Mus musculus

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

Embryo

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

Normal

Female Male

Sci-rna-seq3

Nucleus

Mus musculus

Hypendymal cell Glutamatergic neuron Vascular leptomeningeal cell Astrocyte Oligodendrocyte precursor cell Oligodendrocyte Gabaergic neuron Lymphocyte Macrophage Neuroblast (sensu vertebrata) Glycinergic neuron Histaminergic neuron Bergmann glial cell Monocyte Olfactory ensheathing cell Cholinergic neuron Dopaminergic neuron Microglial cell Tanycyte Ependymal cell Pericyte Endothelial cell Dendritic cell Smooth muscle cell Choroid plexus epithelial cell

Hippocampal formation Hypothalamus Cortical subplate Cerebellum Thalamic complex Pallidum Brain Striatum Neocortex Midbrain White matter Ventricular system of brain Hindbrain

9-week-old stage

Normal

Female

Merfish

Homo sapiens

L2/3-6 intratelencephalic projecting glutamatergic neuron L2/3 intratelencephalic projecting glutamatergic neuron L6 intratelencephalic projecting glutamatergic neuron Vascular leptomeningeal cell Astrocyte Oligodendrocyte precursor cell Oligodendrocyte Gabaergic neuron L6b glutamatergic neuron of the primary motor cortex L6 corticothalamic-projecting glutamatergic cortical neuron Sst gabaergic interneuron L5/6 near-projecting glutamatergic neuron Microglial cell Lamp5 gabaergic interneuron Pericyte Endothelial cell B cell Plasma cell T cell Perivascular macrophage Smooth muscle cell L5 extratelencephalic projecting glutamatergic cortical neuron Natural killer cell Vip gabaergic interneuron Pvalb gabaergic interneuron

Dorsolateral prefrontal cortex

80-year-old stage 85-year-old stage 82-year-old stage 66-year-old stage 19-year-old stage 79-year-old stage 70-year-old stage 77-year-old stage 32-year-old stage 50-year-old stage 86-year-old stage 57-year-old stage 76-year-old stage 62-year-old stage 46-year-old stage 52-year-old stage 60-year-old stage 80 year-old and over stage 48-year-old stage 64-year-old stage 89-year-old stage 45-year-old stage 25-year-old stage 74-year-old stage 65-year-old stage 67-year-old stage 40-year-old stage 75-year-old stage 27-year-old stage 71-year-old stage 78-year-old stage 28-year-old stage 36-year-old stage 63-year-old stage 59-year-old stage 54-year-old stage 20-year-old stage 47-year-old stage 31-year-old stage 56-year-old stage 58-year-old stage 68-year-old stage 61-year-old stage 51-year-old stage 49-year-old stage 42-year-old stage 35-year-old stage 53-year-old stage 72-year-old stage 73-year-old stage 24-year-old stage 88-year-old stage 84-year-old stage 39-year-old stage 69-year-old stage 43-year-old stage 38-year-old stage 87-year-old stage 41-year-old stage 81-year-old stage 55-year-old stage 83-year-old stage

Major depressive disorder Normal Frontotemporal dementia Multiple sclerosis Brain neoplasm Lewy body dementia Progressive supranuclear palsy Tauopathy Vascular dementia Schizophrenia Head injury Dementia Parkinson disease Amyotrophic lateral sclerosis Normal pressure hydrocephalus Alzheimer disease Post-traumatic stress disorder

Female Male

10x 3' v3

Nucleus

Homo sapiens

Taste receptor cell Ganglion interneuron Granule cell Unipolar brush cell Inhibitory interneuron Acinar cell Schwann cell Pancreatic ductal cell Epithelial cell of thymus Trophoblast giant cell Ciliated epithelial cell Glutamatergic neuron Stellate neuron Astrocyte Hepatoblast Innate lymphoid cell Corneal epithelial cell Cardiac muscle cell Endothelial cell of lymphatic vessel Glial cell Oligodendrocyte Epithelial cell of lower respiratory tract Gabaergic neuron Bipolar neuron Photoreceptor cell Mesothelial cell Endocardial cell Extravillous trophoblast Syncytiotrophoblast cell Chromaffin cell Stromal cell Ventricular cardiac muscle cell Endothelial cell of vascular tree Epicardial adipocyte Megakaryocyte Cell of skeletal muscle Endocrine cell Hematopoietic cell Tuft cell Microglial cell Regular atrial cardiac myocyte Blood vessel endothelial cell Neuron associated cell (sensu vertebrata) Hematopoietic stem cell Macroglial cell Skeletal muscle satellite cell Chorionic trophoblast cell Lens fiber cell Erythroblast Thymocyte Mueller cell Hepatic stellate cell Cortical cell of adrenal gland Squamous epithelial cell Mesangial cell Dermis microvascular lymphatic vessel endothelial cell Visceromotor neuron Amacrine cell Enteric neuron Neuroendocrine cell Intestinal epithelial cell Retinal pigment epithelial cell Sympathetic neuron Smooth muscle cell Retinal ganglion cell Neuron Purkinje cell Retina horizontal cell Professional antigen presenting cell Myeloid cell Goblet cell

