Single cell type - THBS2 - The Human Protein Atlas

THBS2

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Pathway

GENERAL INFORMATIONⁱ General description of the gene and the encoded protein(s) using information from HGNC and Ensembl, as well as predictions made by the Human Protein Atlas project.
Gene nameⁱ Official gene symbol, which is typically a short form of the gene name, according to HGNC.	THBS2
Gene descriptionⁱ Full gene name according to HGNC.	Thrombospondin 2
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Cancer-related genes Disease related genes Human disease related genes Plasma proteins
Predicted locationⁱ All transcripts of all genes have been analyzed regarding the location(s) of corresponding protein based on prediction methods for signal peptides and transmembrane regions. Genes with at least one transcript predicted to encode a secreted protein, according to prediction methods or to UniProt location data, have been further annotated and classified with the aim to determine if the corresponding protein(s) are secreted or actually retained in intracellular locations or membrane-attached. Remaining genes, with no transcript predicted to encode a secreted protein, will be assigned the prediction-based location(s). The annotated location overrules the predicted location, so that a gene encoding a predicted secreted protein that has been annotated as intracellular will have intracellular as the final location.	Secreted
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	8

HUMAN PROTEIN ATLAS INFORMATIONⁱ Summary of RNA expression and protein localization based on data generated within the Human Protein Atlas project.
Single cell type expression clusterⁱ The RNA data was used to cluster genes according to their expression across single cell types. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity.	Smooth muscle cells - Muscle contraction (mainly)
Single cell type specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell types based on scRNA-seq data from normal tissues. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected.	Cell type enhanced (Fibroblasts, Endometrial stromal cells, Oligodendrocytes, Langerhans cells, Pancreatic endocrine cells, Smooth muscle cells, Basal keratinocytes, Oligodendrocyte precursor cells)
Tau specificity scoreⁱ Tau specificity score is a numerical indicator of the specificity of the gene expression across cells or tissues. The value ranges from 0 and 1, where 0 indicates identical expression across all cells/tissue types, while 1 indicates expression in a single cell/tissue type.	0.78
Brain cluster specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell cluster types based on snRNA-seq data from brain samples. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. "cell type" refer to one of the 34 cluster names used to summarize the 2.5 million cells included in the brain cell representation.	Group enriched (Fibroblast, Committed oligodendrocyte precursor, Astrocyte, Oligodendrocyte precursor cell, Oligodendrocyte)
Immune cell specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected.	Not detected in immune cells
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); neXtProt protein existence (neXtProt evidence);and a Human Protein Atlas antibody- or RNA based score (HPA evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable.	Evidence at protein level
Extracellular locationⁱ A possible secretion of the protein was predicted based on N-terminal signal sequence (signal peptide) predictions and transmembrane region predictions, and subsequently annotated for its local or systemic secretion based on literature, function, and protein and RNA expression data.	Protein predicted to be secreted

ASSAYSⁱ

SINGLE CELL TYPESⁱ A summary of normalized single cell RNA (nTPM) from all single cell types. Color-coding is based on cell type groups, each consisting of cell types with functional features in common.
Single cell types RNA single cell type specificity: Cell type enhanced (Fibroblasts, Endometrial stromal cells, Oligodendrocytes, Langerhans cells, Pancreatic endocrine cells, Smooth muscle cells, Basal keratinocytes, Oligodendrocyte precursor cells)

TISSUE CELL TYPEⁱ The tissue cell type section provides a cell type specificity prediction for all protein coding genes. More information on the data available can be found here and a description of the analysis here.
	Core cell typesⁱ The core cell type table displays data for a panel of eight cell types that are found in many tissues. Colored dots indicate that the selected gene has core cell type specificity in the indicated tissue. Grey dots indicate that cell type is present within that tissue, but the selected gene is not predicted to be enriched there. Category Alphabetical Enrichment Tissue specific cell typesⁱ This plot shows the enrichment score of the selected gene in all non-core cell types found within the profiled tissues, allowing comparisons between different cell types within different tissues. An enlarged symbol indicates classification of the gene as cell type enriched in the corresponding cell type.

