Explore the expression profiles in single cell types

CNN1 - Prostate

TSPY2 - Testis

This section contains Single Cell Type information based on single cell RNA sequencing (scRNAseq) data from 25 human tissues and peripheral blood mononuclear cells (PBMCs), together with in-house generated immunohistochemically stained tissue sections visualizing the corresponding spatial protein expression patterns. The scRNAseq analysis was based on publicly available genome-wide expression data and comprises all protein-coding genes in 444 individual cell type clusters corresponding to 15 different cell type groups. A specificity and distribution classification was performed to determine the number of genes elevated in these single cell types, and the number of genes detected in one, several or all cell types, respectively. The genes expressed in each of the cell types can be explored in interactive UMAP plots and bar charts, with links to corresponding immunohistochemical stainings in human tissues.

More information about the specific content and the generation and analysis of the data in the section can be found on the Methods Summary.

Learn about:

mRNA and protein expression in single cell types
if a gene is enriched in a particular cell type (specificity)
which genes have a similar expression profile across cell types (expression cluster)

THE SINGLE CELL TYPE PROTEOMESⁱ


Glandular epithelial cells		Squamous epithelial cells
Specialized epithelial cells		Endocrine cells
Neuronal cells		Glial cells
Germ cells		Trophoblast cells
Endothelial cells		Muscle cells
Mesenchymal cells		Adipocytes
Pigment cells	Blood & immune cells	Undifferentiated cells

SINGLE CELL TYPE EXPRESSIONⁱ

The RNA data was used to cluster genes according to their expression across single cell types. The clustering of 18965 genes expressed in single cell types resulted in 68 expression clusters, which have been manually annotated to describe common features in terms of function and specificity. The result of the cluster analysis is presented as a UMAP based on gene expression, where each cluster has been summarized as colored areas containing most of the cluster genes.

Go to interactive expression cluster page

SINGLE CELL TYPE SUMMARYⁱ

Classification of all protein-coding genes based on single cell type-specific expression, determining the number of genes elevated (cell type/group enriched, cell type enhanced) in a particular cell type compared to all other cell types.

Cell type group	Cell type	Enriched	Group enriched	Enhanced	Total elevated
Glandular epithelial cells	Basal respiratory cells	5	27	257	289
	Club cells	5	53	240	298
	Ionocytes	9	14	125	148
	Respiratory ciliated cells	18	153	546	717
	Gastric mucus-secreting cells	22	36	292	350
	Proximal enterocytes	41	95	682	818
	Paneth cells	6	49	398	453
	Distal enterocytes	3	50	603	656
	Intestinal goblet cells	17	26	260	303
	Exocrine glandular cells	27	21	268	316
	Basal prostatic cells	2	22	212	236
	Prostatic glandular cells	7	23	172	202
	Breast glandular cells	8	28	209	245
	Breast myoepithelial cells	1	26	205	232
	Endometrial ciliated cells	10	132	484	626
	Glandular and luminal cells	4	28	404	436
Squamous epithelial cells	Basal keratinocytes	2	32	248	282
	Suprabasal keratinocytes	29	44	319	392
	Basal squamous epithelial cells	1	26	256	283
	Squamous epithelial cells	19	40	298	357
Specialized epithelial cells	Alveolar cells type 1	12	63	394	469
	Alveolar cells type 2	16	69	383	468
	Ductal cells	2	16	220	238
	Hepatocytes	156	114	581	851
	Cholangiocytes	3	24	155	182
	Proximal tubular cells	45	100	762	907
	Distal tubular cells	23	40	553	616
	Collecting duct cells	12	24	280	316
	Urothelial cells	3	24	366	393
	Sertoli cells	6	43	285	334
	Granulosa cells	23	45	428	496
Endocrine cells	Enteroendocrine cells	27	40	201	268
	Pancreatic endocrine cells	9	34	354	397
	Leydig cells	0	40	281	321
	Theca cells	10	34	295	339
Neuronal cells	Excitatory neurons	22	459	1659	2140
	Inhibitory neurons	30	465	1532	2027
	Cone photoreceptor cells	17	104	618	739
	Rod photoreceptor cells	24	96	536	656
	Bipolar cells	26	112	563	701
	Horizontal cells	20	85	522	627
Glial cells	Astrocytes	37	213	933	1183
	Oligodendrocyte precursor cells	22	351	1219	1592
	Oligodendrocytes	90	211	1290	1591
	Microglial cells	16	129	633	778
	Muller glia cells	22	63	393	478
Germ cells	Spermatogonia	26	148	411	585
	Spermatocytes	37	358	1002	1397
	Early spermatids	156	1067	1769	2992
	Late spermatids	93	984	1510	2587
Trophoblast cells	Cytotrophoblasts	3	103	552	658
	Syncytiotrophoblasts	45	132	743	920
	Extravillous trophoblasts	26	106	703	835
Endothelial cells	Endothelial cells	4	65	262	331
Muscle cells	Cardiomyocytes	170	110	610	890
	Skeletal myocytes	29	54	250	333
	Smooth muscle cells	2	49	319	370
Adipocytes	Adipocytes	17	81	525	623
Pigment cells	Melanocytes	14	32	157	203
Mesenchymal cells	Fibroblasts	8	45	408	461
	Hepatic stellate cells	13	62	277	352
	Peritubular cells	2	41	322	365
	Endometrial stromal cells	3	18	317	338
Undifferentiated cells	Undifferentiated cells	0	19	194	213
Blood & immune cells	T-cells	62	101	321	484
	B-cells	20	60	261	341
	Plasma cells	134	61	379	574
	NK-cells	5	68	389	462
	Granulocytes	26	63	311	400
	Monocytes	11	74	429	514
	Macrophages	11	100	445	556
	Hofbauer cells	16	117	593	726
	Kupffer cells	2	73	403	478
	Dendritic cells	4	92	476	572
	Langerhans cells	15	54	422	491
	Erythroid cells	45	34	358	437