T cell Activated cd4-negative, cd8-negative type i nk t cell Adipocyte Adipose macrophage Amacrine cell Astrocyte Auditory epithelial cell Bistratified retinal ganglion cell Bladder urothelial cell Brain pericyte Brown adipocyte Brown preadipocyte Cardiac muscle cell Central nervous system macrophage Cerebral cortex gabaergic interneuron Cerebral cortex endothelial cell Chondrocyte Choroid plexus epithelial cell Ciliated cell Club cell Cochlea auditory hair cell Committed oligodendrocyte precursor Conjunctiva goblet cell Conventional dendritic cell Corneal epithelial cell Cranial motor neuron Duct epithelial cell Ectodermal cell Efferent neuron Embryonic blood vessel endothelial progenitor cell Endo-epithelial cell Endocardial cell Endothelial cell Endothelial cell of artery Endothelial cell of hepatic sinusoid Endothelial cell of lymphatic vessel Enteric neuron Ependymal cell Epithelial cell Epithelial cell of amnion Epithelial cell of pancreas Epithelial cell of parathyroid gland Epithelial cell of proximal tubule Epithelial cell of thymus Epithelial cell of thyroid gland Erythroid progenitor cell Extraembryonic cell Fibroblast Gingival epithelial cell Glomerular endothelial cell Glutamatergic neuron Granulocyte Hematopoietic stem cell Hepatocyte Hypothalamus cell Intermediate mesodermal cell Intestinal enteroendocrine cell Intestine goblet cell Intrahepatic cholangiocyte Iris pigment epithelial cell Keratinocyte Kidney collecting duct intercalated cell Kidney collecting duct principal cell Kidney connecting tubule epithelial cell Kidney distal convoluted tubule epithelial cell Kidney epithelial cell Kidney loop of henle ascending limb epithelial cell Lateral mesodermal cell Lens epithelial cell Lung endothelial cell Mast cell Megakaryocyte Melanocyte Mesodermal cell Metanephric mesenchyme stem cell Microglial cell Microvascular endothelial cell Monocyte Muscle precursor cell Myelinating schwann cell Myeloid suppressor cell Myoblast Myofibroblast cell Myotube Natural killer cell Neural cell Neural progenitor cell Neuron Notochordal cell Olfactory ensheathing cell Olfactory epithelial cell Olfactory receptor cell Oligodendrocyte precursor cell Osteoblast Osteoclast Pancreatic acinar cell Parasympathetic neuron Pericyte Perineuronal satellite cell Peripheral nervous system neuron Photoreceptor cell Pinealocyte Pituitary gland cell Plasmacytoid dendritic cell Podocyte Primitive erythroid progenitor Primordial germ cell Pulmonary alveolar type 1 cell Pulmonary alveolar type 2 cell Regulatory t cell Respiratory tract goblet cell Retina horizontal cell Retinal bipolar neuron Retinal cone cell Retinal ganglion cell Retinal pigment epithelial cell Retinal progenitor cell Retinal rod cell Sensory neuron of dorsal root ganglion Spinal cord motor neuron Spiral ganglion neuron Splanchnic mesodermal cell Starburst amacrine cell Sympathetic neuron Thalamic excitatory neuron Type i cell of adrenal cortex Vein endothelial cell

