Single cell type - GGTA1 - The Human Protein Atlas

GGTA1

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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.	GGTA1
Gene descriptionⁱ Full gene name according to HGNC.	Glycoprotein alpha-galactosyltransferase 1 (inactive)
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.	2

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.	Serous glandular cells - Salivary secretion (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 (Serous glandular cells, Langerhans cells, Hofbauer cells, Macrophages, Kupffer cells, Lymphatic endothelial 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.	0.72
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 enriched (Central nervous system macrophage)
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 (plasmacytoid DC, classical monocyte, intermediate monocyte, myeloid 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 (Serous glandular cells, Langerhans cells, Hofbauer cells, Macrophages, Kupffer cells, Lymphatic endothelial 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: Cell type enriched (Central nervous system macrophage)

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 (plasmacytoid DC, classical monocyte, intermediate monocyte, myeloid 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

GGTA1 is part of cluster 75 Serous glandular cells - Salivary secretion with confidenceⁱ 1
145 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.
SLC37A2	Solute carrier family 37 member 2	0.7417	58
TCHH	Trichohyalin	0.7045	58
OGFRL1	Opioid growth factor receptor like 1	0.6884	58
SLC31A2	Solute carrier family 31 member 2	0.6630	75
RRAGD	Ras related GTP binding D	0.6384	75
MFSD1	Major facilitator superfamily domain containing 1	0.6113	58
GAL3ST4	Galactose-3-O-sulfotransferase 4	0.6055	58
CAMP	Cathelicidin antimicrobial peptide	0.5987	75
AMY1C	Amylase alpha 1C	0.5941	75
FOLR2	Folate receptor beta	0.5937	58
F13A1	Coagulation factor XIII A chain	0.5921	58
AMY1B	Amylase alpha 1B	0.5921	75
CD209	CD209 molecule	0.5899	58
PRB4	Proline rich protein BstNI subfamily 4	0.5899	75
DNASE2B	Deoxyribonuclease 2 beta	0.5899	75

IMMUNE CELLS

GGTA1 is part of cluster 2 Dendritic cells - Unknown function with confidenceⁱ 0.66
342 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.
CTSG	Cathepsin G	1.0000	2
TMEM144	Transmembrane protein 144	1.0000	2
TGFBI	Transforming growth factor beta induced	0.9762	2
SPOCK3	SPARC (osteonectin), cwcv and kazal like domains proteoglycan 3	0.9762	2
TMEM17	Transmembrane protein 17	0.9762	2
RNASE6	Ribonuclease A family member k6	0.9762	2
NCKAP5L	NCK associated protein 5 like	0.9762	2
SNCA	Synuclein alpha	0.9762	2
TRPM2	Transient receptor potential cation channel subfamily M member 2	0.9762	2
SDSL	Serine dehydratase like	0.9762	2
IQSEC2	IQ motif and Sec7 domain ArfGEF 2	0.9762	2
CALCRL	Calcitonin receptor like receptor	0.9762	2
MYCL	MYCL proto-oncogene, bHLH transcription factor	0.9762	2
DNAJC4	DnaJ heat shock protein family (Hsp40) member C4	0.9762	2
MAN2B1	Mannosidase alpha class 2B member 1	0.9762	2

Adipocytes	31.5 nTPM
Adipose tissue	33.0 nTPM
Breast	30.0 nTPM

Alveolar cells type 1	0.3 nTPM
Lung	0.3 nTPM

Alveolar cells type 2	0.2 nTPM
Lung	0.2 nTPM

Astrocytes	13.3 nTPM
Brain	13.3 nTPM

B-cells	11.8 nTPM
Skin	115.2 nTPM
Salivary gland	14.2 nTPM
Lung	8.0 nTPM
Esophagus	5.9 nTPM
Liver	4.8 nTPM
PBMC	1.5 nTPM
Bone marrow	1.4 nTPM
Thymus	0.9 nTPM
Adipose tissue	0.8 nTPM
Lymph node	0.4 nTPM
Stomach	0.4 nTPM
Spleen	0.3 nTPM
Kidney	0.0 nTPM

Ciliated cells	4.4 nTPM
Endometrium	11.5 nTPM
Fallopian tube	4.0 nTPM
Lung	2.2 nTPM
Bronchus	0.0 nTPM

