Single cell type - THUMPD2 - The Human Protein Atlas

THUMPD2

Search result

Field

Term

Cluster

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.	THUMPD2
Gene descriptionⁱ Full gene name according to HGNC.	THUMP domain containing 2
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.	1

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.	Ovarian stromal cells - Transcription (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.	Low cell type specificity
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.	Not detected in immune cells
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: Low cell type specificity

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: Not detected in immune cells
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

THUMPD2 is part of cluster 6 Ovarian stromal cells - Transcription with confidenceⁱ 1
188 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.
ZNF594	Zinc finger protein 594	0.5480	55
PWWP3B	PWWP domain containing 3B	0.5058	6
CSDC2	Cold shock domain containing C2	0.4985	6
ZSCAN26	Zinc finger and SCAN domain containing 26	0.4877	6
LRRC17	Leucine rich repeat containing 17	0.4869	6
ZNF234	Zinc finger protein 234	0.4865	55
WIPF3	WAS/WASL interacting protein family member 3	0.4829	6
ZRANB2	Zinc finger RANBP2-type containing 2	0.4798	55
CAPRIN2	Caprin family member 2	0.4796	67
HTR1A	5-hydroxytryptamine receptor 1A	0.4709	6
RRAGB	Ras related GTP binding B	0.4692	55
GREB1	Growth regulating estrogen receptor binding 1	0.4686	6
ASIP	Agouti signaling protein	0.4644	6
ZNF302	Zinc finger protein 302	0.4610	68
SMIM8	Small integral membrane protein 8	0.4597	68

IMMUNE CELLS

THUMPD2 is part of cluster 30 Non-specific - DNA binding with confidenceⁱ 1
263 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.
ADNP2	ADNP homeobox 2	1.0000	30
UBFD1	Ubiquitin family domain containing 1	0.9762	30
ENSG00000268750	Novel protein	0.9762	30
DBNDD2	Dysbindin domain containing 2	0.9762	30
C7orf31	Chromosome 7 open reading frame 31	0.9762	30
GAREM1	GRB2 associated regulator of MAPK1 subtype 1	0.9762	30
MFSD9	Major facilitator superfamily domain containing 9	0.9762	30
NUP210	Nucleoporin 210	0.9762	30
RECQL5	RecQ like helicase 5	0.9762	30
FUBP3	Far upstream element binding protein 3	0.9762	30
LIG3	DNA ligase 3	0.9762	30
MCAT	Malonyl-CoA-acyl carrier protein transacylase	0.9762	30
CEP68	Centrosomal protein 68	0.9762	30
ST7L	Suppression of tumorigenicity 7 like	0.9762	30
FZD3	Frizzled class receptor 3	0.9524	30

Adipocytes	17.0 nTPM
Breast	18.9 nTPM
Adipose tissue	15.2 nTPM

Alveolar cells type 1	16.3 nTPM
Lung	16.3 nTPM

Alveolar cells type 2	15.4 nTPM
Lung	15.4 nTPM

Astrocytes	25.4 nTPM
Brain	25.4 nTPM

B-cells	18.9 nTPM
Lung	33.5 nTPM
Stomach	31.2 nTPM
Bone marrow	25.0 nTPM
Thymus	23.5 nTPM
Adipose tissue	22.2 nTPM
PBMC	20.0 nTPM
Salivary gland	19.4 nTPM
Spleen	17.3 nTPM
Lymph node	14.6 nTPM
Skin	11.9 nTPM
Esophagus	11.8 nTPM
Liver	9.7 nTPM
Kidney	5.2 nTPM

Ciliated cells	7.8 nTPM
Fallopian tube	10.7 nTPM
Lung	8.1 nTPM
Bronchus	6.9 nTPM
Endometrium	5.7 nTPM

Club cells	13.8 nTPM
Prostate	15.1 nTPM
Lung	13.4 nTPM
Bronchus	12.9 nTPM

Dendritic cells	40.2 nTPM
PBMC	43.2 nTPM
Adipose tissue	37.3 nTPM

Endothelial cells	15.1 nTPM
Heart muscle	43.6 nTPM
Ovary	25.7 nTPM
Breast	22.0 nTPM
Fallopian tube	20.7 nTPM
Testis	20.5 nTPM
Skeletal muscle	15.2 nTPM
Vascular	14.7 nTPM
Liver	13.9 nTPM
Thymus	11.7 nTPM
Lung	11.6 nTPM
Endometrium	10.8 nTPM
Pancreas	10.3 nTPM
Skin	10.2 nTPM
Prostate	10.1 nTPM
Esophagus	9.5 nTPM
Tongue	8.6 nTPM
Salivary gland	7.9 nTPM
Placenta	5.7 nTPM

