Single cell type - HELQ - The Human Protein Atlas

HELQ

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.	HELQ
Gene descriptionⁱ Full gene name according to HGNC.	Helicase, POLQ like
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Enzymes
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.	Non-specific - 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.	0.33
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: 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: 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

HELQ is part of cluster 49 Non-specific - Transcription with confidenceⁱ 0.92
378 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.
ZNF14	Zinc finger protein 14	0.6660	55
ZNF737	Zinc finger protein 737	0.5987	55
DMRTC1	DMRT like family C1	0.5909	7
ARHGEF18	Rho/Rac guanine nucleotide exchange factor 18	0.5749	73
TMSB15B	Thymosin beta 15B	0.5748	6
SP140L	SP140 nuclear body protein like	0.5550	73
ZNF10	Zinc finger protein 10	0.5486	49
FCMR	Fc mu receptor	0.5458	73
ZNF564	Zinc finger protein 564	0.5431	55
ZNF107	Zinc finger protein 107	0.5404	73
TIGD7	Tigger transposable element derived 7	0.5281	55
ZNF484	Zinc finger protein 484	0.5208	49
SLC25A32	Solute carrier family 25 member 32	0.5195	49
SHISAL2A	Shisa like 2A	0.5183	73
METTL4	Methyltransferase 4, N6-adenosine	0.5119	55

IMMUNE CELLS

HELQ is part of cluster 3 Non-specific - Nuclear processes with confidenceⁱ 0.96
471 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.
MTRFR	Mitochondrial translation release factor in rescue	0.9762	3
RHOH	Ras homolog family member H	0.9524	3
ZNF880	Zinc finger protein 880	0.9286	3
KIF20B	Kinesin family member 20B	0.9286	5
FIP1L1	Factor interacting with PAPOLA and CPSF1	0.9286	3
DMAP1	DNA methyltransferase 1 associated protein 1	0.9286	5
ZNF138	Zinc finger protein 138	0.9048	3
ZNF33B	Zinc finger protein 33B	0.9048	3
NDUFB9	NADH:ubiquinone oxidoreductase subunit B9	0.9048	5
SOCS5	Suppressor of cytokine signaling 5	0.9048	3
POLR2M	RNA polymerase II subunit M	0.8810	3
C19orf53	Chromosome 19 open reading frame 53	0.8810	5
TMEM161B	Transmembrane protein 161B	0.8810	5
CFAP298	Cilia and flagella associated protein 298	0.8810	12
OCIAD2	OCIA domain containing 2	0.8810	5

Adipocytes	13.1 nTPM
Breast	17.1 nTPM
Adipose tissue	9.1 nTPM

Alveolar cells type 1	5.7 nTPM
Lung	5.7 nTPM

Alveolar cells type 2	7.6 nTPM
Lung	7.6 nTPM

Astrocytes	13.6 nTPM
Brain	13.6 nTPM

B-cells	23.5 nTPM
Lymph node	43.7 nTPM
Thymus	34.3 nTPM
Stomach	32.1 nTPM
Spleen	31.1 nTPM
Salivary gland	29.2 nTPM
Esophagus	23.6 nTPM
Lung	22.8 nTPM
Bone marrow	21.1 nTPM
Adipose tissue	20.6 nTPM
PBMC	20.0 nTPM
Liver	14.5 nTPM
Kidney	10.4 nTPM
Skin	1.7 nTPM

Ciliated cells	8.0 nTPM
Lung	9.9 nTPM
Fallopian tube	8.7 nTPM
Endometrium	7.4 nTPM
Bronchus	5.9 nTPM

Club cells	8.1 nTPM
Prostate	9.2 nTPM
Lung	8.7 nTPM
Bronchus	6.3 nTPM

Endothelial cells	11.0 nTPM
Breast	15.8 nTPM
Prostate	15.2 nTPM
Heart muscle	15.1 nTPM
Ovary	13.7 nTPM
Vascular	12.7 nTPM
Testis	11.9 nTPM
Fallopian tube	11.8 nTPM
Esophagus	11.6 nTPM
Liver	11.3 nTPM
Skeletal muscle	11.1 nTPM
Thymus	11.0 nTPM
Salivary gland	9.5 nTPM
Endometrium	8.8 nTPM
Tongue	8.6 nTPM
Skin	8.4 nTPM
Pancreas	7.8 nTPM
Lung	7.3 nTPM
Placenta	5.7 nTPM

Enteroendocrine cells	5.6 nTPM
Small intestine	10.3 nTPM
Colon	6.6 nTPM
Rectum	0.0 nTPM

Fibroblasts	11.8 nTPM
Heart muscle	21.8 nTPM
Prostate	21.1 nTPM
Esophagus	17.3 nTPM
Breast	13.2 nTPM
Vascular	13.1 nTPM
Salivary gland	12.9 nTPM
Fallopian tube	12.6 nTPM
Thymus	12.0 nTPM
Adipose tissue	11.7 nTPM
Skeletal muscle	11.6 nTPM
Liver	8.3 nTPM
Placenta	7.6 nTPM
Lung	7.0 nTPM
Skin	6.5 nTPM
Pancreas	6.2 nTPM
Stomach	5.8 nTPM

Granulocytes	14.5 nTPM
Tongue	19.4 nTPM
Lung	12.1 nTPM
Fallopian tube	12.1 nTPM

Intestinal goblet cells	5.1 nTPM
Colon	5.7 nTPM
Small intestine	5.3 nTPM
Rectum	4.4 nTPM

