Single cell type - TRAPPC1 - The Human Protein Atlas

TRAPPC1

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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.	TRAPPC1
Gene descriptionⁱ Full gene name according to HGNC.	Trafficking protein particle complex subunit 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.	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.	Proximal tubular cells - Transmembrane transport (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 (Proximal tubular 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.	0.28
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 (Proximal tubular 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

TRAPPC1 is part of cluster 38 Proximal tubular cells - Transmembrane transport with confidenceⁱ 1
131 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.
VAMP7	Vesicle associated membrane protein 7	0.5556	57
BET1	Bet1 golgi vesicular membrane trafficking protein	0.5416	50
SPX	Spexin hormone	0.5407	38
CYREN	Cell cycle regulator of NHEJ	0.5329	39
ENSG00000276256		0.5261	38
SMCO3	Single-pass membrane protein with coiled-coil domains 3	0.5201	38
FCAMR	Fc alpha and mu receptor	0.5105	38
SLC22A2	Solute carrier family 22 member 2	0.5033	38
SNX17	Sorting nexin 17	0.5008	24
FAAP20	FA core complex associated protein 20	0.4997	39
CLEC18C	C-type lectin domain family 18 member C	0.4940	38
KL	Klotho	0.4909	38
CLTRN	Collectrin, amino acid transport regulator	0.4870	38
SLC17A3	Solute carrier family 17 member 3	0.4868	38
NUTF2	Nuclear transport factor 2	0.4865	15

IMMUNE CELLS

TRAPPC1 is part of cluster 36 Eosinophils - Protein ubiquitination with confidenceⁱ 0.87
179 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.
GPATCH3	G-patch domain containing 3	1.0000	36
UBE2J2	Ubiquitin conjugating enzyme E2 J2	0.9762	36
HP	Haptoglobin	0.9762	36
NDUFA13	NADH:ubiquinone oxidoreductase subunit A13	0.9762	36
TSSC4	Tumor suppressing subtransferable candidate 4	0.9762	36
UQCR10	Ubiquinol-cytochrome c reductase, complex III subunit X	0.9762	22
AP2A2	Adaptor related protein complex 2 subunit alpha 2	0.9762	36
AURKAIP1	Aurora kinase A interacting protein 1	0.9762	36
ZNF524	Zinc finger protein 524	0.9762	36
SMIM12	Small integral membrane protein 12	0.9762	36
POLR2J	RNA polymerase II subunit J	0.9762	36
TRIM23	Tripartite motif containing 23	0.9762	36
SUFU	SUFU negative regulator of hedgehog signaling	0.9762	36
FBXL15	F-box and leucine rich repeat protein 15	0.9762	36
PSMA2	Proteasome 20S subunit alpha 2	0.9762	36

Adipocytes	93.4 nTPM
Breast	110.5 nTPM
Adipose tissue	76.3 nTPM

Alveolar cells type 1	193.3 nTPM
Lung	193.3 nTPM

Alveolar cells type 2	198.7 nTPM
Lung	198.7 nTPM

Astrocytes	10.8 nTPM
Brain	10.8 nTPM

B-cells	145.6 nTPM
Kidney	254.8 nTPM
PBMC	194.0 nTPM
Lung	170.4 nTPM
Skin	166.0 nTPM
Bone marrow	153.3 nTPM
Stomach	146.8 nTPM
Spleen	146.7 nTPM
Thymus	134.4 nTPM
Liver	130.4 nTPM
Salivary gland	126.3 nTPM
Adipose tissue	92.2 nTPM
Lymph node	89.3 nTPM
Esophagus	88.5 nTPM

Ciliated cells	95.6 nTPM
Bronchus	131.4 nTPM
Lung	102.0 nTPM
Fallopian tube	87.1 nTPM
Endometrium	61.8 nTPM

Club cells	131.7 nTPM
Bronchus	190.2 nTPM
Prostate	108.6 nTPM
Lung	96.4 nTPM

Dendritic cells	173.5 nTPM
PBMC	237.4 nTPM
Adipose tissue	109.5 nTPM

Endothelial cells	99.4 nTPM
Placenta	317.9 nTPM
Pancreas	152.5 nTPM
Breast	134.5 nTPM
Ovary	124.5 nTPM
Tongue	110.3 nTPM
Testis	108.4 nTPM
Lung	105.3 nTPM
Skin	95.4 nTPM
Thymus	84.9 nTPM
Liver	79.4 nTPM
Fallopian tube	77.5 nTPM
Endometrium	72.7 nTPM
Vascular	71.6 nTPM
Esophagus	70.8 nTPM
Skeletal muscle	65.3 nTPM
Prostate	60.1 nTPM
Salivary gland	53.7 nTPM
Heart muscle	3.8 nTPM