SINGLE NUCLEI BRAINⁱ

Single nuclei cluster types

RNA brain cluster specificity: Group enriched (Fibroblast, Committed oligodendrocyte precursor, Astrocyte, Oligodendrocyte precursor cell, Oligodendrocyte)

IMMUNE CELL TYPE EXPRESSION (RNA)ⁱ Blood cell type expression overview shows RNA-seq data from three different sources: Internally generated Human Protein Atlas (HPA) data, as well as data generated by (Monaco et al) and (Schmiedel et al). Color-coding is based on blood cell type lineages, including B-cells, T-cells, NK-cells, monocytes, granulocytes and dendritic cells as well as total PBMC. To access sample data, click on tissue name or bar.
HPA datasetⁱ The resulting transcript expression values calculated as nTPM, resulting from the internal normalization pipeline for 18 immune cell types and total peripheral blood mononuclear cells (PBMC). Lineage Expression Alphabetical Immune cell type specificity: Not detected in immune cells
Monaco datasetⁱ The transcript expression values (nTPM) resulting from the internal normalization pipeline are visualized for 29 blood cell types and total peripheral blood mononuclear cells (PBMC) from Monaco et al. Lineage Expression Alphabetical
Schmiedel datasetⁱ Transcript Per Million (TPM) values are visualized for 15 blood cell types from the Schmiedel et al. dataset. Lineage Expression Alphabetical

EXPRESSION CLUSTERING & CORRELATIONⁱ

SINGLE CELL TYPE

THBS2 is part of cluster 32 Smooth muscle cells - Muscle contraction with confidenceⁱ 1
236 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data.	Clusterⁱ ID of the expression cluster of the neighboring gene.
ELN	Elastin	0.8798	32
AEBP1	AE binding protein 1	0.8737	32
ITGBL1	Integrin subunit beta like 1	0.8342	32
PRELP	Proline and arginine rich end leucine rich repeat protein	0.8233	32
FAM180A	Family with sequence similarity 180 member A	0.8105	53
BGN	Biglycan	0.7868	32
LTBP2	Latent transforming growth factor beta binding protein 2	0.7816	32
COMP	Cartilage oligomeric matrix protein	0.7777	32
CRLF1	Cytokine receptor like factor 1	0.7699	32
OMD	Osteomodulin	0.7491	53
DDR2	Discoidin domain receptor tyrosine kinase 2	0.7488	32
PTGIS	Prostaglandin I2 synthase	0.7356	53
COL14A1	Collagen type XIV alpha 1 chain	0.7278	32
CCN3	Cellular communication network factor 3	0.7207	32
MGP	Matrix Gla protein	0.7176	32

Adipocytes	1.7 nTPM
Adipose tissue	1.8 nTPM
Breast	1.7 nTPM

Alveolar cells type 1	0.1 nTPM
Lung	0.1 nTPM

Alveolar cells type 2	0.0 nTPM
Lung	0.0 nTPM

Astrocytes	6.5 nTPM
Brain	6.5 nTPM

B-cells	3.9 nTPM
Skin	27.1 nTPM
Esophagus	17.7 nTPM
Thymus	4.3 nTPM
Salivary gland	0.8 nTPM
Adipose tissue	0.4 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM
Lung	0.0 nTPM

Ciliated cells	2.8 nTPM
Fallopian tube	7.5 nTPM
Endometrium	3.4 nTPM
Lung	0.2 nTPM
Bronchus	0.0 nTPM

Club cells	0.1 nTPM
Prostate	0.4 nTPM
Bronchus	0.0 nTPM
Lung	0.0 nTPM

Endothelial cells	2.4 nTPM
Vascular	14.0 nTPM
Skin	11.2 nTPM
Endometrium	3.6 nTPM
Tongue	3.5 nTPM
Ovary	3.4 nTPM
Liver	2.5 nTPM
Thymus	1.9 nTPM
Fallopian tube	1.0 nTPM
Breast	0.9 nTPM
Skeletal muscle	0.7 nTPM
Salivary gland	0.6 nTPM
Prostate	0.2 nTPM
Heart muscle	0.1 nTPM
Lung	0.1 nTPM
Testis	0.0 nTPM
Placenta	0.0 nTPM
Pancreas	0.0 nTPM
Esophagus	0.0 nTPM