Embryo

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

Normal

Female Male

Sci-rna-seq3

Nucleus

Mus musculus

B cell Cajal-retzius cell Gabaergic neuron Kupffer cell Leydig cell Purkinje cell Schwann cell precursor T cell Activated cd4-negative, cd8-negative type i nk t cell Adipocyte Adipose macrophage Amacrine cell Astrocyte Auditory epithelial cell Bistratified retinal ganglion cell Bladder urothelial cell Brain pericyte Brown adipocyte Brown preadipocyte Cardiac muscle cell Central nervous system macrophage Cerebral cortex gabaergic interneuron Cerebral cortex endothelial cell Chondrocyte Choroid plexus epithelial cell Ciliated cell Club cell Cochlea auditory hair cell Committed oligodendrocyte precursor Conjunctiva goblet cell Conventional dendritic cell Corneal epithelial cell Cranial motor neuron Duct epithelial cell Ectodermal cell Efferent neuron Embryonic blood vessel endothelial progenitor cell Endo-epithelial cell Endocardial cell Endothelial cell Endothelial cell of artery Endothelial cell of hepatic sinusoid Endothelial cell of lymphatic vessel Enteric neuron Ependymal cell Epithelial cell Epithelial cell of amnion Epithelial cell of pancreas Epithelial cell of parathyroid gland Epithelial cell of proximal tubule Epithelial cell of thymus Epithelial cell of thyroid gland Erythroid progenitor cell Extraembryonic cell Fibroblast Gingival epithelial cell Glomerular endothelial cell Glutamatergic neuron Granulocyte Hematopoietic stem cell Hepatocyte Hypothalamus cell Intermediate mesodermal cell Intestinal enteroendocrine cell Intestine goblet cell Intrahepatic cholangiocyte Iris pigment epithelial cell Keratinocyte Kidney collecting duct intercalated cell Kidney collecting duct principal cell Kidney connecting tubule epithelial cell Kidney distal convoluted tubule epithelial cell Kidney epithelial cell Kidney loop of henle ascending limb epithelial cell Lateral mesodermal cell Lens epithelial cell Lung endothelial cell Mast cell Megakaryocyte Melanocyte Mesodermal cell Metanephric mesenchyme stem cell Microglial cell Microvascular endothelial cell Monocyte Muscle precursor cell Myelinating schwann cell Myeloid suppressor cell Myoblast Myofibroblast cell Myotube Natural killer cell Neural cell Neural progenitor cell Neuron Notochordal cell Olfactory ensheathing cell Olfactory epithelial cell Olfactory receptor cell Oligodendrocyte precursor cell Osteoblast Osteoclast Pancreatic acinar cell Parasympathetic neuron Pericyte Perineuronal satellite cell Peripheral nervous system neuron Photoreceptor cell Pinealocyte Pituitary gland cell Plasmacytoid dendritic cell Podocyte Primitive erythroid progenitor Primordial germ cell Pulmonary alveolar type 1 cell Pulmonary alveolar type 2 cell Regulatory t cell Respiratory tract goblet cell Retina horizontal cell Retinal bipolar neuron Retinal cone cell Retinal ganglion cell Retinal pigment epithelial cell Retinal progenitor cell Retinal rod cell Sensory neuron of dorsal root ganglion Spinal cord motor neuron Spiral ganglion neuron Splanchnic mesodermal cell Starburst amacrine cell Sympathetic neuron Thalamic excitatory neuron Type i cell of adrenal cortex Vein endothelial cell

