Single cell type - SHTN1 - The Human Protein Atlas

SHTN1

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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.	SHTN1
Gene descriptionⁱ Full gene name according to HGNC.	Shootin 1
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.	5

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.	Oligodendrocytes - Unknown function (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 enriched (Oligodendrocytes)
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.	0.54
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.	Cell type enhanced (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.	Group enriched (classical monocyte, myeloid DC, plasmacytoid DC, intermediate monocyte, non-classical monocyte)
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 enriched (Oligodendrocytes)

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: Cell type enhanced (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: Group enriched (classical monocyte, myeloid DC, plasmacytoid DC, intermediate monocyte, non-classical monocyte)
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

SHTN1 is part of cluster 51 Oligodendrocytes - Unknown function with confidenceⁱ 1
302 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.
GAB2	GRB2 associated binding protein 2	0.6425	51
FRMD5	FERM domain containing 5	0.6310	51
MVB12B	Multivesicular body subunit 12B	0.6168	51
PLET1	Placenta expressed transcript 1	0.6140	51
TMEM151A	Transmembrane protein 151A	0.6135	51
PLEKHH1	Pleckstrin homology, MyTH4 and FERM domain containing H1	0.6087	51
SRCIN1	SRC kinase signaling inhibitor 1	0.5969	51
SLC25A13	Solute carrier family 25 member 13	0.5936	51
FLT3	Fms related receptor tyrosine kinase 3	0.5935	28
DNAJC6	DnaJ heat shock protein family (Hsp40) member C6	0.5830	51
CNDP1	Carnosine dipeptidase 1	0.5762	51
MBP	Myelin basic protein	0.5757	51
TTYH2	Tweety family member 2	0.5733	51
TRPV5	Transient receptor potential cation channel subfamily V member 5	0.5625	51
FTCDNL1	Formiminotransferase cyclodeaminase N-terminal like	0.5610	51

IMMUNE CELLS

SHTN1 is part of cluster 10 Non-specific - Membrane trafficking with confidenceⁱ 0.95
408 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.
GSTP1	Glutathione S-transferase pi 1	1.0000	10
CST3	Cystatin C	1.0000	10
MACROH2A1	MacroH2A.1 histone	1.0000	10
NAGK	N-acetylglucosamine kinase	1.0000	10
DUSP3	Dual specificity phosphatase 3	0.9762	10
FPR3	Formyl peptide receptor 3	0.9762	10
FADS1	Fatty acid desaturase 1	0.9762	10
SERPINB8	Serpin family B member 8	0.9762	10
SSR1	Signal sequence receptor subunit 1	0.9524	10
BRK1	BRICK1 subunit of SCAR/WAVE actin nucleating complex	0.9524	10
MPEG1	Macrophage expressed 1	0.9524	10
FOSL1	FOS like 1, AP-1 transcription factor subunit	0.9524	10
TPP1	Tripeptidyl peptidase 1	0.9524	10
DPCD	Deleted in primary ciliary dyskinesia homolog (mouse)	0.9524	10
CTSB	Cathepsin B	0.9524	10

Adipocytes	1.2 nTPM
Breast	2.2 nTPM
Adipose tissue	0.2 nTPM

Alveolar cells type 1	117.1 nTPM
Lung	117.1 nTPM

Alveolar cells type 2	52.7 nTPM
Lung	52.7 nTPM

Astrocytes	15.5 nTPM
Brain	15.5 nTPM

B-cells	11.7 nTPM
Skin	137.2 nTPM
Kidney	5.2 nTPM
Salivary gland	2.5 nTPM
Spleen	1.9 nTPM
Thymus	1.8 nTPM
Lung	1.3 nTPM
Adipose tissue	0.8 nTPM
Stomach	0.4 nTPM
Lymph node	0.2 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM

Ciliated cells	23.0 nTPM
Endometrium	43.3 nTPM
Lung	19.0 nTPM
Fallopian tube	18.9 nTPM
Bronchus	11.0 nTPM

Club cells	21.7 nTPM
Prostate	28.8 nTPM
Lung	25.9 nTPM
Bronchus	10.4 nTPM

Dendritic cells	69.3 nTPM
Adipose tissue	73.8 nTPM
PBMC	64.8 nTPM

Endothelial cells	3.7 nTPM
Liver	10.1 nTPM
Pancreas	7.8 nTPM
Lung	6.2 nTPM
Salivary gland	6.1 nTPM
Placenta	5.7 nTPM
Prostate	5.5 nTPM
Tongue	5.2 nTPM
Endometrium	3.9 nTPM
Skin	2.8 nTPM
Thymus	2.3 nTPM
Vascular	2.1 nTPM
Breast	1.8 nTPM
Ovary	1.7 nTPM
Fallopian tube	1.6 nTPM
Testis	1.5 nTPM
Heart muscle	1.4 nTPM
Skeletal muscle	1.1 nTPM
Esophagus	0.8 nTPM