Club cells	3.0 nTPM
Lung	6.4 nTPM
Prostate	2.6 nTPM
Bronchus	0.0 nTPM

Dendritic cells	19.7 nTPM
PBMC	21.6 nTPM
Adipose tissue	17.8 nTPM

Endothelial cells	25.0 nTPM
Breast	180.1 nTPM
Heart muscle	61.3 nTPM
Salivary gland	37.6 nTPM
Tongue	28.5 nTPM
Skeletal muscle	28.1 nTPM
Esophagus	18.3 nTPM
Prostate	14.7 nTPM
Liver	13.9 nTPM
Ovary	11.9 nTPM
Thymus	11.0 nTPM
Skin	9.6 nTPM
Vascular	9.5 nTPM
Placenta	7.9 nTPM
Testis	5.5 nTPM
Fallopian tube	5.0 nTPM
Lung	4.1 nTPM
Endometrium	4.0 nTPM
Pancreas	0.0 nTPM

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

Fibroblasts	7.9 nTPM
Liver	32.0 nTPM
Heart muscle	25.2 nTPM
Vascular	18.3 nTPM
Breast	13.5 nTPM
Salivary gland	9.8 nTPM
Prostate	6.6 nTPM
Skin	5.3 nTPM
Thymus	4.0 nTPM
Skeletal muscle	3.5 nTPM
Esophagus	2.1 nTPM
Stomach	1.4 nTPM
Lung	1.2 nTPM
Fallopian tube	1.2 nTPM
Placenta	1.0 nTPM
Adipose tissue	1.0 nTPM
Pancreas	0.1 nTPM

Granulocytes	13.7 nTPM
Lung	15.6 nTPM
Tongue	14.6 nTPM
Fallopian tube	11.0 nTPM

Intestinal goblet cells	0.1 nTPM
Rectum	0.2 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Lymphatic endothelial cells	115.9 nTPM
Fallopian tube	198.9 nTPM
Ovary	32.7 nTPM

Macrophages	145.8 nTPM
Skin	372.2 nTPM
Adipose tissue	362.5 nTPM
Vascular	292.0 nTPM
Breast	257.0 nTPM
Esophagus	237.6 nTPM
Skeletal muscle	171.3 nTPM
Fallopian tube	163.8 nTPM
Thymus	123.8 nTPM
Testis	123.4 nTPM
Tongue	119.6 nTPM
Spleen	98.2 nTPM
Salivary gland	96.8 nTPM
Lung	90.4 nTPM
Prostate	85.9 nTPM
Bone marrow	56.8 nTPM
Endometrium	52.9 nTPM
Kidney	38.9 nTPM
Stomach	23.1 nTPM
Pancreas	4.1 nTPM

Basal keratinocytes	41.9 nTPM
Tongue	75.7 nTPM
Skin	8.1 nTPM

Basal prostatic cells	21.8 nTPM
Prostate	21.8 nTPM

Basal squamous epithelial cells	62.0 nTPM
Esophagus	62.0 nTPM

Cytotrophoblasts	0.6 nTPM
Placenta	0.6 nTPM

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

Plasma cells	3.7 nTPM
Salivary gland	13.0 nTPM
Esophagus	10.4 nTPM
Fallopian tube	2.9 nTPM
Liver	2.5 nTPM
Thymus	0.5 nTPM
Spleen	0.2 nTPM
Bone marrow	0.0 nTPM
Stomach	0.0 nTPM

Schwann cells	15.3 nTPM
Adipose tissue	44.9 nTPM
Vascular	1.0 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	377.2 nTPM
Salivary gland	573.1 nTPM
Tongue	181.2 nTPM

Smooth muscle cells	52.6 nTPM
Salivary gland	179.9 nTPM
Vascular	117.1 nTPM
Breast	93.0 nTPM
Prostate	77.9 nTPM
Skin	61.5 nTPM
Fallopian tube	47.8 nTPM
Thymus	45.0 nTPM
Ovary	41.9 nTPM
Liver	38.6 nTPM
Esophagus	36.0 nTPM
Skeletal muscle	34.5 nTPM
Adipose tissue	30.5 nTPM
Tongue	19.5 nTPM
Endometrium	8.4 nTPM
Placenta	6.2 nTPM
Lung	3.5 nTPM

