Single cell type - SUGCT - The Human Protein Atlas

SUGCT

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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.	SUGCT
Gene descriptionⁱ Full gene name according to HGNC.	Succinyl-CoA:glutarate-CoA transferase
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Disease related genes Enzymes Human disease related genes Potential drug targets
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.	4

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 (Astrocytes, Proximal tubular cells, Oligodendrocyte precursor cells, Inhibitory neurons, Early spermatids)
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.	0.68
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 (Ependymal cell)
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 (naive CD4 T-cell)
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 (Astrocytes, Proximal tubular cells, Oligodendrocyte precursor cells, Inhibitory neurons, Early spermatids)

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 (Ependymal cell)

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 (naive CD4 T-cell)
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

SUGCT 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.
ANTXR1	ANTXR cell adhesion molecule 1	0.6721	32
ZBTB47	Zinc finger and BTB domain containing 47	0.6127	32
DMPK	DM1 protein kinase	0.6013	32
ALDH1B1	Aldehyde dehydrogenase 1 family member B1	0.6004	56
LTBP1	Latent transforming growth factor beta binding protein 1	0.5942	32
SUSD5	Sushi domain containing 5	0.5852	32
RAB40A	RAB40A, member RAS oncogene family	0.5823	32
ITGA8	Integrin subunit alpha 8	0.5665	32
BGN	Biglycan	0.5594	32
SULF1	Sulfatase 1	0.5584	32
NCS1	Neuronal calcium sensor 1	0.5540	32
DACT3	Dishevelled binding antagonist of beta catenin 3	0.5516	32
IRAG1	Inositol 1,4,5-triphosphate receptor associated 1	0.5469	32
MYH10	Myosin heavy chain 10	0.5375	32
PRDM6	PR/SET domain 6	0.5306	32

Adipocytes	0.5 nTPM
Breast	0.8 nTPM
Adipose tissue	0.2 nTPM

Alveolar cells type 1	0.2 nTPM
Lung	0.2 nTPM

Alveolar cells type 2	0.5 nTPM
Lung	0.5 nTPM

B-cells	0.9 nTPM
Kidney	5.2 nTPM
Stomach	1.7 nTPM
Thymus	1.0 nTPM
Adipose tissue	0.8 nTPM
Lymph node	0.8 nTPM
Spleen	0.8 nTPM
Salivary gland	0.8 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Skin	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Lung	0.0 nTPM

Basal keratinocytes	1.9 nTPM
Tongue	2.9 nTPM
Skin	0.8 nTPM

Ciliated cells	1.2 nTPM
Bronchus	2.8 nTPM
Endometrium	1.0 nTPM
Fallopian tube	0.8 nTPM
Lung	0.2 nTPM

Club cells	1.6 nTPM
Bronchus	2.9 nTPM
Lung	1.5 nTPM
Prostate	0.5 nTPM

Endothelial cells	0.8 nTPM
Liver	2.5 nTPM
Fallopian tube	2.0 nTPM
Prostate	1.4 nTPM
Tongue	1.4 nTPM
Vascular	1.3 nTPM
Skin	0.9 nTPM
Salivary gland	0.8 nTPM
Thymus	0.7 nTPM
Ovary	0.7 nTPM
Testis	0.6 nTPM
Placenta	0.6 nTPM
Skeletal muscle	0.6 nTPM
Heart muscle	0.3 nTPM
Endometrium	0.3 nTPM
Lung	0.1 nTPM
Pancreas	0.0 nTPM
Esophagus	0.0 nTPM
Breast	0.0 nTPM

Enteroendocrine cells	6.3 nTPM
Colon	10.6 nTPM
Rectum	5.0 nTPM
Small intestine	3.4 nTPM

Fibroblasts	9.2 nTPM
Pancreas	96.3 nTPM
Skeletal muscle	10.6 nTPM
Skin	8.0 nTPM
Vascular	7.9 nTPM
Salivary gland	4.2 nTPM
Prostate	3.3 nTPM
Esophagus	3.2 nTPM
Thymus	3.0 nTPM
Stomach	2.9 nTPM
Fallopian tube	2.4 nTPM
Breast	1.7 nTPM
Lung	1.5 nTPM
Liver	1.2 nTPM
Adipose tissue	1.1 nTPM
Heart muscle	0.2 nTPM
Placenta	0.2 nTPM

