Single cell type - TTC7A - The Human Protein Atlas

TTC7A

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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.	TTC7A
Gene descriptionⁱ Full gene name according to HGNC.	Tetratricopeptide repeat domain 7A
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Disease related genes Human disease related genes
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.	3

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.	Late spermatids - 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 enhanced (Late spermatids, Oligodendrocytes, 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.	0.55
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 (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.	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 (Late spermatids, Oligodendrocytes, 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: Cell type enhanced (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: 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

TTC7A is part of cluster 36 Late spermatids - Unknown function with confidenceⁱ 1
427 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.
MFF	Mitochondrial fission factor	0.5819	36
PARP6	Poly(ADP-ribose) polymerase family member 6	0.5640	36
CCDC7	Coiled-coil domain containing 7	0.5330	36
FAR1	Fatty acyl-CoA reductase 1	0.5278	51
DHX57	DExH-box helicase 57	0.5221	36
C3orf20	Chromosome 3 open reading frame 20	0.5185	36
ZFAND3	Zinc finger AN1-type containing 3	0.5097	36
ALMS1	ALMS1 centrosome and basal body associated protein	0.5048	42
ADGRF3	Adhesion G protein-coupled receptor F3	0.5037	11
SRPK2	SRSF protein kinase 2	0.4959	36
SLC25A46	Solute carrier family 25 member 46	0.4946	36
LRTOMT	Leucine rich transmembrane and O-methyltransferase domain containing	0.4893	36
MORN2	MORN repeat containing 2	0.4835	36
NUP58	Nucleoporin 58	0.4821	29
MROH2B	Maestro heat like repeat family member 2B	0.4804	36

IMMUNE CELLS

TTC7A is part of cluster 23 B-cells - Immunoglobulins with confidenceⁱ 0.5
208 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.
C20orf96	Chromosome 20 open reading frame 96	1.0000	23
TBC1D9	TBC1 domain family member 9	0.9762	23
ADK	Adenosine kinase	0.9762	23
ARHGAP17	Rho GTPase activating protein 17	0.9524	23
TOR3A	Torsin family 3 member A	0.9524	12
CHEK2	Checkpoint kinase 2	0.9524	13
SHCBP1	SHC binding and spindle associated 1	0.9524	23
C11orf24	Chromosome 11 open reading frame 24	0.9524	23
DRAM2	DNA damage regulated autophagy modulator 2	0.9524	23
SETBP1	SET binding protein 1	0.9524	23
RFX5	Regulatory factor X5	0.9524	23
CD180	CD180 molecule	0.9524	23
CCDC6	Coiled-coil domain containing 6	0.9524	23
DNAJC10	DnaJ heat shock protein family (Hsp40) member C10	0.9524	23
FARP2	FERM, ARH/RhoGEF and pleckstrin domain protein 2	0.9286	23

Adipocytes	2.2 nTPM
Adipose tissue	2.4 nTPM
Breast	2.0 nTPM

Alveolar cells type 1	33.5 nTPM
Lung	33.5 nTPM

Alveolar cells type 2	13.8 nTPM
Lung	13.8 nTPM

Astrocytes	30.3 nTPM
Brain	30.3 nTPM

B-cells	24.1 nTPM
Esophagus	35.4 nTPM
Stomach	31.2 nTPM
Adipose tissue	30.9 nTPM
Bone marrow	29.9 nTPM
Thymus	29.5 nTPM
Liver	24.2 nTPM
Lymph node	22.9 nTPM
Lung	22.8 nTPM
Spleen	22.3 nTPM
Salivary gland	21.7 nTPM
Skin	18.6 nTPM
PBMC	18.5 nTPM
Kidney	5.2 nTPM

Ciliated cells	18.9 nTPM
Endometrium	27.6 nTPM
Lung	22.7 nTPM
Bronchus	16.2 nTPM
Fallopian tube	9.0 nTPM

Club cells	8.5 nTPM
Lung	10.7 nTPM
Prostate	8.1 nTPM
Bronchus	6.8 nTPM

Dendritic cells	23.9 nTPM
PBMC	25.2 nTPM
Adipose tissue	22.7 nTPM

Endothelial cells	6.0 nTPM
Salivary gland	11.1 nTPM
Tongue	9.3 nTPM
Thymus	8.8 nTPM
Testis	8.2 nTPM
Esophagus	8.2 nTPM
Vascular	8.1 nTPM
Pancreas	7.8 nTPM
Lung	6.1 nTPM
Skin	5.2 nTPM
Prostate	5.1 nTPM
Liver	5.0 nTPM
Skeletal muscle	4.9 nTPM
Placenta	4.5 nTPM
Fallopian tube	4.3 nTPM
Heart muscle	4.0 nTPM
Endometrium	3.9 nTPM
Breast	1.8 nTPM
Ovary	1.7 nTPM