Enteroendocrine cells	27.0 nTPM
Rectum	31.9 nTPM
Small intestine	27.5 nTPM
Colon	21.6 nTPM

Fibroblasts	9.3 nTPM
Placenta	23.0 nTPM
Fallopian tube	14.9 nTPM
Lung	13.7 nTPM
Vascular	11.7 nTPM
Skeletal muscle	10.4 nTPM
Stomach	10.1 nTPM
Salivary gland	9.9 nTPM
Adipose tissue	9.8 nTPM
Prostate	9.2 nTPM
Skin	8.1 nTPM
Breast	6.3 nTPM
Esophagus	5.9 nTPM
Pancreas	5.7 nTPM
Thymus	5.4 nTPM
Heart muscle	5.0 nTPM
Liver	0.0 nTPM

Granulocytes	4.2 nTPM
Fallopian tube	10.2 nTPM
Lung	2.5 nTPM
Tongue	0.0 nTPM

Intestinal goblet cells	26.3 nTPM
Colon	28.5 nTPM
Rectum	27.2 nTPM
Small intestine	23.2 nTPM

Lymphatic endothelial cells	6.4 nTPM
Ovary	10.9 nTPM
Fallopian tube	2.0 nTPM

Macrophages	90.8 nTPM
Adipose tissue	155.0 nTPM
Vascular	149.4 nTPM
Skeletal muscle	134.4 nTPM
Salivary gland	124.0 nTPM
Prostate	122.0 nTPM
Thymus	116.6 nTPM
Testis	112.2 nTPM
Fallopian tube	101.8 nTPM
Breast	86.5 nTPM
Tongue	78.1 nTPM
Endometrium	74.4 nTPM
Lung	74.0 nTPM
Skin	66.9 nTPM
Pancreas	65.8 nTPM
Kidney	62.8 nTPM
Esophagus	59.1 nTPM
Bone marrow	51.7 nTPM
Spleen	50.1 nTPM
Stomach	41.2 nTPM

Basal keratinocytes	28.9 nTPM
Tongue	29.1 nTPM
Skin	28.7 nTPM

Basal prostatic cells	22.2 nTPM
Prostate	22.2 nTPM

Basal respiratory cells	14.8 nTPM
Bronchus	14.8 nTPM

Basal squamous epithelial cells	17.1 nTPM
Esophagus	17.1 nTPM

Paneth cells	66.4 nTPM
Colon	79.6 nTPM
Small intestine	62.2 nTPM
Rectum	57.3 nTPM

Plasma cells	2.0 nTPM
Salivary gland	9.0 nTPM
Liver	3.0 nTPM
Fallopian tube	2.6 nTPM
Thymus	0.6 nTPM
Stomach	0.4 nTPM
Spleen	0.2 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM

Schwann cells	221.6 nTPM
Adipose tissue	633.6 nTPM
Esophagus	24.0 nTPM
Vascular	7.3 nTPM

Serous glandular cells	61.5 nTPM
Salivary gland	74.3 nTPM
Tongue	48.6 nTPM

Smooth muscle cells	7.1 nTPM
Salivary gland	29.4 nTPM
Endometrium	14.5 nTPM
Fallopian tube	10.7 nTPM
Vascular	9.5 nTPM
Prostate	9.1 nTPM
Ovary	8.0 nTPM
Tongue	6.0 nTPM
Skin	4.7 nTPM
Lung	4.7 nTPM
Adipose tissue	3.3 nTPM
Thymus	3.3 nTPM
Placenta	2.8 nTPM
Esophagus	2.4 nTPM
Breast	2.4 nTPM
Skeletal muscle	1.7 nTPM
Liver	1.3 nTPM