Granulocytes	0.3 nTPM
Lung	0.5 nTPM
Fallopian tube	0.4 nTPM
Tongue	0.0 nTPM

Intestinal goblet cells	1.2 nTPM
Small intestine	1.7 nTPM
Rectum	1.6 nTPM
Colon	0.2 nTPM

Lymphatic endothelial cells	0.1 nTPM
Fallopian tube	0.1 nTPM
Ovary	0.0 nTPM

Macrophages	0.7 nTPM
Kidney	2.7 nTPM
Testis	2.5 nTPM
Vascular	1.7 nTPM
Tongue	1.4 nTPM
Skin	1.1 nTPM
Breast	1.0 nTPM
Endometrium	0.6 nTPM
Lung	0.4 nTPM
Thymus	0.4 nTPM
Salivary gland	0.3 nTPM
Prostate	0.2 nTPM
Adipose tissue	0.1 nTPM
Fallopian tube	0.1 nTPM
Pancreas	0.0 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	3.5 nTPM
Colon	3.6 nTPM
Small intestine	3.5 nTPM
Rectum	3.4 nTPM

Astrocytes	72.1 nTPM
Brain	72.1 nTPM

Distal enterocytes	10.1 nTPM
Colon	10.2 nTPM
Rectum	10.0 nTPM

Excitatory neurons	19.1 nTPM
Brain	19.1 nTPM

Plasma cells	0.4 nTPM
Fallopian tube	1.3 nTPM
Liver	1.0 nTPM
Stomach	0.4 nTPM
Thymus	0.3 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Salivary gland	0.0 nTPM

Schwann cells	8.5 nTPM
Esophagus	24.0 nTPM
Vascular	1.0 nTPM
Adipose tissue	0.4 nTPM

Serous glandular cells	0.3 nTPM
Salivary gland	0.6 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	7.7 nTPM
Vascular	63.8 nTPM
Thymus	17.4 nTPM
Breast	6.9 nTPM
Endometrium	5.9 nTPM
Tongue	4.8 nTPM
Skin	4.3 nTPM
Prostate	4.3 nTPM
Fallopian tube	2.9 nTPM
Ovary	2.8 nTPM
Esophagus	2.4 nTPM
Salivary gland	2.2 nTPM
Skeletal muscle	1.8 nTPM
Placenta	1.5 nTPM
Lung	1.2 nTPM
Adipose tissue	0.9 nTPM
Liver	0.8 nTPM

T-cells	0.7 nTPM
Vascular	3.6 nTPM
Lymph node	2.3 nTPM
Kidney	1.8 nTPM
Bone marrow	1.2 nTPM
Thymus	1.1 nTPM
Spleen	0.9 nTPM
Tongue	0.7 nTPM
Endometrium	0.6 nTPM
Lung	0.5 nTPM
Stomach	0.4 nTPM
Salivary gland	0.4 nTPM
Liver	0.3 nTPM
Breast	0.3 nTPM
PBMC	0.2 nTPM
Adipose tissue	0.2 nTPM
Fallopian tube	0.1 nTPM
Colon	0.0 nTPM
Skin	0.0 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM
Prostate	0.0 nTPM

Undifferentiated cells	4.5 nTPM
Colon	5.6 nTPM
Small intestine	4.6 nTPM
Rectum	3.1 nTPM

Amygdala excitatory	62.9 nTPM
Hypothalamus	83.0 nTPM
Amygdala	71.6 nTPM
Basal ganglia	64.3 nTPM
Thalamus	61.7 nTPM
Hippocampus	49.2 nTPM
Cerebral cortex	47.7 nTPM

Astrocyte	157.6 nTPM
Amygdala	204.5 nTPM
Hypothalamus	189.7 nTPM
Basal ganglia	172.1 nTPM
Thalamus	160.3 nTPM
Spinal cord	155.1 nTPM
Hippocampus	153.8 nTPM
Cerebral cortex	150.3 nTPM
Midbrain	147.0 nTPM
Medulla oblongata	140.5 nTPM
Pons	130.8 nTPM
Cerebellum	129.7 nTPM

