Single cell type - GTDC1 - The Human Protein Atlas

GTDC1

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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.	GTDC1
Gene descriptionⁱ Full gene name according to HGNC.	Glycosyltransferase like domain containing 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.	13

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.	Neurons - Neuronal signaling (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 (Oligodendrocytes, Excitatory neurons, Oligodendrocyte precursor cells, Inhibitory neurons, Microglial 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.	0.62
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.	Low cell type specificity
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.	Low immune cell specificity
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 (Oligodendrocytes, Excitatory neurons, Oligodendrocyte precursor cells, Inhibitory neurons, Microglial 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: Low cell type specificity

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: Low immune cell specificity
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

GTDC1 is part of cluster 34 Neurons - Neuronal signaling with confidenceⁱ 1
518 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.
PTPRK	Protein tyrosine phosphatase receptor type K	0.8208	34
RNF144A	Ring finger protein 144A	0.8001	51
ZNF365	Zinc finger protein 365	0.7795	34
RAPGEF5	Rap guanine nucleotide exchange factor 5	0.7406	51
NECAB1	N-terminal EF-hand calcium binding protein 1	0.7390	34
SOGA3	SOGA family member 3	0.7011	34
TTLL11	Tubulin tyrosine ligase like 11	0.6902	51
KCNH1	Potassium voltage-gated channel subfamily H member 1	0.6805	34
VXN	Vexin	0.6755	34
OTUD7A	OTU deubiquitinase 7A	0.6732	51
OR2L13	Olfactory receptor family 2 subfamily L member 13	0.6684	34
NHLH1	Nescient helix-loop-helix 1	0.6551	51
NWD2	NACHT and WD repeat domain containing 2	0.6504	34
R3HDM1	R3H domain containing 1	0.6491	34
SPDYE2B	Speedy/RINGO cell cycle regulator family member E2B	0.6460	51

IMMUNE CELLS

GTDC1 is part of cluster 35 Neutrophils - Protein binding with confidenceⁱ 0.69
504 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.
RAB33B	RAB33B, member RAS oncogene family	1.0000	35
FHIP2A	FHF complex subunit HOOK interacting protein 2A	0.9762	35
SPINK8	Serine peptidase inhibitor Kazal type 8 (putative)	0.9762	35
CDC42SE1	CDC42 small effector 1	0.9762	35
SP3	Sp3 transcription factor	0.9762	4
APOL1	Apolipoprotein L1	0.9524	35
IL1R1	Interleukin 1 receptor type 1	0.9524	35
PARP16	Poly(ADP-ribose) polymerase family member 16	0.9524	35
DOCK11	Dedicator of cytokinesis 11	0.9524	4
ZNF200	Zinc finger protein 200	0.9524	4
PDZK1IP1	PDZK1 interacting protein 1	0.9524	4
DHRS13	Dehydrogenase/reductase 13	0.9524	4
RAB36	RAB36, member RAS oncogene family	0.9524	4
RSPH14	Radial spoke head 14 homolog	0.9524	4
FAM174A	Family with sequence similarity 174 member A	0.9524	4

Adipocytes	6.8 nTPM
Breast	7.7 nTPM
Adipose tissue	5.9 nTPM

Alveolar cells type 1	2.7 nTPM
Lung	2.7 nTPM

Alveolar cells type 2	3.9 nTPM
Lung	3.9 nTPM

Astrocytes	78.0 nTPM
Brain	78.0 nTPM

B-cells	9.7 nTPM
Lymph node	16.7 nTPM
Adipose tissue	14.8 nTPM
Bone marrow	13.6 nTPM
Spleen	12.7 nTPM
Stomach	11.8 nTPM
Kidney	10.4 nTPM
Salivary gland	10.3 nTPM
PBMC	9.2 nTPM
Thymus	8.2 nTPM
Esophagus	5.9 nTPM
Skin	5.1 nTPM
Liver	4.8 nTPM
Lung	2.7 nTPM

Ciliated cells	3.6 nTPM
Bronchus	5.9 nTPM
Endometrium	3.6 nTPM
Lung	2.9 nTPM
Fallopian tube	1.8 nTPM

Club cells	7.4 nTPM
Bronchus	10.3 nTPM
Lung	7.2 nTPM
Prostate	4.7 nTPM

Endothelial cells	8.0 nTPM
Heart muscle	27.8 nTPM
Liver	21.4 nTPM
Skin	11.4 nTPM
Placenta	10.2 nTPM
Tongue	8.2 nTPM
Vascular	7.9 nTPM
Lung	7.7 nTPM
Ovary	7.0 nTPM
Thymus	6.4 nTPM
Prostate	6.0 nTPM
Esophagus	5.6 nTPM
Salivary gland	5.3 nTPM
Skeletal muscle	5.2 nTPM
Endometrium	5.1 nTPM
Testis	4.3 nTPM
Fallopian tube	3.4 nTPM
Breast	1.8 nTPM
Pancreas	0.0 nTPM

