Homo sapiens

Igg plasma cell Cd8-positive, alpha-beta regulatory t cell Macrophage Effector memory cd4-positive, alpha-beta t cell Mast cell Cd4-positive helper t cell Naive t cell Cycling macrophage Myeloid dendritic cell Conventional dendritic cell Effector memory cd8-positive, alpha-beta t cell Cycling t cell Memory b cell Plasmacytoid dendritic cell Cd4-positive, cd25-positive, ccr4-positive, alpha-beta regulatory t cell T follicular helper cell Natural killer cell Exhausted t cell

Breast

80-year-old stage 85-year-old stage 82-year-old stage 66-year-old stage 79-year-old stage 70-year-old stage 32-year-old stage 50-year-old stage 57-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 45-year-old stage 25-year-old stage 65-year-old stage 67-year-old stage Middle aged stage Eighth decade stage 37-year-old stage 71-year-old stage Adult stage Ninth decade stage 36-year-old stage 63-year-old stage 59-year-old stage 54-year-old stage Fifth decade stage 47-year-old stage 58-year-old stage 61-year-old stage 34-year-old stage 49-year-old stage 42-year-old stage 35-year-old stage 73-year-old stage 30-year-old stage Seventh decade stage 88-year-old stage 84-year-old stage 69-year-old stage 43-year-old stage Late adult stage 29-year-old stage 38-year-old stage 41-year-old stage 55-year-old stage 83-year-old stage Sixth decade stage

Breast cancer Invasive ductal breast carcinoma Breast mucinous carcinoma Her2 positive breast carcinoma Triple-negative breast carcinoma Invasive lobular breast carcinoma Estrogen-receptor positive breast cancer Metaplastic breast carcinoma Invasive tubular breast carcinoma Breast carcinoma Breast apocrine carcinoma

Female Male

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

Cell

Homo sapiens

Astrocyte Retinal astrocyte

Optic disc Cranial nerve ii

85-year-old stage 82-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 76-year-old stage 62-year-old stage 46-year-old stage 52-year-old stage 60-year-old stage 64-year-old stage 45-year-old stage 25-year-old stage 74-year-old stage 33-year-old stage 65-year-old stage 67-year-old stage 75-year-old stage 27-year-old stage 37-year-old stage 71-year-old stage 63-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 15-year-old stage 34-year-old stage 42-year-old stage 53-year-old stage 10-year-old stage 17-year-old stage 72-year-old stage 30-year-old stage 3-year-old stage Newborn stage (0-28 days) 69-year-old stage 43-year-old stage 90 year-old and over stage 81-year-old stage 11-year-old stage

Normal

Female Male

10x 3' v3

Nucleus

Homo sapiens

Naive b cell Plasmablast B cell Plasma cell Memory b cell Precursor b cell Germinal center b cell

Blood Mesenteric lymph node Spleen Epithelial lining fluid Lung Jejunum lamina propria Inguinal lymph node Bone marrow Jejunal epithelium Thoracic lymph node

Fourth decade stage 48-year-old stage 64-year-old stage 25-year-old stage 33-year-old stage 67-year-old stage Eighth decade stage 75-year-old stage 27-year-old stage 23-year-old stage Fifth decade stage 20-year-old stage 56-year-old stage 68-year-old stage 73-year-old stage Third decade stage Sixth decade stage

Normal

Female Male

10x 5' v2 10x 3' v3

Cell

Homo sapiens

Pulmonary alveolar type 1 cell Endothelial cell of respiratory system lymphatic vessel Classical monocyte Lung megakaryocyte Alveolar capillary type 2 endothelial cell Pulmonary alveolar type 2 cell Pulmonary neuroendocrine cell Non-classical monocyte Helper t cell Vein endothelial cell of respiratory system Alveolar macrophage Brush cell of tracheobronchial tree Mucus secreting cell of tracheobronchial tree submucosal gland Alveolar type 1 fibroblast cell Mast cell Tracheobronchial smooth muscle cell Basal cell Lung interstitial macrophage Cd8-positive, alpha-beta cytotoxic t cell Vein endothelial cell Serous secreting cell Vascular associated smooth muscle cell Conventional dendritic cell Alveolar capillary type 1 endothelial cell Pericyte Secondary crest myofibroblast Mesothelial cell of pleura B cell Plasma cell Regulatory t cell Plasmacytoid dendritic cell Secretory cell Alveolar adventitial fibroblast Lung secretory cell Natural killer cell Endothelial cell of artery Ciliated cell Mature conventional dendritic cell Goblet cell

Middle lobe of right lung

6-month-old stage 15-month-old stage 14-month-old stage 19-month-old stage 5-month-old stage 4-month-old stage 20-month-old stage 11-month-old stage 10-month-old stage 12-month-old stage 8-month-old stage 21-month-old stage 7-month-old stage 13-month-old stage 3-year-old stage 18-month-old stage