Enteroendocrine cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Fibroblasts	125.1 nTPM
Skin	485.5 nTPM
Vascular	222.3 nTPM
Esophagus	211.3 nTPM
Pancreas	182.8 nTPM
Adipose tissue	164.6 nTPM
Thymus	164.5 nTPM
Salivary gland	130.5 nTPM
Breast	124.5 nTPM
Fallopian tube	98.6 nTPM
Skeletal muscle	66.9 nTPM
Stomach	64.8 nTPM
Lung	50.8 nTPM
Prostate	31.0 nTPM
Heart muscle	2.5 nTPM
Liver	1.2 nTPM
Placenta	0.4 nTPM

Granulocytes	1.0 nTPM
Fallopian tube	3.1 nTPM
Lung	0.0 nTPM
Tongue	0.0 nTPM

Intestinal goblet cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Lymphatic endothelial cells	7.6 nTPM
Fallopian tube	9.7 nTPM
Ovary	5.5 nTPM

Macrophages	3.6 nTPM
Skin	29.0 nTPM
Vascular	23.7 nTPM
Esophagus	3.9 nTPM
Skeletal muscle	3.6 nTPM
Endometrium	2.5 nTPM
Thymus	1.4 nTPM
Fallopian tube	1.4 nTPM
Bone marrow	1.0 nTPM
Spleen	1.0 nTPM
Breast	0.8 nTPM
Salivary gland	0.3 nTPM
Tongue	0.3 nTPM
Adipose tissue	0.2 nTPM
Prostate	0.2 nTPM
Testis	0.0 nTPM
Kidney	0.0 nTPM
Pancreas	0.0 nTPM
Stomach	0.0 nTPM
Lung	0.0 nTPM

Paneth cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Excitatory neurons	1.1 nTPM
Brain	1.1 nTPM

Plasma cells	3.3 nTPM
Esophagus	10.4 nTPM
Fallopian tube	5.8 nTPM
Thymus	5.4 nTPM
Salivary gland	4.5 nTPM
Liver	0.5 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Schwann cells	10.6 nTPM
Vascular	19.9 nTPM
Esophagus	12.0 nTPM
Adipose tissue	0.0 nTPM

Serous glandular cells	3.6 nTPM
Salivary gland	7.2 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	41.6 nTPM
Vascular	284.6 nTPM
Tongue	192.2 nTPM
Thymus	54.3 nTPM
Fallopian tube	21.3 nTPM
Endometrium	20.9 nTPM
Adipose tissue	20.9 nTPM
Skin	18.5 nTPM
Liver	15.3 nTPM
Ovary	12.9 nTPM
Placenta	8.6 nTPM
Lung	7.1 nTPM
Salivary gland	2.7 nTPM
Esophagus	2.4 nTPM
Prostate	1.8 nTPM
Breast	1.3 nTPM
Skeletal muscle	0.7 nTPM

Suprabasal keratinocytes	11.6 nTPM
Skin	23.1 nTPM
Tongue	0.2 nTPM

T-cells	1.7 nTPM
Skin	17.9 nTPM
Vascular	8.8 nTPM
Endometrium	4.7 nTPM
Tongue	0.9 nTPM
Salivary gland	0.8 nTPM
Fallopian tube	0.8 nTPM
Breast	0.5 nTPM
Stomach	0.3 nTPM
Thymus	0.2 nTPM
Colon	0.0 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Skeletal muscle	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Lung	0.0 nTPM
Prostate	0.0 nTPM

Undifferentiated cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Amygdala excitatory	1.0 nTPM
Thalamus	1.4 nTPM
Amygdala	1.1 nTPM
Basal ganglia	1.0 nTPM
Cerebral cortex	1.0 nTPM
Hypothalamus	0.9 nTPM
Hippocampus	0.6 nTPM