Enteroendocrine cells	4.0 nTPM
Colon	6.9 nTPM
Small intestine	3.4 nTPM
Rectum	1.7 nTPM

Fibroblasts	12.6 nTPM
Heart muscle	32.2 nTPM
Liver	24.9 nTPM
Skin	19.7 nTPM
Vascular	16.3 nTPM
Esophagus	13.0 nTPM
Skeletal muscle	12.8 nTPM
Adipose tissue	11.3 nTPM
Thymus	11.2 nTPM
Breast	11.1 nTPM
Fallopian tube	10.8 nTPM
Salivary gland	10.2 nTPM
Stomach	8.6 nTPM
Lung	6.4 nTPM
Placenta	4.6 nTPM
Prostate	4.6 nTPM
Pancreas	4.0 nTPM

Granulocytes	14.5 nTPM
Tongue	19.4 nTPM
Lung	13.1 nTPM
Fallopian tube	10.8 nTPM

Intestinal goblet cells	3.4 nTPM
Colon	4.4 nTPM
Small intestine	2.9 nTPM
Rectum	2.8 nTPM

Lymphatic endothelial cells	6.6 nTPM
Ovary	10.9 nTPM
Fallopian tube	2.2 nTPM

Macrophages	12.5 nTPM
Testis	27.3 nTPM
Vascular	21.8 nTPM
Thymus	21.6 nTPM
Salivary gland	16.8 nTPM
Lung	15.1 nTPM
Adipose tissue	14.6 nTPM
Kidney	14.2 nTPM
Prostate	13.5 nTPM
Tongue	13.4 nTPM
Fallopian tube	10.9 nTPM
Esophagus	10.3 nTPM
Skeletal muscle	10.2 nTPM
Breast	10.1 nTPM
Bone marrow	8.1 nTPM
Stomach	7.7 nTPM
Pancreas	6.2 nTPM
Endometrium	6.1 nTPM
Spleen	5.0 nTPM
Skin	4.5 nTPM

Paneth cells	4.4 nTPM
Rectum	6.1 nTPM
Colon	3.6 nTPM
Small intestine	3.5 nTPM

Bipolar cells	19.8 nTPM
Eye	19.8 nTPM

Cholangiocytes	5.7 nTPM
Liver	5.7 nTPM

Collecting duct cells	7.8 nTPM
Kidney	7.8 nTPM

Cytotrophoblasts	4.1 nTPM
Placenta	4.1 nTPM

Plasma cells	6.2 nTPM
Spleen	11.1 nTPM
Thymus	8.9 nTPM
Stomach	8.4 nTPM
Liver	6.5 nTPM
Esophagus	5.2 nTPM
Fallopian tube	4.2 nTPM
Bone marrow	3.0 nTPM
Salivary gland	2.2 nTPM

Schwann cells	13.3 nTPM
Vascular	22.5 nTPM
Esophagus	12.0 nTPM
Adipose tissue	5.5 nTPM

Serous glandular cells	6.6 nTPM
Salivary gland	8.7 nTPM
Tongue	4.4 nTPM

Smooth muscle cells	14.9 nTPM
Esophagus	24.0 nTPM
Adipose tissue	22.9 nTPM
Skin	19.5 nTPM
Thymus	18.5 nTPM
Skeletal muscle	15.8 nTPM
Vascular	15.8 nTPM
Ovary	15.7 nTPM
Lung	15.3 nTPM
Tongue	14.4 nTPM
Breast	13.6 nTPM
Endometrium	13.1 nTPM
Placenta	12.4 nTPM
Prostate	10.3 nTPM
Liver	9.8 nTPM
Salivary gland	9.8 nTPM
Fallopian tube	7.5 nTPM

T-cells	18.5 nTPM
Esophagus	34.1 nTPM
Stomach	33.0 nTPM
Spleen	25.0 nTPM
Skin	23.8 nTPM
Tongue	23.2 nTPM
Adipose tissue	21.6 nTPM
Bone marrow	20.5 nTPM
Fallopian tube	20.4 nTPM
Skeletal muscle	20.0 nTPM
Breast	19.8 nTPM
Lung	19.7 nTPM
Colon	19.5 nTPM
Prostate	18.9 nTPM
Liver	16.4 nTPM
Endometrium	14.5 nTPM
Vascular	13.3 nTPM
Kidney	11.5 nTPM
PBMC	10.4 nTPM
Lymph node	8.0 nTPM
Thymus	8.0 nTPM
Salivary gland	7.3 nTPM

Undifferentiated cells	4.1 nTPM
Colon	5.0 nTPM
Rectum	4.3 nTPM
Small intestine	3.0 nTPM