Enteroendocrine cells	117.9 nTPM
Colon	126.3 nTPM
Rectum	114.1 nTPM
Small intestine	113.3 nTPM

Fibroblasts	89.6 nTPM
Pancreas	233.3 nTPM
Placenta	231.9 nTPM
Liver	129.3 nTPM
Lung	93.7 nTPM
Adipose tissue	82.0 nTPM
Stomach	79.3 nTPM
Breast	77.1 nTPM
Thymus	72.0 nTPM
Vascular	70.4 nTPM
Fallopian tube	66.7 nTPM
Salivary gland	66.2 nTPM
Esophagus	64.0 nTPM
Skin	63.5 nTPM
Prostate	60.1 nTPM
Skeletal muscle	42.5 nTPM
Heart muscle	1.2 nTPM

Granulocytes	127.2 nTPM
Lung	188.1 nTPM
Fallopian tube	106.1 nTPM
Tongue	87.3 nTPM

Intestinal goblet cells	116.8 nTPM
Colon	125.0 nTPM
Rectum	116.8 nTPM
Small intestine	108.6 nTPM

Lymphatic endothelial cells	150.9 nTPM
Ovary	190.9 nTPM
Fallopian tube	110.9 nTPM

Macrophages	154.9 nTPM
Kidney	422.2 nTPM
Pancreas	217.9 nTPM
Testis	206.4 nTPM
Stomach	200.6 nTPM
Spleen	191.5 nTPM
Lung	176.4 nTPM
Bone marrow	176.3 nTPM
Thymus	146.4 nTPM
Fallopian tube	140.7 nTPM
Prostate	120.6 nTPM
Breast	117.8 nTPM
Skeletal muscle	111.7 nTPM
Endometrium	111.3 nTPM
Adipose tissue	110.6 nTPM
Tongue	110.4 nTPM
Esophagus	107.9 nTPM
Vascular	101.0 nTPM
Skin	93.6 nTPM
Salivary gland	79.2 nTPM

Basal keratinocytes	90.2 nTPM
Tongue	136.6 nTPM
Skin	43.8 nTPM

Basal prostatic cells	76.0 nTPM
Prostate	76.0 nTPM

Basal respiratory cells	244.3 nTPM
Bronchus	244.3 nTPM

Basal squamous epithelial cells	83.1 nTPM
Esophagus	83.1 nTPM

Paneth cells	130.2 nTPM
Small intestine	148.5 nTPM
Rectum	133.6 nTPM
Colon	108.6 nTPM

Plasma cells	136.6 nTPM
Liver	215.3 nTPM
Spleen	207.8 nTPM
Thymus	158.7 nTPM
Bone marrow	143.5 nTPM
Stomach	125.6 nTPM
Fallopian tube	91.7 nTPM
Salivary gland	77.4 nTPM
Esophagus	72.8 nTPM

Schwann cells	103.8 nTPM
Adipose tissue	181.5 nTPM
Vascular	70.0 nTPM
Esophagus	59.9 nTPM

Serous glandular cells	61.2 nTPM
Salivary gland	73.8 nTPM
Tongue	48.6 nTPM

Smooth muscle cells	105.7 nTPM
Placenta	341.6 nTPM
Liver	148.2 nTPM
Ovary	136.9 nTPM
Fallopian tube	124.8 nTPM
Prostate	105.2 nTPM
Thymus	97.3 nTPM
Vascular	91.1 nTPM
Lung	90.5 nTPM
Breast	87.8 nTPM
Esophagus	80.5 nTPM
Salivary gland	70.2 nTPM
Adipose tissue	69.7 nTPM
Tongue	66.2 nTPM
Endometrium	62.9 nTPM
Skin	62.8 nTPM
Skeletal muscle	56.0 nTPM

Suprabasal keratinocytes	146.3 nTPM
Tongue	225.7 nTPM
Skin	66.9 nTPM

T-cells	157.9 nTPM
Kidney	361.8 nTPM
Liver	249.6 nTPM
Stomach	220.2 nTPM
PBMC	208.1 nTPM
Bone marrow	200.5 nTPM
Lung	193.3 nTPM
Spleen	188.8 nTPM
Colon	174.5 nTPM
Skin	173.1 nTPM
Fallopian tube	154.9 nTPM
Esophagus	133.8 nTPM
Thymus	130.0 nTPM
Breast	126.4 nTPM
Salivary gland	115.2 nTPM
Skeletal muscle	111.5 nTPM
Tongue	109.7 nTPM
Adipose tissue	103.8 nTPM
Prostate	101.7 nTPM
Lymph node	93.6 nTPM
Vascular	90.0 nTPM
Endometrium	74.1 nTPM