Suprabasal keratinocytes	28.3 nTPM
Skin	35.6 nTPM
Tongue	21.0 nTPM

T-cells	2.4 nTPM
Endometrium	10.1 nTPM
Vascular	7.6 nTPM
Salivary gland	4.0 nTPM
Colon	3.9 nTPM
Skin	3.5 nTPM
Tongue	3.5 nTPM
Kidney	2.7 nTPM
Prostate	2.2 nTPM
Lung	1.9 nTPM
Breast	1.8 nTPM
Fallopian tube	1.8 nTPM
Liver	1.6 nTPM
Adipose tissue	1.6 nTPM
Skeletal muscle	1.5 nTPM
PBMC	0.7 nTPM
Spleen	0.5 nTPM
Thymus	0.4 nTPM
Lymph node	0.3 nTPM
Stomach	0.1 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM

Undifferentiated cells	24.7 nTPM
Colon	28.9 nTPM
Rectum	26.3 nTPM
Small intestine	18.8 nTPM

Amygdala excitatory	237.3 nTPM
Amygdala	268.3 nTPM
Hippocampus	257.0 nTPM
Cerebral cortex	238.1 nTPM
Hypothalamus	232.7 nTPM
Thalamus	222.8 nTPM
Basal ganglia	205.0 nTPM

Astrocyte	92.0 nTPM
Hypothalamus	268.1 nTPM
Basal ganglia	197.0 nTPM
Spinal cord	107.1 nTPM
Amygdala	95.8 nTPM
Medulla oblongata	70.1 nTPM
Thalamus	61.4 nTPM
Cerebellum	54.8 nTPM
Pons	46.5 nTPM
Midbrain	42.6 nTPM
Hippocampus	34.3 nTPM
Cerebral cortex	33.8 nTPM

Bergmann glia	62.7 nTPM
Medulla oblongata	66.1 nTPM
Cerebellum	61.5 nTPM
Pons	60.4 nTPM

Central nervous system macrophage	830.3 nTPM
Amygdala	1100.7 nTPM
Basal ganglia	1073.7 nTPM
Midbrain	934.6 nTPM
Hypothalamus	915.3 nTPM
Hippocampus	812.2 nTPM
Cerebellum	804.4 nTPM
Pons	788.9 nTPM
Thalamus	786.3 nTPM
Cerebral cortex	649.9 nTPM
Medulla oblongata	644.1 nTPM
Spinal cord	623.2 nTPM

Cerebellar inhibitory	95.9 nTPM
Pons	128.1 nTPM
Midbrain	93.3 nTPM
Medulla oblongata	89.7 nTPM
Spinal cord	88.0 nTPM
Cerebellum	80.5 nTPM

Cge interneuron	274.2 nTPM
Hypothalamus	334.5 nTPM
Amygdala	315.0 nTPM
Basal ganglia	307.5 nTPM
Hippocampus	295.0 nTPM
Cerebral cortex	237.8 nTPM
Midbrain	224.0 nTPM
Thalamus	205.4 nTPM

Choroid plexus epithelial cell	406.4 nTPM
Basal ganglia	665.9 nTPM
Thalamus	378.2 nTPM
Medulla oblongata	343.0 nTPM
Hippocampus	238.5 nTPM

Committed oligodendrocyte precursor	588.8 nTPM
Hypothalamus	1357.4 nTPM
Thalamus	1300.8 nTPM
Amygdala	1087.7 nTPM
Basal ganglia	589.7 nTPM
Cerebral cortex	407.2 nTPM
Hippocampus	363.0 nTPM
Pons	335.5 nTPM
Midbrain	331.0 nTPM
Spinal cord	261.2 nTPM
Medulla oblongata	237.5 nTPM
Cerebellum	206.1 nTPM

Deep-layer corticothalamic and 6b	160.3 nTPM
Hypothalamus	188.0 nTPM
Amygdala	177.0 nTPM
Hippocampus	169.4 nTPM
Basal ganglia	147.6 nTPM
Cerebral cortex	143.4 nTPM
Midbrain	136.5 nTPM

Deep-layer intratelencephalic	183.8 nTPM
Amygdala	260.7 nTPM
Hippocampus	190.6 nTPM
Hypothalamus	162.7 nTPM
Basal ganglia	158.8 nTPM
Cerebral cortex	146.2 nTPM

Deep-layer near-projecting	57.9 nTPM
Hypothalamus	66.6 nTPM
Cerebral cortex	60.1 nTPM
Amygdala	58.7 nTPM
Basal ganglia	55.8 nTPM
Hippocampus	48.1 nTPM

Eccentric medium spiny neuron	365.8 nTPM
Hypothalamus	430.6 nTPM
Hippocampus	406.2 nTPM
Thalamus	385.7 nTPM
Amygdala	337.8 nTPM
Basal ganglia	327.5 nTPM
Cerebral cortex	306.7 nTPM