Astrocyte	68.5 nTPM
Spinal cord	182.8 nTPM
Medulla oblongata	134.3 nTPM
Pons	114.0 nTPM
Midbrain	71.6 nTPM
Cerebellum	58.6 nTPM
Thalamus	51.5 nTPM
Hypothalamus	49.9 nTPM
Basal ganglia	35.0 nTPM
Hippocampus	22.7 nTPM
Amygdala	21.2 nTPM
Cerebral cortex	11.8 nTPM

Bergmann glia	7.2 nTPM
Medulla oblongata	12.8 nTPM
Cerebellum	6.0 nTPM
Pons	2.9 nTPM

Central nervous system macrophage	1.5 nTPM
Spinal cord	3.2 nTPM
Midbrain	2.0 nTPM
Thalamus	2.0 nTPM
Medulla oblongata	1.6 nTPM
Hippocampus	1.5 nTPM
Amygdala	1.2 nTPM
Hypothalamus	1.2 nTPM
Basal ganglia	1.1 nTPM
Cerebellum	1.1 nTPM
Pons	1.1 nTPM
Cerebral cortex	0.8 nTPM

Cerebellar inhibitory	2.2 nTPM
Midbrain	5.6 nTPM
Pons	3.4 nTPM
Medulla oblongata	1.3 nTPM
Cerebellum	0.6 nTPM
Spinal cord	0.0 nTPM

Cge interneuron	6.0 nTPM
Thalamus	18.1 nTPM
Midbrain	11.6 nTPM
Amygdala	3.3 nTPM
Basal ganglia	3.3 nTPM
Hypothalamus	2.3 nTPM
Hippocampus	1.9 nTPM
Cerebral cortex	1.7 nTPM

Choroid plexus epithelial cell	1.9 nTPM
Thalamus	5.5 nTPM
Basal ganglia	1.4 nTPM
Medulla oblongata	0.6 nTPM
Hippocampus	0.0 nTPM

Committed oligodendrocyte precursor	73.0 nTPM
Spinal cord	99.3 nTPM
Hippocampus	95.5 nTPM
Amygdala	92.5 nTPM
Cerebral cortex	90.6 nTPM
Pons	86.8 nTPM
Midbrain	79.8 nTPM
Basal ganglia	61.3 nTPM
Cerebellum	58.7 nTPM
Hypothalamus	49.8 nTPM
Thalamus	45.0 nTPM
Medulla oblongata	43.9 nTPM

Deep-layer corticothalamic and 6b	9.5 nTPM
Hippocampus	24.2 nTPM
Amygdala	8.8 nTPM
Basal ganglia	8.4 nTPM
Midbrain	6.7 nTPM
Cerebral cortex	5.0 nTPM
Hypothalamus	4.0 nTPM

Deep-layer intratelencephalic	1.0 nTPM
Cerebral cortex	1.2 nTPM
Hippocampus	1.2 nTPM
Basal ganglia	1.0 nTPM
Amygdala	0.9 nTPM
Hypothalamus	0.8 nTPM

Deep-layer near-projecting	14.5 nTPM
Basal ganglia	24.1 nTPM
Hypothalamus	15.6 nTPM
Amygdala	13.2 nTPM
Cerebral cortex	12.0 nTPM
Hippocampus	7.5 nTPM

Eccentric medium spiny neuron	1.2 nTPM
Hippocampus	2.1 nTPM
Amygdala	2.0 nTPM
Cerebral cortex	1.5 nTPM
Thalamus	1.0 nTPM
Basal ganglia	0.3 nTPM
Hypothalamus	0.2 nTPM

Endothelial cell	1.5 nTPM
Spinal cord	5.2 nTPM
Thalamus	2.3 nTPM
Cerebral cortex	1.9 nTPM
Midbrain	1.9 nTPM
Pons	1.9 nTPM
Hippocampus	1.6 nTPM
Hypothalamus	1.2 nTPM
Cerebellum	0.8 nTPM
Amygdala	0.0 nTPM
Basal ganglia	0.0 nTPM
Medulla oblongata	0.0 nTPM