Bergmann glia	84.7 nTPM
Medulla oblongata	98.0 nTPM
Cerebellum	78.4 nTPM
Pons	77.7 nTPM

Central nervous system macrophage	36.2 nTPM
Amygdala	55.1 nTPM
Hypothalamus	46.6 nTPM
Basal ganglia	37.7 nTPM
Hippocampus	36.9 nTPM
Midbrain	35.8 nTPM
Thalamus	34.1 nTPM
Cerebral cortex	33.1 nTPM
Pons	32.7 nTPM
Spinal cord	32.7 nTPM
Cerebellum	28.0 nTPM
Medulla oblongata	25.2 nTPM

Cerebellar inhibitory	93.5 nTPM
Pons	109.0 nTPM
Spinal cord	99.0 nTPM
Medulla oblongata	95.6 nTPM
Cerebellum	82.6 nTPM
Midbrain	81.2 nTPM

Cge interneuron	40.2 nTPM
Hypothalamus	50.1 nTPM
Amygdala	50.0 nTPM
Hippocampus	42.0 nTPM
Midbrain	36.8 nTPM
Basal ganglia	35.4 nTPM
Cerebral cortex	35.3 nTPM
Thalamus	31.8 nTPM

Choroid plexus epithelial cell	191.9 nTPM
Basal ganglia	317.3 nTPM
Hippocampus	169.2 nTPM
Medulla oblongata	163.4 nTPM
Thalamus	117.8 nTPM

Committed oligodendrocyte precursor	50.8 nTPM
Hippocampus	66.0 nTPM
Pons	57.5 nTPM
Hypothalamus	54.6 nTPM
Basal ganglia	54.2 nTPM
Midbrain	52.9 nTPM
Amygdala	52.4 nTPM
Cerebral cortex	51.3 nTPM
Thalamus	48.2 nTPM
Cerebellum	46.0 nTPM
Medulla oblongata	42.6 nTPM
Spinal cord	33.1 nTPM

Deep-layer corticothalamic and 6b	23.5 nTPM
Hypothalamus	30.0 nTPM
Hippocampus	28.2 nTPM
Amygdala	25.8 nTPM
Cerebral cortex	21.0 nTPM
Basal ganglia	18.4 nTPM
Midbrain	17.8 nTPM

Deep-layer intratelencephalic	36.8 nTPM
Amygdala	50.3 nTPM
Hippocampus	40.4 nTPM
Hypothalamus	39.4 nTPM
Basal ganglia	28.5 nTPM
Cerebral cortex	25.2 nTPM

Deep-layer near-projecting	25.7 nTPM
Hypothalamus	37.0 nTPM
Amygdala	29.4 nTPM
Basal ganglia	23.1 nTPM
Cerebral cortex	20.6 nTPM
Hippocampus	18.2 nTPM

Eccentric medium spiny neuron	68.5 nTPM
Basal ganglia	81.9 nTPM
Hypothalamus	80.6 nTPM
Thalamus	74.0 nTPM
Cerebral cortex	64.3 nTPM
Amygdala	62.2 nTPM
Hippocampus	48.1 nTPM

Endothelial cell	18.9 nTPM
Hypothalamus	58.3 nTPM
Basal ganglia	28.0 nTPM
Hippocampus	19.9 nTPM
Cerebellum	15.5 nTPM
Medulla oblongata	14.4 nTPM
Pons	13.7 nTPM
Cerebral cortex	13.4 nTPM
Midbrain	13.2 nTPM
Amygdala	12.3 nTPM
Spinal cord	12.1 nTPM
Thalamus	6.8 nTPM

Ependymal cell	260.8 nTPM
Amygdala	386.2 nTPM
Basal ganglia	308.2 nTPM
Midbrain	297.1 nTPM
Hippocampus	290.3 nTPM
Thalamus	242.2 nTPM
Pons	237.7 nTPM
Hypothalamus	235.6 nTPM
Medulla oblongata	200.6 nTPM
Spinal cord	149.5 nTPM