Normal Bronchopulmonary dysplasia

Female Male

10x 3' v3

Nucleus

Homo sapiens

Kidney loop of henle thick ascending limb epithelial cell Collagen secreting cell Naive b cell Igg plasma cell Classical monocyte Innate lymphoid cell Endothelial cell of lymphatic vessel Kidney connecting tubule principal cell Kidney loop of henle ascending limb epithelial cell Cd4-positive, alpha-beta t cell Class switched memory b cell Non-classical monocyte Iga plasma cell Macrophage Naive thymus-derived cd4-positive, alpha-beta t cell Mhc-ii-positive classical monocyte Kidney distal convoluted tubule epithelial cell Mucosal invariant t cell Unswitched memory b cell Effector memory cd4-positive, alpha-beta t cell Kidney collecting duct principal cell Mast cell Epithelial cell Activated type ii nk t cell Renal beta-intercalated cell Epithelial cell of proximal tubule Conventional dendritic cell Fibroblast Naive thymus-derived cd8-positive, alpha-beta t cell Podocyte Effector memory cd8-positive, alpha-beta t cell Epithelial cell of proximal tubule segment 1 Pericyte Endothelial cell Kidney pelvis urothelial cell B cell Cd8-positive, alpha-beta t cell Cd4-positive, cd25-positive, alpha-beta regulatory t cell Plasma cell Plasmacytoid dendritic cell Renal alpha-intercalated cell Natural killer cell Epithelial cell of proximal tubule segment 3 Gamma-delta t cell

Blood Vein Adrenal tissue Kidney Perirenal fat

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

Kidney benign neoplasm Normal Kidney oncocytoma Nonpapillary renal cell carcinoma

Female Male

10x 5' transcription profiling

Cell

Homo sapiens

Gabaergic amacrine cell Retinal rod cell Astrocyte Parasol ganglion cell of retina H2 horizontal cell Retinal cone cell H1 horizontal cell Microglial cell Starburst amacrine cell Mueller cell Retinal bipolar neuron Amacrine cell Glycinergic amacrine cell Retinal pigment epithelial cell Retinal ganglion cell Rod bipolar cell S cone cell Midget ganglion cell of retina

Peripheral region of retina Fovea centralis Retinal neural layer Chorioretinal region Macula lutea proper

80-year-old stage 82-year-old stage 86-year-old stage 60-year-old stage 64-year-old stage 89-year-old stage 74-year-old stage 65-year-old stage 71-year-old stage Adult stage 78-year-old stage 54-year-old stage 68-year-old stage 42-year-old stage 53-year-old stage 69-year-old stage

Normal

Female Male

10x 3' v3 10x 3' v2

Cell

Homo sapiens

Myofibroblast cell Best4+ enterocyte Transit amplifying cell Capillary endothelial cell Naive b cell Follicular b cell Innate lymphoid cell Endothelial cell of lymphatic vessel Glial cell Macrophage Enterocyte of epithelium of large intestine Effector memory cd4-positive, alpha-beta t cell T-helper 1 cell Stromal cell Mast cell Paneth cell Stem cell Monocyte Enteroendocrine cell Tuft cell of colon Vein endothelial cell Conventional dendritic cell Central memory cd4-positive, alpha-beta t cell Effector memory cd8-positive, alpha-beta t cell T-helper 17 cell Pericyte B cell Plasma cell Regulatory t cell Memory b cell Enterocyte T follicular helper cell Natural killer cell Endothelial cell of artery Gamma-delta t cell Gastrointestinal tract (lamina propria) macrophage of large intestine Germinal center b cell Goblet cell

Ileum Rectum Caecum Small intestine Colonic epithelium Jejunum Transverse colon Sigmoid colon Duodenum Descending colon Ascending colon Vermiform appendix Large intestine

45-year-old stage Eighth decade stage Adult stage Fifth decade stage 53-year-old stage Seventh decade stage Third decade stage 29-year-old stage Sixth decade stage

Normal

Female Male

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

Cell

Homo sapiens

Pro-b cell Common myeloid progenitor Pre-conventional dendritic cell Promonocyte Erythroid progenitor cell Megakaryocyte progenitor cell Hematopoietic oligopotent progenitor cell Large pre-b-ii cell Mature b cell Naive thymus-derived cd4-positive, alpha-beta t cell Granulocyte monocyte progenitor cell Orthochromatic erythroblast Late pro-b cell Effector memory cd4-positive, alpha-beta t cell Cd14-positive, cd16-positive monocyte Small pre-b-ii cell Megakaryocyte-erythroid progenitor cell Cd16-negative, cd56-bright natural killer cell, human Basophilic erythroblast Megakaryocyte Cd14-positive monocyte Common lymphoid progenitor Immature b cell Cd8-positive, alpha-beta memory t cell Conventional dendritic cell Stromal cell of bone marrow 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 Hematopoietic stem cell Central memory cd8-positive, alpha-beta t cell Polychromatophilic erythroblast Cd4-positive, cd25-positive, alpha-beta regulatory t cell Plasmacytoid dendritic cell, human Dendritic cell Plasma cell T cell Natural killer cell Hematopoietic multipotent progenitor cell Basophil mast progenitor cell

