Single cell type - HS3ST3B1 - The Human Protein Atlas

HS3ST3B1

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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.	HS3ST3B1
Gene descriptionⁱ Full gene name according to HGNC.	Heparan sulfate-glucosamine 3-sulfotransferase 3B1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Enzymes Metabolic 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.	Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	1

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.	NK-cells & T-cells - Immune system & Transcription (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 (Dendritic cells, Syncytiotrophoblasts, Hepatocytes, Cone photoreceptor 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.	0.66
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.	Not available
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.	Immune cell enhanced (plasmacytoid DC)
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

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 (Dendritic cells, Syncytiotrophoblasts, Hepatocytes, Cone photoreceptor 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.

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: Immune cell enhanced (plasmacytoid DC)
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

HS3ST3B1 is part of cluster 78 NK-cells & T-cells - Immune system & Transcription with confidenceⁱ 1
392 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.
CD4	CD4 molecule	0.5190	41
SC5D	Sterol-C5-desaturase	0.5121	62
CORO7	Coronin 7	0.5093	28
SELPLG	Selectin P ligand	0.4962	19
CD6	CD6 molecule	0.4606	78
P2RY6	Pyrimidinergic receptor P2Y6	0.4604	28
CXCR3	C-X-C motif chemokine receptor 3	0.4604	28
CD5	CD5 molecule	0.4598	7
ESRRA	Estrogen related receptor alpha	0.4483	62
EHHADH	Enoyl-CoA hydratase and 3-hydroxyacyl CoA dehydrogenase	0.4454	62
TRAV6	T cell receptor alpha variable 6	0.4383	7
KRTAP16-1	Keratin associated protein 16-1	0.4375	7
TRAV17	T cell receptor alpha variable 17	0.4370	7
F9	Coagulation factor IX	0.4365	62
TNFSF8	TNF superfamily member 8	0.4321	78

IMMUNE CELLS

HS3ST3B1 is part of cluster 13 Non-specific - Mitochondria with confidenceⁱ 0.99
458 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.
MRPS28	Mitochondrial ribosomal protein S28	1.0000	13
COX16	Cytochrome c oxidase assembly factor COX16	0.9762	13
ALG1L2	ALG1 chitobiosyldiphosphodolichol beta-mannosyltransferase like 2	0.9762	13
RIOX2	Ribosomal oxygenase 2	0.9762	13
POP5	POP5 homolog, ribonuclease P/MRP subunit	0.9762	13
HS3ST3A1	Heparan sulfate-glucosamine 3-sulfotransferase 3A1	0.9762	13
RBMS3	RNA binding motif single stranded interacting protein 3	0.9762	13
VASH2	Vasohibin 2	0.9762	13
ZGRF1	Zinc finger GRF-type containing 1	0.9762	13
WNT10A	Wnt family member 10A	0.9762	13
SEM1	SEM1 26S proteasome subunit	0.9762	13
NDRG1	N-myc downstream regulated 1	0.9762	13
NUTF2	Nuclear transport factor 2	0.9762	13
PLS3	Plastin 3	0.9762	13
RWDD2A	RWD domain containing 2A	0.9524	13

Adipocytes	2.9 nTPM
Adipose tissue	3.4 nTPM
Breast	2.5 nTPM

Alveolar cells type 1	0.3 nTPM
Lung	0.3 nTPM

Alveolar cells type 2	0.3 nTPM
Lung	0.3 nTPM

Astrocytes	5.9 nTPM
Brain	5.9 nTPM

B-cells	2.8 nTPM
Skin	13.6 nTPM
Lung	8.0 nTPM
Lymph node	4.9 nTPM
Stomach	3.8 nTPM
Spleen	2.2 nTPM
Adipose tissue	1.6 nTPM
Salivary gland	1.5 nTPM
Thymus	0.8 nTPM
Bone marrow	0.2 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Esophagus	0.0 nTPM

Ciliated cells	2.2 nTPM
Lung	4.6 nTPM
Bronchus	3.0 nTPM
Fallopian tube	1.0 nTPM
Endometrium	0.3 nTPM

Club cells	3.2 nTPM
Bronchus	7.2 nTPM
Lung	2.3 nTPM
Prostate	0.0 nTPM

Dendritic cells	58.4 nTPM
Adipose tissue	59.2 nTPM
PBMC	57.6 nTPM

Endothelial cells	4.3 nTPM
Liver	44.1 nTPM
Skin	10.2 nTPM
Esophagus	3.0 nTPM
Ovary	2.4 nTPM
Placenta	2.3 nTPM
Salivary gland	2.0 nTPM
Tongue	2.0 nTPM
Prostate	1.9 nTPM
Testis	1.8 nTPM
Fallopian tube	1.6 nTPM
Thymus	1.5 nTPM
Vascular	1.5 nTPM
Heart muscle	1.2 nTPM
Endometrium	1.0 nTPM
Skeletal muscle	0.9 nTPM
Lung	0.7 nTPM
Pancreas	0.0 nTPM
Breast	0.0 nTPM