Suprabasal keratinocytes	60.6 nTPM
Tongue	114.4 nTPM
Skin	6.9 nTPM

T-cells	3.5 nTPM
Colon	14.6 nTPM
Salivary gland	10.8 nTPM
Skin	7.4 nTPM
Prostate	7.4 nTPM
Tongue	6.5 nTPM
Endometrium	5.1 nTPM
Breast	4.5 nTPM
Vascular	4.0 nTPM
Lung	3.0 nTPM
PBMC	2.8 nTPM
Esophagus	2.4 nTPM
Liver	1.8 nTPM
Skeletal muscle	1.1 nTPM
Fallopian tube	1.1 nTPM
Kidney	0.9 nTPM
Adipose tissue	0.5 nTPM
Spleen	0.2 nTPM
Thymus	0.2 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Stomach	0.0 nTPM

Undifferentiated cells	0.0 nTPM
Rectum	0.1 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Amygdala excitatory	1.8 nTPM
Basal ganglia	3.6 nTPM
Hypothalamus	3.6 nTPM
Cerebral cortex	1.8 nTPM
Amygdala	1.1 nTPM
Hippocampus	0.8 nTPM
Thalamus	0.0 nTPM

Astrocyte	22.7 nTPM
Hippocampus	43.9 nTPM
Basal ganglia	42.0 nTPM
Cerebral cortex	28.5 nTPM
Amygdala	28.1 nTPM
Thalamus	27.3 nTPM
Midbrain	24.7 nTPM
Hypothalamus	19.5 nTPM
Pons	12.3 nTPM
Medulla oblongata	10.2 nTPM
Spinal cord	8.1 nTPM
Cerebellum	5.3 nTPM

Bergmann glia	8.4 nTPM
Medulla oblongata	14.9 nTPM
Cerebellum	6.0 nTPM
Pons	4.3 nTPM

Central nervous system macrophage	225.6 nTPM
Cerebral cortex	292.5 nTPM
Amygdala	258.9 nTPM
Hippocampus	240.1 nTPM
Thalamus	234.7 nTPM
Basal ganglia	226.7 nTPM
Cerebellum	225.2 nTPM
Midbrain	224.5 nTPM
Medulla oblongata	220.3 nTPM
Pons	199.9 nTPM
Hypothalamus	196.8 nTPM
Spinal cord	162.2 nTPM

Cerebellar inhibitory	0.6 nTPM
Cerebellum	0.9 nTPM
Medulla oblongata	0.9 nTPM
Pons	0.7 nTPM
Midbrain	0.6 nTPM
Spinal cord	0.0 nTPM

Cge interneuron	0.9 nTPM
Midbrain	1.3 nTPM
Basal ganglia	1.2 nTPM
Hippocampus	0.9 nTPM
Amygdala	0.7 nTPM
Cerebral cortex	0.7 nTPM
Hypothalamus	0.7 nTPM
Thalamus	0.7 nTPM

Choroid plexus epithelial cell	1.8 nTPM
Medulla oblongata	3.4 nTPM
Hippocampus	2.8 nTPM
Basal ganglia	0.8 nTPM
Thalamus	0.0 nTPM

Committed oligodendrocyte precursor	2.1 nTPM
Basal ganglia	8.2 nTPM
Amygdala	4.5 nTPM
Midbrain	2.5 nTPM
Hippocampus	2.3 nTPM
Cerebral cortex	1.9 nTPM
Hypothalamus	1.4 nTPM
Thalamus	1.1 nTPM
Pons	0.9 nTPM
Cerebellum	0.0 nTPM
Medulla oblongata	0.0 nTPM
Spinal cord	0.0 nTPM

Deep-layer corticothalamic and 6b	6.4 nTPM
Hippocampus	14.6 nTPM
Hypothalamus	7.6 nTPM
Basal ganglia	6.1 nTPM
Midbrain	4.4 nTPM
Amygdala	2.7 nTPM
Cerebral cortex	2.6 nTPM

Deep-layer intratelencephalic	3.9 nTPM
Basal ganglia	6.4 nTPM
Cerebral cortex	5.3 nTPM
Hypothalamus	3.8 nTPM
Amygdala	2.0 nTPM
Hippocampus	2.0 nTPM

Deep-layer near-projecting	11.3 nTPM
Hypothalamus	12.8 nTPM
Basal ganglia	12.3 nTPM
Amygdala	11.8 nTPM
Cerebral cortex	10.0 nTPM
Hippocampus	9.8 nTPM

Eccentric medium spiny neuron	0.5 nTPM
Basal ganglia	0.8 nTPM
Cerebral cortex	0.8 nTPM
Amygdala	0.4 nTPM
Hippocampus	0.4 nTPM
Hypothalamus	0.4 nTPM
Thalamus	0.3 nTPM