Adrenal gland Thymus Liver Spleen Cerebellum Lung Telencephalon Kidney Pancreas Placenta Muscle organ Eye Intestine Stomach Heart

13th week post-fertilization stage 12th week post-fertilization stage 10th week post-fertilization stage 17th week post-fertilization stage 15th week post-fertilization stage 14th week post-fertilization stage 16th week post-fertilization stage 18th week post-fertilization stage

Normal Trisomy 18

Female Male

Sci-rna-seq3

Nucleus Cell

Homo sapiens

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

Blood

80-year-old stage 85-year-old stage 82-year-old stage 66-year-old stage 79-year-old stage 70-year-old stage 77-year-old stage 50-year-old stage 86-year-old stage 57-year-old stage 76-year-old stage 62-year-old stage 46-year-old stage 52-year-old stage 60-year-old stage 80 year-old and over stage 44-year-old stage 48-year-old stage 64-year-old stage 89-year-old stage 45-year-old stage 74-year-old stage 65-year-old stage 67-year-old stage 40-year-old stage 75-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 56-year-old stage 58-year-old stage 68-year-old stage 61-year-old stage 51-year-old stage 49-year-old stage 42-year-old stage 53-year-old stage 72-year-old stage 73-year-old stage 88-year-old stage 84-year-old stage 69-year-old stage 43-year-old stage 87-year-old stage 41-year-old stage 81-year-old stage 55-year-old stage 83-year-old stage

Normal Cytomegalovirus infection

Female Male

10x gene expression flex

Cell

Mus musculus

Osteoblast Mesodermal cell Fibroblast Lateral mesodermal cell Chondrocyte

Embryo

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

Normal

Female Male

Sci-rna-seq3

Nucleus

Homo sapiens

Gabaergic amacrine cell Retinal rod cell Diffuse bipolar 4 cell Flat midget bipolar cell Astrocyte H2 horizontal cell Offx cell Retinal cone cell Diffuse bipolar 2 cell Off parasol ganglion cell Diffuse bipolar 3a cell Diffuse bipolar 3b cell On midget ganglion cell Invaginating midget bipolar cell H1 horizontal cell Giant bipolar cell Microglial cell Starburst amacrine cell Diffuse bipolar 6 cell Diffuse bipolar 1 cell Mueller cell Retinal bipolar neuron On-blue cone bipolar cell On parasol ganglion cell Amacrine cell Glycinergic amacrine cell Retinal pigment epithelial cell Retinal ganglion cell Off midget ganglion cell Rod bipolar cell S cone cell

Normal

10x 3' v3

Homo sapiens

Gabaergic amacrine cell Retinal rod cell Diffuse bipolar 4 cell Flat midget bipolar cell Astrocyte H2 horizontal cell Offx cell Retinal cone cell Diffuse bipolar 2 cell Off parasol ganglion cell Diffuse bipolar 3a cell Diffuse bipolar 3b cell On midget ganglion cell Invaginating midget bipolar cell H1 horizontal cell Giant bipolar cell Microglial cell Starburst amacrine cell Diffuse bipolar 6 cell Diffuse bipolar 1 cell Mueller cell Retinal bipolar neuron On-blue cone bipolar cell On parasol ganglion cell Amacrine cell Glycinergic amacrine cell Retinal pigment epithelial cell Retinal ganglion cell Off midget ganglion cell Rod bipolar cell S cone cell

Macula lutea Peripheral region of retina Fovea centralis Macula lutea proper

80-year-old stage 85-year-old stage 82-year-old stage 66-year-old stage 16-year-old stage 70-year-old stage 18-year-old stage 77-year-old stage 21-year-old stage 32-year-old stage 50-year-old stage 86-year-old stage 76-year-old stage 62-year-old stage Prime adult stage 46-year-old stage 52-year-old stage 60-year-old stage 60-79 year-old stage 80 year-old and over stage 64-year-old stage 25-year-old stage 74-year-old stage 65-year-old stage 67-year-old stage Eighth decade stage 75-year-old stage 27-year-old stage 71-year-old stage 78-year-old stage 63-year-old stage 47-year-old stage 58-year-old stage 68-year-old stage 15-year-old stage 34-year-old stage 53-year-old stage 10-year-old stage 17-year-old stage 72-year-old stage 73-year-old stage 30-year-old stage 24-year-old stage 3-year-old stage 88-year-old stage 84-year-old stage 69-year-old stage 43-year-old stage 90 year-old and over stage Late adult stage 41-year-old stage 81-year-old stage 83-year-old stage 11-year-old stage

Normal

Female Male

10x 3' v3

Nucleus

Mus musculus

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

Embryo

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

Normal

Female Male

Sci-rna-seq3

Nucleus

Mus musculus

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

Embryo

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

Normal

Female Male

Sci-rna-seq3

Nucleus

Mus musculus

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

Embryo

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

Normal

Female Male

Sci-rna-seq3

Nucleus

Mus musculus

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

Embryo

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

Normal

Female Male

Sci-rna-seq3

Nucleus