Embryo

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

Normal

Female Male

Sci-rna-seq3

Nucleus

Mus musculus

B cell Cajal-retzius cell Gabaergic neuron Kupffer cell Leydig cell Purkinje cell Schwann cell precursor T cell Activated cd4-negative, cd8-negative type i nk t cell Adipocyte Adipose macrophage Amacrine cell Astrocyte Auditory epithelial cell Bistratified retinal ganglion cell Bladder urothelial cell Brain pericyte Brown adipocyte Brown preadipocyte Cardiac muscle cell Central nervous system macrophage Cerebral cortex gabaergic interneuron Cerebral cortex endothelial cell Chondrocyte Choroid plexus epithelial cell Ciliated cell Club cell Cochlea auditory hair cell Committed oligodendrocyte precursor Conjunctiva goblet cell Conventional dendritic cell Corneal epithelial cell Cranial motor neuron Duct epithelial cell Ectodermal cell Efferent neuron Embryonic blood vessel endothelial progenitor cell Endo-epithelial cell Endocardial cell Endothelial cell Endothelial cell of artery Endothelial cell of hepatic sinusoid Endothelial cell of lymphatic vessel Enteric neuron Ependymal cell Epithelial cell Epithelial cell of amnion Epithelial cell of pancreas Epithelial cell of parathyroid gland Epithelial cell of proximal tubule Epithelial cell of thymus Epithelial cell of thyroid gland Erythroid progenitor cell Extraembryonic cell Fibroblast Gingival epithelial cell Glomerular endothelial cell Glutamatergic neuron Granulocyte Hematopoietic stem cell Hepatocyte Hypothalamus cell Intermediate mesodermal cell Intestinal enteroendocrine cell Intestine goblet cell Intrahepatic cholangiocyte Iris pigment epithelial cell Keratinocyte Kidney collecting duct intercalated cell Kidney collecting duct principal cell Kidney connecting tubule epithelial cell Kidney distal convoluted tubule epithelial cell Kidney epithelial cell Kidney loop of henle ascending limb epithelial cell Lateral mesodermal cell Lens epithelial cell Lung endothelial cell Mast cell Megakaryocyte Melanocyte Mesodermal cell Metanephric mesenchyme stem cell Microglial cell Microvascular endothelial cell Monocyte Muscle precursor cell Myelinating schwann cell Myeloid suppressor cell Myoblast Myofibroblast cell Myotube Natural killer cell Neural cell Neural progenitor cell Neuron Notochordal cell Olfactory ensheathing cell Olfactory epithelial cell Olfactory receptor cell Oligodendrocyte precursor cell Osteoblast Osteoclast Pancreatic acinar cell Parasympathetic neuron Pericyte Perineuronal satellite cell Peripheral nervous system neuron Photoreceptor cell Pinealocyte Pituitary gland cell Plasmacytoid dendritic cell Podocyte Primitive erythroid progenitor Primordial germ cell Pulmonary alveolar type 1 cell Pulmonary alveolar type 2 cell Regulatory t cell Respiratory tract goblet cell Retina horizontal cell Retinal bipolar neuron Retinal cone cell Retinal ganglion cell Retinal pigment epithelial cell Retinal progenitor cell Retinal rod cell Sensory neuron of dorsal root ganglion Spinal cord motor neuron Spiral ganglion neuron Splanchnic mesodermal cell Starburst amacrine cell Sympathetic neuron Thalamic excitatory neuron Type i cell of adrenal cortex Vein endothelial cell

Embryo

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

Normal

Female Male

Sci-rna-seq3

Nucleus

Homo sapiens

Axl+ dendritic cell, human Be cell Cd14-low, cd16-positive monocyte Cd14-positive, cd16-negative classical monocyte Cd141-positive myeloid dendritic cell Cd16-negative, cd56-bright natural killer cell, human Cd16-positive, cd56-dim natural killer cell, human Cd1c-positive myeloid dendritic cell Cd4-positive, alpha-beta memory t cell Cd8-positive, alpha-beta memory t cell Cd8-positive, alpha-beta regulatory t cell Cd8aa(i) thymocyte T cell Basophil mast progenitor cell Central memory cd4-positive, alpha-beta t cell Central memory cd8-positive, alpha-beta t cell Common lymphoid progenitor Common myeloid progenitor Double negative thymocyte Effector memory cd4-positive, alpha-beta t cell Effector memory cd8-positive, alpha-beta t cell Erythrocyte Innate lymphoid cell Intermediate monocyte Mature gamma-delta t cell Memory b cell Memory ccr4-positive regulatory t cell Memory regulatory t cell Mucosal invariant t cell Naive b cell Naive regulatory t cell Naive thymus-derived cd4-positive, alpha-beta t cell Naive thymus-derived cd8-positive, alpha-beta t cell Natural killer cell Plasma cell Plasmacytoid dendritic cell Platelet Transitional stage b cell

Blood

34-year-old stage 26-year-old stage 30-year-old stage 29-year-old stage 28-year-old stage 35-year-old stage 25-year-old stage 32-year-old stage 33-year-old stage 31-year-old stage 36-year-old stage 27-year-old stage