Enteroendocrine cells	12.0 nTPM
Rectum	18.4 nTPM
Colon	10.8 nTPM
Small intestine	6.9 nTPM

Fibroblasts	18.9 nTPM
Heart muscle	58.5 nTPM
Breast	25.1 nTPM
Prostate	19.8 nTPM
Adipose tissue	19.7 nTPM
Skeletal muscle	19.1 nTPM
Lung	19.0 nTPM
Fallopian tube	18.1 nTPM
Placenta	16.5 nTPM
Vascular	15.6 nTPM
Liver	14.2 nTPM
Esophagus	14.1 nTPM
Thymus	13.9 nTPM
Pancreas	13.7 nTPM
Stomach	13.0 nTPM
Salivary gland	12.3 nTPM
Skin	10.1 nTPM

Granulocytes	10.5 nTPM
Fallopian tube	14.2 nTPM
Lung	12.6 nTPM
Tongue	4.9 nTPM

Intestinal goblet cells	11.3 nTPM
Colon	13.5 nTPM
Rectum	11.6 nTPM
Small intestine	8.8 nTPM

Lymphatic endothelial cells	15.5 nTPM
Ovary	16.4 nTPM
Fallopian tube	14.6 nTPM

Macrophages	10.4 nTPM
Testis	18.0 nTPM
Vascular	14.5 nTPM
Prostate	13.7 nTPM
Thymus	13.6 nTPM
Breast	13.6 nTPM
Bone marrow	13.2 nTPM
Adipose tissue	11.6 nTPM
Esophagus	11.6 nTPM
Salivary gland	11.0 nTPM
Fallopian tube	10.2 nTPM
Lung	10.0 nTPM
Pancreas	8.2 nTPM
Tongue	8.2 nTPM
Kidney	8.0 nTPM
Endometrium	8.0 nTPM
Skeletal muscle	7.9 nTPM
Skin	7.8 nTPM
Stomach	5.1 nTPM
Spleen	3.0 nTPM

Basal squamous epithelial cells	17.1 nTPM
Esophagus	17.1 nTPM

Cholangiocytes	3.8 nTPM
Liver	3.8 nTPM

Distal enterocytes	4.8 nTPM
Rectum	5.3 nTPM
Colon	4.2 nTPM

Distal tubular cells	24.6 nTPM
Kidney	24.6 nTPM

Paneth cells	14.4 nTPM
Small intestine	24.2 nTPM
Rectum	15.3 nTPM
Colon	3.6 nTPM

Plasma cells	11.2 nTPM
Bone marrow	15.1 nTPM
Fallopian tube	14.2 nTPM
Liver	13.5 nTPM
Thymus	13.3 nTPM
Stomach	11.7 nTPM
Spleen	11.3 nTPM
Salivary gland	10.7 nTPM
Esophagus	0.0 nTPM

Schwann cells	13.6 nTPM
Vascular	20.4 nTPM
Esophagus	12.0 nTPM
Adipose tissue	8.6 nTPM

Serous glandular cells	10.8 nTPM
Salivary gland	12.7 nTPM
Tongue	8.8 nTPM

Smooth muscle cells	14.2 nTPM
Ovary	26.8 nTPM
Vascular	26.7 nTPM
Esophagus	24.0 nTPM
Breast	16.8 nTPM
Salivary gland	15.3 nTPM
Adipose tissue	14.0 nTPM
Skeletal muscle	13.7 nTPM
Fallopian tube	13.2 nTPM
Thymus	12.0 nTPM
Prostate	10.9 nTPM
Endometrium	10.5 nTPM
Tongue	10.2 nTPM
Liver	9.8 nTPM
Placenta	9.6 nTPM
Skin	8.2 nTPM
Lung	5.9 nTPM

Suprabasal keratinocytes	15.3 nTPM
Tongue	16.2 nTPM
Skin	14.4 nTPM

T-cells	13.5 nTPM
Prostate	22.0 nTPM
Vascular	18.9 nTPM
Stomach	17.4 nTPM
Bone marrow	16.4 nTPM
Kidney	16.0 nTPM
Esophagus	14.6 nTPM
Thymus	14.6 nTPM
Liver	14.2 nTPM
Lung	14.2 nTPM
PBMC	13.7 nTPM
Tongue	13.3 nTPM
Salivary gland	12.8 nTPM
Colon	12.7 nTPM
Spleen	12.0 nTPM
Fallopian tube	11.8 nTPM
Skeletal muscle	11.7 nTPM
Endometrium	11.6 nTPM
Lymph node	11.2 nTPM
Adipose tissue	9.9 nTPM
Breast	9.5 nTPM
Skin	6.0 nTPM