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

Fibroblasts	7.6 nTPM
Liver	47.4 nTPM
Skin	15.1 nTPM
Prostate	14.5 nTPM
Breast	9.3 nTPM
Esophagus	9.2 nTPM
Pancreas	8.5 nTPM
Stomach	7.2 nTPM
Salivary gland	2.5 nTPM
Lung	2.3 nTPM
Skeletal muscle	1.2 nTPM
Fallopian tube	1.2 nTPM
Placenta	1.0 nTPM
Heart muscle	0.5 nTPM
Thymus	0.5 nTPM
Vascular	0.5 nTPM
Adipose tissue	0.1 nTPM

Granulocytes	1.7 nTPM
Tongue	4.9 nTPM
Fallopian tube	0.2 nTPM
Lung	0.0 nTPM

Intestinal goblet cells	0.5 nTPM
Colon	0.7 nTPM
Small intestine	0.7 nTPM
Rectum	0.2 nTPM

Lymphatic endothelial cells	2.8 nTPM
Ovary	5.5 nTPM
Fallopian tube	0.2 nTPM

Macrophages	7.5 nTPM
Fallopian tube	19.5 nTPM
Pancreas	14.4 nTPM
Salivary gland	13.2 nTPM
Esophagus	10.3 nTPM
Stomach	10.3 nTPM
Vascular	8.4 nTPM
Adipose tissue	8.3 nTPM
Endometrium	8.0 nTPM
Skin	7.8 nTPM
Tongue	7.2 nTPM
Spleen	7.0 nTPM
Skeletal muscle	6.9 nTPM
Kidney	5.3 nTPM
Prostate	4.1 nTPM
Breast	3.6 nTPM
Lung	3.2 nTPM
Testis	2.5 nTPM
Thymus	2.1 nTPM
Bone marrow	0.0 nTPM

Basal prostatic cells	0.6 nTPM
Prostate	0.6 nTPM

Basal respiratory cells	4.4 nTPM
Bronchus	4.4 nTPM

Basal squamous epithelial cells	16.0 nTPM
Esophagus	16.0 nTPM

Bipolar cells	6.3 nTPM
Eye	6.3 nTPM

Paneth cells	1.2 nTPM
Small intestine	3.5 nTPM
Colon	0.0 nTPM
Rectum	0.0 nTPM

Plasma cells	0.7 nTPM
Liver	3.5 nTPM
Salivary gland	0.9 nTPM
Thymus	0.5 nTPM
Fallopian tube	0.3 nTPM
Spleen	0.2 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Stomach	0.0 nTPM

Schwann cells	7.6 nTPM
Esophagus	12.0 nTPM
Adipose tissue	10.9 nTPM
Vascular	0.0 nTPM

Serous glandular cells	4.8 nTPM
Salivary gland	9.6 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	3.1 nTPM
Placenta	14.1 nTPM
Liver	8.1 nTPM
Tongue	5.4 nTPM
Skin	5.3 nTPM
Salivary gland	5.3 nTPM
Esophagus	2.4 nTPM
Breast	2.1 nTPM
Ovary	2.0 nTPM
Skeletal muscle	1.6 nTPM
Thymus	0.7 nTPM
Endometrium	0.6 nTPM
Prostate	0.6 nTPM
Vascular	0.3 nTPM
Adipose tissue	0.2 nTPM
Fallopian tube	0.2 nTPM
Lung	0.0 nTPM

T-cells	15.3 nTPM
Lymph node	29.9 nTPM
Esophagus	26.8 nTPM
Tongue	23.6 nTPM
Thymus	23.2 nTPM
Skin	21.0 nTPM
Adipose tissue	19.5 nTPM
Skeletal muscle	18.1 nTPM
Vascular	16.5 nTPM
Kidney	15.1 nTPM
Breast	15.1 nTPM
Salivary gland	13.7 nTPM
Lung	13.4 nTPM
Prostate	13.2 nTPM
Liver	12.1 nTPM
Colon	11.7 nTPM
Spleen	10.9 nTPM
PBMC	9.8 nTPM
Fallopian tube	8.4 nTPM
Stomach	8.1 nTPM
Bone marrow	7.8 nTPM
Endometrium	2.5 nTPM

Undifferentiated cells	0.2 nTPM
Small intestine	0.4 nTPM
Colon	0.2 nTPM
Rectum	0.1 nTPM