Normal

Female

10x 3' v3

Cell

Homo sapiens

Axl+ dendritic cell, human Be cell Cd14-low, cd16-positive monocyte Cd14-positive, cd16-negative classical monocyte Cd141-positive myeloid dendritic cell Cd16-negative, cd56-bright natural killer cell, human Cd16-positive, cd56-dim natural killer cell, human Cd1c-positive myeloid dendritic cell Cd4-positive, alpha-beta memory t cell Cd8-positive, alpha-beta memory t cell Cd8-positive, alpha-beta regulatory t cell Cd8aa(i) thymocyte T cell Basophil mast progenitor cell Central memory cd4-positive, alpha-beta t cell Central memory cd8-positive, alpha-beta t cell Common lymphoid progenitor Common myeloid progenitor Double negative thymocyte Effector memory cd4-positive, alpha-beta t cell Effector memory cd8-positive, alpha-beta t cell Erythrocyte Innate lymphoid cell Intermediate monocyte Mature gamma-delta t cell Memory b cell Memory ccr4-positive regulatory t cell Memory regulatory t cell Mucosal invariant t cell Naive b cell Naive regulatory t cell Naive thymus-derived cd4-positive, alpha-beta t cell Naive thymus-derived cd8-positive, alpha-beta t cell Natural killer cell Plasma cell Plasmacytoid dendritic cell Platelet Transitional stage b cell

Blood

65-year-old stage 61-year-old stage 56-year-old stage 55-year-old stage 57-year-old stage 58-year-old stage 59-year-old stage 64-year-old stage 62-year-old stage 60-year-old stage 63-year-old stage

Cytomegalovirus infection

Female

10x 3' v3

Cell

Macaca mulatta

Gabaergic neuron Astrocyte Basket cell Brain vascular cell Cerebellar neuron Dopaminergic neuron Ependymal cell Glutamatergic neuron Medium spiny neuron Microglial cell Neuron Oligodendrocyte Oligodendrocyte precursor cell Serotonergic neuron

Dorsolateral prefrontal cortex Brodmann (1909) area 19 Medial dorsal nucleus of thalamus Primary visual cortex Ventral lateral nucleus of thalamus Inferior temporal gyrus Medulla oblongata Prefrontal cortex Midbrain Entorhinal cortex Nucleus accumbens Cerebrocerebellum Primary somatosensory cortex Primary auditory cortex Primary motor cortex Inferior parietal cortex Head of caudate nucleus Corpus callosum Hippocampal formation Perirhinal cortex Pons Cerebellar vermis Anterior cingulate cortex Superior temporal sulcus Superior parietal cortex Lateral geniculate body Amygdala

Juvenile stage Prime adult stage

Normal

Female Male

Sci-rna-seq3

Nucleus

Homo sapiens

B cell Lamp5 lhx6 neuron Purkinje cell T cell Amygdala excitatory neuron Caudal ganglionic eminence derived interneuron Cerebellar granule cell Cerebellar inhibitory gabaergic interneuron Cerebral cortex neuron Dentate gyrus granule cell Eccentric medium spiny neuron Hippocampal ca1-3 neuron Hippocampal ca4 neuron Intratelencephalic-projecting glutamatergic cortical neuron Mammillary body neuron Medial ganglionic eminence derived interneuron Medium spiny neuron Midbrain-derived inhibitory neuron Monocyte Natural killer cell Near-projecting glutamatergic cortical neuron Neuron Pvalb chandelier gabaergic interneuron Sst chodl gabaergic interneuron Thalamic excitatory neuron Unipolar brush cell