Undifferentiated cells	15.9 nTPM
Small intestine	17.8 nTPM
Colon	16.3 nTPM
Rectum	13.5 nTPM

Amygdala excitatory	51.0 nTPM
Amygdala	54.9 nTPM
Hippocampus	53.2 nTPM
Hypothalamus	51.8 nTPM
Cerebral cortex	50.9 nTPM
Thalamus	49.5 nTPM
Basal ganglia	45.6 nTPM

Astrocyte	55.4 nTPM
Hypothalamus	76.8 nTPM
Amygdala	65.7 nTPM
Thalamus	59.0 nTPM
Basal ganglia	55.7 nTPM
Pons	55.2 nTPM
Midbrain	54.8 nTPM
Medulla oblongata	52.4 nTPM
Spinal cord	51.8 nTPM
Hippocampus	48.3 nTPM
Cerebral cortex	46.5 nTPM
Cerebellum	43.3 nTPM

Bergmann glia	38.2 nTPM
Cerebellum	48.2 nTPM
Medulla oblongata	36.2 nTPM
Pons	30.2 nTPM

Central nervous system macrophage	108.9 nTPM
Amygdala	147.3 nTPM
Hypothalamus	118.2 nTPM
Midbrain	113.2 nTPM
Basal ganglia	109.8 nTPM
Thalamus	109.4 nTPM
Hippocampus	108.5 nTPM
Cerebral cortex	105.9 nTPM
Pons	102.3 nTPM
Medulla oblongata	95.9 nTPM
Cerebellum	95.1 nTPM
Spinal cord	92.7 nTPM

Cerebellar inhibitory	66.2 nTPM
Spinal cord	85.2 nTPM
Cerebellum	70.9 nTPM
Midbrain	59.7 nTPM
Medulla oblongata	58.6 nTPM
Pons	56.6 nTPM

Cge interneuron	50.5 nTPM
Midbrain	58.1 nTPM
Thalamus	52.3 nTPM
Basal ganglia	51.5 nTPM
Amygdala	50.6 nTPM
Cerebral cortex	50.0 nTPM
Hippocampus	47.0 nTPM
Hypothalamus	44.3 nTPM

Choroid plexus epithelial cell	47.9 nTPM
Basal ganglia	60.7 nTPM
Hippocampus	55.5 nTPM
Medulla oblongata	48.2 nTPM
Thalamus	27.4 nTPM

Committed oligodendrocyte precursor	50.6 nTPM
Cerebral cortex	69.7 nTPM
Midbrain	60.5 nTPM
Cerebellum	57.1 nTPM
Hippocampus	55.1 nTPM
Pons	54.0 nTPM
Amygdala	52.4 nTPM
Spinal cord	51.5 nTPM
Hypothalamus	44.4 nTPM
Medulla oblongata	43.9 nTPM
Basal ganglia	35.0 nTPM
Thalamus	33.3 nTPM

Deep-layer corticothalamic and 6b	83.8 nTPM
Basal ganglia	97.9 nTPM
Cerebral cortex	90.4 nTPM
Amygdala	86.4 nTPM
Hypothalamus	78.4 nTPM
Midbrain	75.4 nTPM
Hippocampus	74.4 nTPM

Deep-layer intratelencephalic	57.3 nTPM
Cerebral cortex	63.6 nTPM
Basal ganglia	58.6 nTPM
Hippocampus	55.5 nTPM
Amygdala	54.4 nTPM
Hypothalamus	54.4 nTPM

Deep-layer near-projecting	71.2 nTPM
Hippocampus	76.8 nTPM
Cerebral cortex	75.9 nTPM
Amygdala	71.0 nTPM
Hypothalamus	68.1 nTPM
Basal ganglia	64.2 nTPM

Eccentric medium spiny neuron	53.1 nTPM
Amygdala	58.2 nTPM
Hypothalamus	57.6 nTPM
Thalamus	51.2 nTPM
Hippocampus	51.0 nTPM
Cerebral cortex	50.5 nTPM
Basal ganglia	50.2 nTPM