Amygdala excitatory	410.3 nTPM
Hypothalamus	555.7 nTPM
Thalamus	462.8 nTPM
Amygdala	429.1 nTPM
Basal ganglia	399.2 nTPM
Cerebral cortex	318.6 nTPM
Hippocampus	296.5 nTPM

Astrocyte	160.5 nTPM
Hypothalamus	240.2 nTPM
Amygdala	231.1 nTPM
Hippocampus	184.8 nTPM
Cerebral cortex	173.4 nTPM
Spinal cord	161.4 nTPM
Basal ganglia	160.5 nTPM
Thalamus	137.4 nTPM
Medulla oblongata	126.9 nTPM
Midbrain	122.6 nTPM
Pons	116.7 nTPM
Cerebellum	110.4 nTPM

Bergmann glia	247.5 nTPM
Cerebellum	257.8 nTPM
Pons	246.0 nTPM
Medulla oblongata	238.7 nTPM

Central nervous system macrophage	255.8 nTPM
Amygdala	379.5 nTPM
Hypothalamus	306.9 nTPM
Basal ganglia	267.1 nTPM
Thalamus	263.9 nTPM
Midbrain	257.4 nTPM
Hippocampus	249.0 nTPM
Cerebellum	242.8 nTPM
Pons	228.6 nTPM
Cerebral cortex	227.3 nTPM
Spinal cord	197.5 nTPM
Medulla oblongata	194.3 nTPM

Cerebellar inhibitory	162.1 nTPM
Pons	202.7 nTPM
Medulla oblongata	157.3 nTPM
Midbrain	156.5 nTPM
Cerebellum	156.4 nTPM
Spinal cord	137.5 nTPM

Cge interneuron	227.6 nTPM
Hypothalamus	268.2 nTPM
Amygdala	259.4 nTPM
Thalamus	237.0 nTPM
Midbrain	211.9 nTPM
Basal ganglia	209.9 nTPM
Hippocampus	207.8 nTPM
Cerebral cortex	198.9 nTPM

Choroid plexus epithelial cell	119.1 nTPM
Basal ganglia	141.2 nTPM
Thalamus	137.0 nTPM
Medulla oblongata	114.9 nTPM
Hippocampus	83.2 nTPM

Committed oligodendrocyte precursor	290.8 nTPM
Amygdala	467.4 nTPM
Hypothalamus	450.0 nTPM
Thalamus	344.7 nTPM
Basal ganglia	301.1 nTPM
Cerebral cortex	264.7 nTPM
Hippocampus	254.6 nTPM
Spinal cord	253.9 nTPM
Midbrain	237.7 nTPM
Medulla oblongata	214.3 nTPM
Cerebellum	212.5 nTPM
Pons	198.3 nTPM

Deep-layer corticothalamic and 6b	373.1 nTPM
Hypothalamus	472.6 nTPM
Amygdala	435.7 nTPM
Cerebral cortex	357.2 nTPM
Midbrain	355.0 nTPM
Basal ganglia	343.5 nTPM
Hippocampus	274.3 nTPM

Deep-layer intratelencephalic	412.4 nTPM
Hypothalamus	495.9 nTPM
Amygdala	486.0 nTPM
Basal ganglia	388.9 nTPM
Cerebral cortex	366.2 nTPM
Hippocampus	324.9 nTPM

Deep-layer near-projecting	285.7 nTPM
Hypothalamus	397.7 nTPM
Amygdala	339.2 nTPM
Basal ganglia	277.9 nTPM
Cerebral cortex	229.4 nTPM
Hippocampus	184.1 nTPM

Eccentric medium spiny neuron	116.1 nTPM
Amygdala	138.5 nTPM
Hypothalamus	123.4 nTPM
Cerebral cortex	114.1 nTPM
Hippocampus	111.5 nTPM
Thalamus	108.1 nTPM
Basal ganglia	101.1 nTPM

Endothelial cell	137.7 nTPM
Hypothalamus	202.2 nTPM
Spinal cord	158.8 nTPM
Cerebellum	157.2 nTPM
Hippocampus	154.2 nTPM
Cerebral cortex	142.6 nTPM
Basal ganglia	137.0 nTPM
Amygdala	128.5 nTPM
Thalamus	122.0 nTPM
Midbrain	121.9 nTPM
Pons	109.2 nTPM
Medulla oblongata	81.0 nTPM

Ependymal cell	111.4 nTPM
Amygdala	149.6 nTPM
Thalamus	129.6 nTPM
Hypothalamus	124.0 nTPM
Basal ganglia	121.3 nTPM
Midbrain	112.4 nTPM
Hippocampus	111.0 nTPM
Spinal cord	93.9 nTPM
Pons	86.8 nTPM
Medulla oblongata	74.0 nTPM