Subthalamic nucleus Medial geniculate body Brodmann (1909) area 25 Lateral amygdaloid nucleus Anterior nuclear group Corticomedial nuclear complex Pontine reticular formation Temporal fusiform gyrus Brodmann (1909) area 19 Centromedian nucleus of thalamus Intralaminar nuclear group Medial dorsal nucleus of thalamus Parabrachial nucleus Primary visual cortex Claustrum of brain Inferior temporal gyrus Rostral ca3 Nucleus of medulla oblongata Red nucleus Subicular complex Pontine tegmentum Pontine nuclear group Globus pallidus Midbrain nucleus Piriform cortex Hippocampal field Lateral nuclear group of thalamus Brodmann (1909) area 13 Middle temporal gyrus Central amygdaloid nucleus Ventral anterior nucleus of thalamus Septal nuclear complex Brodmann (1909) area 35 Cerebellar nuclear complex Median tuberal portion Extrastriate cortex Epithalamus Dorsal tegmental nucleus Brodmann (1909) area 38 Lateral entorhinal cortex Supraoptic nucleus Brodmann (1909) area 32 Medial entorhinal cortex Midbrain tectum Inferior olivary complex Brodmann (1909) area 40 Inferior frontal gyrus Substantia nigra Agranular insular cortex Brodmann (1909) area 43 Nucleus accumbens Cerebrocerebellum Gray matter of midbrain Substantia innominata Anterior cortical amygdaloid nucleus Primary somatosensory cortex Brodmann (1909) area 14 Anterior olfactory nucleus Accessory basal amygdaloid nucleus Pulvinar nucleus Primary auditory cortex Hypothalamus Brodmann (1909) area 23 Primary motor cortex Brodmann (1909) area 24 Brodmann (1909) area 46 Medial zone of hypothalamus Posterior parahippocampal gyrus Basolateral amygdaloid nuclear complex Perirhinal cortex Granular insular cortex Cerebellar vermis Spinal cord Retrosplenial region Cuneus cortex Dentate gyrus of hippocampal formation Lateral posterior nucleus of thalamus Mammillary body Superior temporal gyrus Body of caudate nucleus Uncal ca1 Bed nucleus of stria terminalis Superior parietal cortex Lateral geniculate body Putamen Pretectal region Nucleus of dorsal thalamus Preoptic area

42-year-old stage 29-year-old stage 50-year-old stage 60-year-old stage

Normal

Female Male

10x 3' v3

Nucleus

Homo sapiens

B cell Cd1c-positive myeloid dendritic cell Cd4-positive, alpha-beta t cell Cd8-positive, alpha-beta t cell T cell Acinar cell Alveolar adventitial fibroblast Alveolar macrophage Alveolar type 1 fibroblast cell Bronchial goblet cell Bronchus fibroblast of lung Brush cell of tracheobronchial tree Capillary endothelial cell Classical monocyte Club cell Conventional dendritic cell Dendritic cell Elicited macrophage Endothelial cell of lymphatic vessel Epithelial cell of lower respiratory tract Fibroblast Hematopoietic stem cell Ionocyte Lung macrophage Lung pericyte Mast cell Mesothelial cell Mucus secreting cell Multiciliated columnar cell of tracheobronchial tree Multiciliated epithelial cell Myofibroblast cell Nasal mucosa goblet cell Natural killer cell Non-classical monocyte Plasma cell Plasmacytoid dendritic cell Pulmonary alveolar epithelial cell Pulmonary alveolar type 1 cell Pulmonary alveolar type 2 cell Pulmonary artery endothelial cell Pulmonary neuroendocrine cell Respiratory basal cell Respiratory tract hillock cell Serous secreting cell Smooth muscle cell Stromal cell Tracheobronchial goblet cell Tracheobronchial serous cell Tracheobronchial smooth muscle cell Vein endothelial cell

Nose Lung Respiratory airway Lung parenchyma

66-year-old stage 69-year-old stage 37-year-old stage 75-year-old stage 21-year-old stage 34-year-old stage 65-year-old stage 42-year-old stage 26-year-old stage 43-year-old stage Sixth decade stage 71-year-old stage 53-year-old stage 61-year-old stage 2-year-old stage 52-year-old stage 54-year-old stage 68-year-old stage 3-month-old stage 48-year-old stage 30-year-old stage 44-year-old stage 29-year-old stage 38-year-old stage 56-year-old stage Fifth decade stage 55-year-old stage 15-year-old stage 50-year-old stage 51-year-old stage 57-year-old stage 12-year-old stage 72-year-old stage 81-year-old stage 9-year-old stage 6-month-old stage 49-year-old stage 14-year-old stage 24-year-old stage 16-year-old stage 23-year-old stage 35-year-old stage Seventh decade stage 58-year-old stage 59-year-old stage 25-year-old stage 67-year-old stage 3-year-old stage 77-year-old stage 33-year-old stage 64-year-old stage 45-year-old stage 62-year-old stage 86-year-old stage 41-year-old stage 70-year-old stage 46-year-old stage 60-year-old stage 18-year-old stage 31-year-old stage 36-year-old stage 1-month-old stage Fourth decade stage 22-year-old stage Newborn stage (0-28 days) 63-year-old stage 20-year-old stage 47-year-old stage 76-year-old stage 79-year-old stage 73-year-old stage 11-month-old stage 5-year-old stage 12-month-old stage 27-year-old stage 40-year-old stage 7-year-old stage 10-year-old stage 4-year-old stage

