Homo sapiens

Direct pathway medium spiny neuron Sst gabaergic interneuron Purkinje cell Indirect pathway medium spiny neuron Lamp5 gabaergic interneuron Pvalb gabaergic interneuron Thalamic excitatory neuron Central nervous system neuron Cerebellar neuron Sncg gabaergic interneuron Pvalb chandelier gabaergic interneuron Vip gabaergic interneuron

Hippocampal formation Agranular insular cortex Brodmann (1909) area 24 Medial dorsal nucleus of thalamus Body of caudate nucleus Insula Posterior parahippocampal gyrus Granular insular cortex Substantia innominata Hippocampal field Central nucleus of inferior colliculus Central amygdaloid nucleus Corticomedial nuclear complex Bed nucleus of stria terminalis Lateral entorhinal cortex Brodmann (1909) area 19 Brodmann (1909) area 38 Anterior cingulate cortex Brodmann (1909) area 46 Primary motor cortex Claustrum of brain Inferior temporal gyrus Primary visual cortex Cuneus cortex Pontine nuclear group Middle temporal gyrus Subiculum Parietal cortex Secondary visual cortex Septal nuclear complex Primary auditory cortex Piriform cortex Primary somatosensory cortex Medial entorhinal cortex Globus pallidus Basolateral amygdaloid nuclear complex Brodmann (1909) area 25 Cerebellum Amygdala Prefrontal cortex Nucleus accumbens Pulvinar nucleus Dentate gyrus of hippocampal formation Putamen

29-year-old stage 58-year-old stage 42-year-old stage

Normal

Male

Snmc-seq2

Nucleus

Danio rerio

Neuroplacodal cell Odontoblast Neuromast supporting cell Endodermal cell Epithelial cell Thyroid follicular cell Olfactory epithelial cell Taste receptor cell

Taste bud Lateral line Thyroid follicle Multicellular anatomical structure Genitourinary system Pharyngeal pouch Dorsolateral placode Pharyngeal arch Olfactory epithelium Tooth placode Pharynx

Pharyngula:high-pec Pharyngula:prim-5 Segmentation:20-25 somites Larval:protruding-mouth Segmentation:14-19 somites Pharyngula:prim-25 Pharyngula:prim-15 Hatching:long-pec Segmentation:26+ somites Hatching:pec-fin

Normal

Sci-rna-seq3

Nucleus

Homo sapiens

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

Renal medulla Renal papilla Cortex of kidney

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

Normal Acute kidney failure Chronic kidney disease

Female Male

10x 3' v3

Nucleus

Homo sapiens

Megakaryocyte Natural killer cell Regulatory t cell Granulocyte monocyte progenitor cell Fraction a pre-pro b cell Promonocyte Common myeloid progenitor Megakaryocyte-erythroid progenitor cell Group 3 innate lymphoid cell Naive thymus-derived cd8-positive, alpha-beta t cell Group 2 innate lymphoid cell Double negative thymocyte Naive thymus-derived cd4-positive, alpha-beta t cell Hematopoietic multipotent progenitor cell T cell Double-positive, alpha-beta thymocyte Early lymphoid progenitor Innate lymphoid cell Hematopoietic stem cell Cd8-alpha-alpha-positive, alpha-beta intraepithelial t cell

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

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

Normal

Female Male

10x 3' v2 10x 5' v1

Cell

Homo sapiens

Oligodendrocyte L5/6 near-projecting glutamatergic neuron of the primary motor cortex L6b glutamatergic cortical neuron Pericyte Vascular leptomeningeal cell Sst gabaergic interneuron Inhibitory interneuron L2/3 intratelencephalic projecting glutamatergic neuron Macrophage T cell Lamp5 gabaergic interneuron Pvalb gabaergic interneuron L6 intratelencephalic projecting glutamatergic neuron of the primary motor cortex L6 corticothalamic-projecting glutamatergic cortical neuron Myeloid cell Erythroid lineage cell Oligodendrocyte precursor cell Microglial cell Endothelial cell Smooth muscle cell Pvalb chandelier gabaergic interneuron B cell Vip gabaergic interneuron L5 extratelencephalic projecting glutamatergic cortical neuron Astrocyte

Dorsolateral prefrontal cortex

64-year-old stage 50-year-old stage 36-year-old stage 19-year-old stage

Normal

Female Male

10x 3' v3

Nucleus

Homo sapiens

Mural cell

Heart left ventricle Apex of heart Heart right ventricle Interventricular septum

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

Normal Non-compaction cardiomyopathy Dilated cardiomyopathy Arrhythmogenic right ventricular cardiomyopathy