Enteroendocrine cells	7.0 nTPM
Rectum	8.4 nTPM
Small intestine	6.9 nTPM
Colon	5.7 nTPM

Fibroblasts	8.2 nTPM
Adipose tissue	13.9 nTPM
Skeletal muscle	12.4 nTPM
Salivary gland	12.0 nTPM
Thymus	11.9 nTPM
Skin	10.5 nTPM
Stomach	10.1 nTPM
Breast	9.0 nTPM
Vascular	8.9 nTPM
Lung	8.2 nTPM
Heart muscle	7.5 nTPM
Placenta	7.1 nTPM
Esophagus	6.6 nTPM
Pancreas	5.7 nTPM
Fallopian tube	3.9 nTPM
Prostate	3.3 nTPM
Liver	0.0 nTPM

Granulocytes	5.1 nTPM
Lung	6.6 nTPM
Tongue	4.9 nTPM
Fallopian tube	3.8 nTPM

Intestinal goblet cells	12.7 nTPM
Small intestine	20.1 nTPM
Colon	10.1 nTPM
Rectum	7.8 nTPM

Lymphatic endothelial cells	2.2 nTPM
Fallopian tube	4.3 nTPM
Ovary	0.0 nTPM

Macrophages	26.7 nTPM
Adipose tissue	57.3 nTPM
Skeletal muscle	44.7 nTPM
Lung	38.6 nTPM
Fallopian tube	36.8 nTPM
Stomach	36.0 nTPM
Thymus	29.9 nTPM
Tongue	24.6 nTPM
Esophagus	24.4 nTPM
Endometrium	24.0 nTPM
Skin	23.4 nTPM
Spleen	23.1 nTPM
Vascular	21.2 nTPM
Pancreas	18.5 nTPM
Salivary gland	18.4 nTPM
Testis	18.0 nTPM
Kidney	17.7 nTPM
Bone marrow	17.2 nTPM
Prostate	16.7 nTPM
Breast	16.6 nTPM

Basal prostatic cells	12.5 nTPM
Prostate	12.5 nTPM

Basal respiratory cells	4.8 nTPM
Bronchus	4.8 nTPM

Basal squamous epithelial cells	8.0 nTPM
Esophagus	8.0 nTPM

Bipolar cells	1.0 nTPM
Eye	1.0 nTPM

Paneth cells	6.1 nTPM
Rectum	7.8 nTPM
Small intestine	6.9 nTPM
Colon	3.6 nTPM

Plasma cells	21.3 nTPM
Thymus	31.2 nTPM
Bone marrow	25.7 nTPM
Spleen	24.8 nTPM
Stomach	23.0 nTPM
Esophagus	20.8 nTPM
Liver	19.5 nTPM
Salivary gland	13.9 nTPM
Fallopian tube	11.3 nTPM

Schwann cells	10.5 nTPM
Adipose tissue	23.0 nTPM
Vascular	8.4 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	9.1 nTPM
Salivary gland	13.8 nTPM
Tongue	4.4 nTPM

Smooth muscle cells	6.0 nTPM
Thymus	11.2 nTPM
Tongue	10.2 nTPM
Esophagus	8.4 nTPM
Skin	7.9 nTPM
Salivary gland	7.6 nTPM
Prostate	7.3 nTPM
Vascular	6.7 nTPM
Endometrium	6.6 nTPM
Placenta	5.6 nTPM
Breast	5.4 nTPM
Adipose tissue	4.9 nTPM
Skeletal muscle	3.8 nTPM
Fallopian tube	3.6 nTPM
Ovary	3.1 nTPM
Liver	2.1 nTPM
Lung	1.2 nTPM

Suprabasal keratinocytes	11.5 nTPM
Tongue	16.8 nTPM
Skin	6.1 nTPM

T-cells	12.5 nTPM
Esophagus	26.8 nTPM
Stomach	20.7 nTPM
Adipose tissue	16.3 nTPM
Fallopian tube	16.1 nTPM
Endometrium	14.8 nTPM
Spleen	14.4 nTPM
Vascular	13.7 nTPM
Tongue	13.0 nTPM
Skeletal muscle	12.9 nTPM
Lymph node	12.5 nTPM
Salivary gland	11.5 nTPM
Thymus	11.3 nTPM
Breast	11.3 nTPM
Skin	10.9 nTPM
Lung	10.8 nTPM
Prostate	10.6 nTPM
Bone marrow	10.0 nTPM
Kidney	8.9 nTPM
PBMC	6.3 nTPM
Liver	6.1 nTPM
Colon	3.9 nTPM