Pneumonia Lung adenocarcinoma Pleomorphic carcinoma Cystic fibrosis Non-specific interstitial pneumonia Interstitial lung disease Covid-19 Pulmonary sarcoidosis Chronic obstructive pulmonary disease Hypersensitivity pneumonitis Squamous cell lung carcinoma Normal Pulmonary fibrosis Lung large cell carcinoma Lymphangioleiomyomatosis Chronic rhinitis

Female Male

10x 3' v1 10x 5' v2 10x 5' transcription profiling 10x 5' v1 Seq-well 10x 3' v3 Drop-seq 10x 3' v2

Nucleus Cell

Homo sapiens

Cd4-positive helper t cell Cd8-positive, alpha-beta memory t cell Tc1 cell Basal-myoepithelial cell of mammary gland Capillary endothelial cell Class switched memory b cell Dendritic cell Effector memory cd8-positive, alpha-beta t cell Endothelial cell of artery Endothelial cell of lymphatic vessel Endothelial tip cell Fibroblast of mammary gland Innate lymphoid cell Luminal adaptive secretory precursor cell of mammary gland Luminal hormone-sensing cell of mammary gland Macrophage Mammary gland epithelial cell Mature nk t cell Naive b cell Naive thymus-derived cd4-positive, alpha-beta t cell Natural killer cell Perivascular cell Plasma cell Unswitched memory b cell Vein endothelial cell

Breast

69-year-old stage 37-year-old stage 21-year-old stage 34-year-old stage 65-year-old stage 42-year-old stage 26-year-old stage 43-year-old stage 53-year-old stage 52-year-old stage 54-year-old stage 48-year-old stage 30-year-old stage 39-year-old stage 44-year-old stage 29-year-old stage 38-year-old stage 56-year-old stage 55-year-old stage 50-year-old stage 28-year-old stage 57-year-old stage 49-year-old stage 24-year-old stage 23-year-old stage 35-year-old stage 58-year-old stage 59-year-old stage 25-year-old stage Adult stage 32-year-old stage 33-year-old stage 45-year-old stage 62-year-old stage 41-year-old stage 46-year-old stage 31-year-old stage 36-year-old stage 22-year-old stage 19-year-old stage 63-year-old stage 20-year-old stage 47-year-old stage Prime adult stage 27-year-old stage 40-year-old stage

Normal

Female

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

Cell

Mus musculus

Cajal-retzius cell Gabaergic neuron Purkinje cell Amacrine cell Cerebral cortex gabaergic interneuron Cranial motor neuron Glutamatergic neuron Neural progenitor cell Neuron Retina horizontal cell Retinal ganglion cell Small bistratified retinal ganglion cell Spinal cord motor neuron Starburst amacrine cell Thalamic excitatory neuron

Embryo

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

Normal

Female Male

Sci-rna-seq3

Nucleus

Homo sapiens

Gabaergic neuron Astrocyte Central nervous system macrophage Central nervous system neuron Endothelial cell Ependymal cell Glutamatergic neuron Leukocyte Mural cell Oligodendrocyte Oligodendrocyte precursor cell

Primary visual cortex Prefrontal cortex Medial globus pallidus Dorsal motor nucleus of vagus nerve Primary motor cortex

66-year-old stage 69-year-old stage 75-year-old stage 91-year-old stage 65-year-old stage 89-year-old stage 87-year-old stage 71-year-old stage 85-year-old stage 88-year-old stage 68-year-old stage 84-year-old stage 82-year-old stage 80-year-old stage 57-year-old stage 72-year-old stage 81-year-old stage 74-year-old stage 97-year-old stage 95-year-old stage 67-year-old stage 102-year-old stage 77-year-old stage 64-year-old stage 62-year-old stage 86-year-old stage 70-year-old stage 101-year-old stage 78-year-old stage 76-year-old stage 79-year-old stage 73-year-old stage 83-year-old stage

Parkinson disease Normal

Female Male

10x 3' v3

Nucleus