Undifferentiated cells	139.6 nTPM
Colon	143.4 nTPM
Small intestine	140.0 nTPM
Rectum	135.4 nTPM

Amygdala excitatory	3.8 nTPM
Thalamus	5.0 nTPM
Cerebral cortex	4.7 nTPM
Basal ganglia	4.5 nTPM
Hippocampus	4.0 nTPM
Amygdala	3.3 nTPM
Hypothalamus	1.1 nTPM

Astrocyte	6.3 nTPM
Hippocampus	7.9 nTPM
Cerebellum	7.5 nTPM
Medulla oblongata	7.5 nTPM
Pons	7.5 nTPM
Thalamus	7.2 nTPM
Spinal cord	6.8 nTPM
Basal ganglia	6.7 nTPM
Cerebral cortex	6.6 nTPM
Midbrain	5.4 nTPM
Hypothalamus	3.2 nTPM
Amygdala	2.7 nTPM

Bergmann glia	21.0 nTPM
Medulla oblongata	27.7 nTPM
Pons	24.5 nTPM
Cerebellum	10.8 nTPM

Central nervous system macrophage	9.0 nTPM
Spinal cord	16.5 nTPM
Pons	12.4 nTPM
Medulla oblongata	9.8 nTPM
Cerebral cortex	9.2 nTPM
Midbrain	8.8 nTPM
Basal ganglia	8.3 nTPM
Cerebellum	8.0 nTPM
Hippocampus	7.9 nTPM
Thalamus	7.8 nTPM
Hypothalamus	6.1 nTPM
Amygdala	4.0 nTPM

Cerebellar inhibitory	12.0 nTPM
Pons	17.7 nTPM
Midbrain	12.1 nTPM
Medulla oblongata	11.8 nTPM
Cerebellum	10.2 nTPM
Spinal cord	8.2 nTPM

Cge interneuron	9.5 nTPM
Thalamus	17.3 nTPM
Midbrain	12.7 nTPM
Hippocampus	10.8 nTPM
Cerebral cortex	8.6 nTPM
Basal ganglia	8.1 nTPM
Amygdala	6.8 nTPM
Hypothalamus	2.6 nTPM

Choroid plexus epithelial cell	11.3 nTPM
Hippocampus	22.2 nTPM
Thalamus	11.0 nTPM
Medulla oblongata	9.3 nTPM
Basal ganglia	2.7 nTPM

Committed oligodendrocyte precursor	9.5 nTPM
Pons	18.6 nTPM
Spinal cord	18.4 nTPM
Medulla oblongata	12.9 nTPM
Basal ganglia	10.4 nTPM
Midbrain	9.2 nTPM
Thalamus	8.6 nTPM
Hippocampus	8.3 nTPM
Cerebellum	6.3 nTPM
Cerebral cortex	5.7 nTPM
Hypothalamus	3.4 nTPM
Amygdala	2.8 nTPM

Deep-layer corticothalamic and 6b	7.7 nTPM
Midbrain	12.2 nTPM
Hippocampus	9.9 nTPM
Amygdala	7.7 nTPM
Basal ganglia	7.7 nTPM
Cerebral cortex	7.6 nTPM
Hypothalamus	1.0 nTPM

Deep-layer intratelencephalic	6.8 nTPM
Cerebral cortex	10.1 nTPM
Basal ganglia	8.7 nTPM
Hippocampus	7.9 nTPM
Amygdala	5.8 nTPM
Hypothalamus	1.7 nTPM

Deep-layer near-projecting	10.4 nTPM
Hippocampus	24.1 nTPM
Cerebral cortex	11.2 nTPM
Basal ganglia	10.1 nTPM
Amygdala	6.1 nTPM
Hypothalamus	0.6 nTPM

Eccentric medium spiny neuron	5.7 nTPM
Thalamus	6.7 nTPM
Basal ganglia	6.3 nTPM
Cerebral cortex	5.8 nTPM
Hypothalamus	5.2 nTPM
Amygdala	5.0 nTPM
Hippocampus	5.0 nTPM