Undifferentiated cells	5.7 nTPM
Small intestine	9.1 nTPM
Colon	4.1 nTPM
Rectum	3.9 nTPM

Amygdala excitatory	44.2 nTPM
Thalamus	51.3 nTPM
Hippocampus	46.0 nTPM
Cerebral cortex	45.3 nTPM
Hypothalamus	44.6 nTPM
Amygdala	44.5 nTPM
Basal ganglia	33.5 nTPM

Astrocyte	104.5 nTPM
Cerebellum	146.1 nTPM
Spinal cord	118.2 nTPM
Pons	112.1 nTPM
Medulla oblongata	106.9 nTPM
Thalamus	104.1 nTPM
Midbrain	102.5 nTPM
Amygdala	101.3 nTPM
Hypothalamus	98.4 nTPM
Hippocampus	93.8 nTPM
Basal ganglia	86.1 nTPM
Cerebral cortex	80.1 nTPM

Bergmann glia	37.4 nTPM
Cerebellum	49.9 nTPM
Medulla oblongata	36.2 nTPM
Pons	25.9 nTPM

Central nervous system macrophage	409.5 nTPM
Hypothalamus	481.1 nTPM
Spinal cord	475.1 nTPM
Cerebellum	474.2 nTPM
Pons	450.3 nTPM
Amygdala	435.8 nTPM
Midbrain	418.9 nTPM
Hippocampus	408.5 nTPM
Medulla oblongata	389.5 nTPM
Thalamus	380.2 nTPM
Cerebral cortex	323.4 nTPM
Basal ganglia	267.2 nTPM

Cerebellar inhibitory	22.3 nTPM
Cerebellum	25.9 nTPM
Pons	24.3 nTPM
Medulla oblongata	23.9 nTPM
Spinal cord	22.0 nTPM
Midbrain	15.6 nTPM

Cge interneuron	34.8 nTPM
Hypothalamus	39.5 nTPM
Cerebral cortex	38.8 nTPM
Midbrain	37.3 nTPM
Basal ganglia	35.3 nTPM
Hippocampus	34.1 nTPM
Amygdala	33.2 nTPM
Thalamus	25.4 nTPM

Choroid plexus epithelial cell	137.7 nTPM
Basal ganglia	238.3 nTPM
Medulla oblongata	144.3 nTPM
Thalamus	90.4 nTPM
Hippocampus	77.7 nTPM

Committed oligodendrocyte precursor	81.6 nTPM
Thalamus	142.1 nTPM
Hypothalamus	118.8 nTPM
Amygdala	104.9 nTPM
Basal ganglia	86.0 nTPM
Cerebral cortex	71.6 nTPM
Midbrain	70.6 nTPM
Spinal cord	69.9 nTPM
Medulla oblongata	63.3 nTPM
Pons	61.1 nTPM
Hippocampus	58.7 nTPM
Cerebellum	50.7 nTPM

Deep-layer corticothalamic and 6b	62.0 nTPM
Hypothalamus	70.6 nTPM
Cerebral cortex	64.8 nTPM
Hippocampus	64.2 nTPM
Basal ganglia	60.1 nTPM
Amygdala	57.0 nTPM
Midbrain	55.5 nTPM

Deep-layer intratelencephalic	41.7 nTPM
Hypothalamus	50.3 nTPM
Basal ganglia	40.2 nTPM
Amygdala	39.8 nTPM
Hippocampus	39.6 nTPM
Cerebral cortex	38.5 nTPM

Deep-layer near-projecting	47.2 nTPM
Hippocampus	57.2 nTPM
Cerebral cortex	47.3 nTPM
Hypothalamus	46.2 nTPM
Basal ganglia	43.6 nTPM
Amygdala	41.4 nTPM

Eccentric medium spiny neuron	58.4 nTPM
Hypothalamus	67.2 nTPM
Cerebral cortex	61.6 nTPM
Amygdala	60.5 nTPM
Basal ganglia	55.5 nTPM
Thalamus	55.3 nTPM
Hippocampus	50.6 nTPM