Bone marrow

66-year-old stage 19-year-old stage Young adult stage 32-year-old stage 50-year-old stage 57-year-old stage Prime adult stage 46-year-old stage 52-year-old stage 60-year-old stage 67-year-old stage 28-year-old stage 36-year-old stage 59-year-old stage 47-year-old stage 31-year-old stage 56-year-old stage 58-year-old stage 35-year-old stage 30-year-old stage 24-year-old stage 26-year-old stage 84-year-old stage 39-year-old stage 43-year-old stage Late adult stage 29-year-old stage 41-year-old stage 55-year-old stage

Normal

Female Male

10x 3' v3 10x 3' v2

Cell

Mus musculus

Macrophage Cholangiocyte Neutrophil Hepatic portal fibroblast Hepatocyte Endothelial cell B cell Hepatic stellate cell T cell Plasmacytoid dendritic cell

Normal

10x 3' v3

Homo sapiens

Cd4-positive, alpha-beta memory t cell Naive thymus-derived cd4-positive, alpha-beta t cell Mucosal invariant t cell Cd16-negative, cd56-bright natural killer cell, human Cd8-positive, alpha-beta memory t cell Naive thymus-derived cd8-positive, alpha-beta t cell Group 3 innate lymphoid cell Effector memory cd8-positive, alpha-beta t cell T-helper 17 cell Cycling t cell Regulatory t cell T follicular helper cell Gamma-delta t cell Cd16-positive, cd56-dim natural killer cell, human

Epithelium of esophagus Gingiva Lamina propria of mucosa of colon Body of stomach Duodenal epithelium Ileum Rectum Ileum lamina propria Mesenteric lymph node Parotid gland Epithelium of rectum Caecum Small intestine Esophagus Colonic epithelium Epithelium of stomach Jejunum Transverse colon Labial gland Epithelium of small intestine Pyloric antrum Lamina propria of small intestine Sigmoid colon Periodontium Duodenum Ileal epithelium Pylorus Colon Intestine Descending colon Ascending colon Stomach Rectosigmoid junction Buccal mucosa Vermiform appendix Colonic mucosa

80-year-old stage 9th week post-fertilization stage 85-year-old stage 66-year-old stage 70-year-old stage Young adult stage Fourth decade stage 77-year-old stage 13th week post-fertilization stage 12th week post-fertilization stage 21-year-old stage 32-year-old stage 50-year-old stage 86-year-old stage 57-year-old stage 76-year-old stage 10th week post-fertilization stage 62-year-old stage Prime adult stage 46-year-old stage 52-year-old stage 60-year-old stage 22-year-old stage Carnegie stage 22 Juvenile stage (5-14 yo) 44-year-old stage 48-year-old stage 45-year-old stage 74-year-old stage 33-year-old stage 65-year-old stage 67-year-old stage 2-year-old stage Eighth decade stage 75-year-old stage 23-year-old stage 37-year-old stage Adult stage 11th week post-fertilization stage 14-year-old stage 21st week post-fertilization stage 6-year-old stage 28-year-old stage 19th week post-fertilization stage 63-year-old stage 17th week post-fertilization stage 59-year-old stage 54-year-old stage Fifth decade stage 31-year-old stage 2-month-old stage 15th week post-fertilization stage 56-year-old stage 58-year-old stage Pediatric stage 68-year-old stage 61-year-old stage 34-year-old stage Carnegie stage 19 51-year-old stage 35-year-old stage 16th week post-fertilization stage 10-year-old stage 72-year-old stage 30-year-old stage 24-year-old stage 13-year-old stage 18th week post-fertilization stage Seventh decade stage 26-year-old stage 84-year-old stage 12-year-old stage 39-year-old stage Newborn stage (0-28 days) 4-year-old stage Carnegie stage 17 9-year-old stage 69-year-old stage Third decade stage 43-year-old stage 5-year-old stage 29-year-old stage 87-year-old stage 41-year-old stage 81-year-old stage 55-year-old stage Sixth decade stage 11-year-old stage

Ulcerative colitis Inflammatory bowel disease Normal Crohn disease Colorectal cancer Gastric cancer

Female Male

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

Cell

Mus musculus

Adipose macrophage Kupffer cell Osteoclast Monocyte Microglial cell Granulocyte Conventional dendritic cell Hematopoietic stem cell Plasmacytoid dendritic cell Central nervous system macrophage Myeloid suppressor 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

Callithrix jacchus

Oligodendrocyte

Putamen Ventral thalamus Cerebellum lobule Posterior hypothalamic region Secondary visual cortex Hippocampal formation Lateral geniculate body Primary somatosensory cortex Lateral nuclear group of thalamus Brodmann (1909) area 23 Temporal cortex Central amygdaloid nucleus Dorsal thalamus Medial amygdaloid nucleus Primary auditory cortex Dorsolateral prefrontal cortex Thalamic complex Temporal lobe Brodmann (1909) area 25 Parietal cortex Primary motor cortex Amygdala Primary visual cortex Lateral amygdaloid nucleus Anterior hypothalamic region Ventral lateral nucleus of thalamus Caudate nucleus Medial dorsal nucleus of thalamus Nucleus accumbens Basal forebrain Brainstem Prefrontal cortex

Prime adult stage Late adult stage

Normal

Female Male

10x 3' v3

Nucleus