Female Male

10x 3' v2 10x 3' v3

Nucleus

Homo sapiens

L2/3-6 intratelencephalic projecting glutamatergic neuron

Middle temporal gyrus

80 year-old and over stage 85-year-old stage 80-year-old stage 50-year-old stage 65-year-old stage 68-year-old stage 82-year-old stage 43-year-old stage 29-year-old stage Adult stage 75-year-old stage 84-year-old stage 86-year-old stage 83-year-old stage 89-year-old stage 77-year-old stage 78-year-old stage 70-year-old stage 81-year-old stage 69-year-old stage 88-year-old stage 87-year-old stage 60-year-old stage 72-year-old stage

Normal Dementia

Female Male

10x 3' v3 10x multiome

Nucleus

Homo sapiens

Enteroendocrine cell Intestinal epithelial cell Tuft cell of colon Colonocyte Enterocyte Stem cell Glandular secretory epithelial cell Goblet cell Colon goblet cell

Colorectum

64-year-old stage 91-year-old stage 50-year-old stage 52-year-old stage 82-year-old stage 35-year-old stage 58-year-old stage 73-year-old stage 84-year-old stage 42-year-old stage 49-year-old stage 59-year-old stage 61-year-old stage 57-year-old stage 89-year-old stage 53-year-old stage 56-year-old stage 55-year-old stage 77-year-old stage 78-year-old stage 47-year-old stage 36-year-old stage 45-year-old stage 70-year-old stage 81-year-old stage 76-year-old stage 69-year-old stage 67-year-old stage 90-year-old stage 60-year-old stage 62-year-old stage 72-year-old stage 48-year-old stage 51-year-old stage 71-year-old stage

Normal Colon adenocarcinoma

Female Male

10x 3' v2 10x 3' v3

Cell

Homo sapiens

Natural killer cell Luminal endometrial multiciliated epithelial cell Endothelial cell of lymphatic vessel Regulatory t cell Ciliated epithelial cell Capillary endothelial cell Mast cell Myoepithelial cell Leukocyte Fibroblast Uterine smooth muscle cell Macrophage Hematopoietic precursor cell Cd8-positive, alpha-beta memory t cell Fibro/adipogenic progenitor cell Decidual cell Endothelial cell of venule Cd4-positive, alpha-beta memory t cell Epithelial cell Blood vessel endothelial cell Perivascular cell Stromal cell Glandular secretory epithelial cell Circulating fibrocyte Innate lymphoid cell Stromal cell of endometrium Endothelial cell of artery Endothelial cell of uterus B cell Memory t cell

Myometrium Endometrium

26-year-old stage 37-year-old stage 29-year-old stage 31-year-old stage 32-year-old stage Young adult stage 28-year-old stage 23-year-old stage

Normal

Female

10x 3' v2 10x 3' v3

Cell

Homo sapiens

Non-classical monocyte Mature conventional dendritic cell Classical monocyte Monocyte Macrophage Conventional dendritic cell Kupffer cell Alveolar macrophage Apoptosis fated cell

Normal Primary biliary cholangitis Hepatocellular carcinoma Pulmonary fibrosis Pulmonary systemic sclerosis Metabolic dysfunction-associated steatohepatitis Alcoholic liver cirrhosis

10x 3' v2 10x 3' v3

Homo sapiens

Natural killer cell Neutrophil Fibroblast Monocyte Basophil Macrophage T cell Hepatocyte Conventional dendritic cell Plasma cell Plasmacytoid dendritic cell Endothelial cell Cholangiocyte B cell

Liver

64-year-old stage 68-year-old stage 58-year-old stage 73-year-old stage Adult stage 75-year-old stage 49-year-old stage 66-year-old stage 53-year-old stage 46-year-old stage 55-year-old stage 77-year-old stage 67-year-old stage 28-year-old stage 72-year-old stage 33-year-old stage

Normal

Female Male

10x 3' v2 10x 3' v3

Cell Nucleus

Homo sapiens

Mature nk t cell Abnormal cell Megakaryocyte Dendritic cell, human Regulatory t cell Mast cell Cd14-positive monocyte Naive thymus-derived cd8-positive, alpha-beta t cell Effector cd4-positive, alpha-beta t cell Activated cd4-positive, alpha-beta t cell, human Naive t cell Conventional dendritic cell Myofibroblast cell Cd14-positive, cd16-positive monocyte Endothelial cell Cd4-positive, alpha-beta t cell B cell

Kidney Lymph node Blood

64-year-old stage 50-year-old stage 63-year-old stage 54-year-old stage 57-year-old stage 69-year-old stage

Clear cell renal carcinoma

Female Male

10x 5' v2

Cell