Lymphatic endothelial cells	10.0 nTPM
Fallopian tube	14.6 nTPM
Ovary	5.5 nTPM

Macrophages	9.6 nTPM
Breast	16.5 nTPM
Prostate	14.7 nTPM
Salivary gland	13.3 nTPM
Testis	13.0 nTPM
Esophagus	12.8 nTPM
Lung	12.2 nTPM
Adipose tissue	11.9 nTPM
Fallopian tube	11.8 nTPM
Thymus	10.9 nTPM
Vascular	10.5 nTPM
Bone marrow	10.1 nTPM
Endometrium	8.6 nTPM
Tongue	7.3 nTPM
Skeletal muscle	6.7 nTPM
Pancreas	6.2 nTPM
Kidney	5.3 nTPM
Spleen	5.0 nTPM
Skin	3.3 nTPM
Stomach	2.6 nTPM

Paneth cells	7.1 nTPM
Small intestine	10.4 nTPM
Rectum	7.3 nTPM
Colon	3.6 nTPM

Basal respiratory cells	6.0 nTPM
Bronchus	6.0 nTPM

Basal squamous epithelial cells	9.8 nTPM
Esophagus	9.8 nTPM

Distal tubular cells	21.5 nTPM
Kidney	21.5 nTPM

Early spermatids	32.3 nTPM
Testis	32.3 nTPM

Plasma cells	13.7 nTPM
Bone marrow	19.6 nTPM
Spleen	16.8 nTPM
Stomach	16.3 nTPM
Thymus	14.3 nTPM
Fallopian tube	14.2 nTPM
Salivary gland	12.5 nTPM
Esophagus	10.4 nTPM
Liver	5.5 nTPM

Schwann cells	8.8 nTPM
Esophagus	12.0 nTPM
Vascular	11.0 nTPM
Adipose tissue	3.5 nTPM

Serous glandular cells	7.0 nTPM
Salivary gland	9.7 nTPM
Tongue	4.4 nTPM

Smooth muscle cells	12.9 nTPM
Esophagus	24.0 nTPM
Ovary	20.3 nTPM
Lung	16.5 nTPM
Fallopian tube	16.2 nTPM
Breast	16.1 nTPM
Prostate	14.0 nTPM
Salivary gland	12.2 nTPM
Thymus	11.7 nTPM
Skeletal muscle	11.6 nTPM
Endometrium	10.3 nTPM
Tongue	9.9 nTPM
Placenta	9.7 nTPM
Vascular	9.5 nTPM
Adipose tissue	8.9 nTPM
Skin	8.1 nTPM
Liver	6.8 nTPM

T-cells	19.5 nTPM
Lymph node	35.5 nTPM
Prostate	34.0 nTPM
Thymus	30.8 nTPM
Salivary gland	28.8 nTPM
Bone marrow	23.1 nTPM
Stomach	21.8 nTPM
Lung	21.5 nTPM
Fallopian tube	20.8 nTPM
Kidney	20.4 nTPM
Spleen	19.7 nTPM
Breast	19.4 nTPM
Vascular	18.1 nTPM
Esophagus	17.0 nTPM
Tongue	15.2 nTPM
Endometrium	15.1 nTPM
PBMC	14.1 nTPM
Adipose tissue	12.2 nTPM
Skeletal muscle	11.3 nTPM
Colon	10.7 nTPM
Skin	10.2 nTPM
Liver	9.4 nTPM

Undifferentiated cells	5.5 nTPM
Rectum	6.2 nTPM
Colon	5.2 nTPM
Small intestine	5.1 nTPM

Amygdala excitatory	21.0 nTPM
Basal ganglia	22.7 nTPM
Hypothalamus	21.6 nTPM
Hippocampus	21.3 nTPM
Thalamus	20.4 nTPM
Cerebral cortex	20.2 nTPM
Amygdala	20.0 nTPM

Astrocyte	28.2 nTPM
Amygdala	34.6 nTPM
Basal ganglia	30.2 nTPM
Hypothalamus	30.0 nTPM
Midbrain	29.9 nTPM
Hippocampus	29.6 nTPM
Cerebral cortex	29.5 nTPM
Thalamus	29.4 nTPM
Medulla oblongata	26.9 nTPM
Pons	26.7 nTPM
Cerebellum	25.6 nTPM
Spinal cord	18.3 nTPM

Bergmann glia	19.9 nTPM
Cerebellum	27.7 nTPM
Medulla oblongata	19.2 nTPM
Pons	12.9 nTPM

Central nervous system macrophage	63.1 nTPM
Amygdala	78.8 nTPM
Hippocampus	71.6 nTPM
Midbrain	66.4 nTPM
Cerebral cortex	64.1 nTPM
Thalamus	62.1 nTPM
Cerebellum	61.3 nTPM
Hypothalamus	60.8 nTPM
Basal ganglia	60.7 nTPM
Pons	60.2 nTPM
Spinal cord	56.2 nTPM
Medulla oblongata	52.1 nTPM

Cerebellar inhibitory	29.6 nTPM
Cerebellum	30.8 nTPM
Pons	30.3 nTPM
Medulla oblongata	30.0 nTPM
Midbrain	29.5 nTPM
Spinal cord	27.5 nTPM

Cge interneuron	24.7 nTPM
Midbrain	27.7 nTPM
Cerebral cortex	26.2 nTPM
Basal ganglia	25.1 nTPM
Amygdala	24.5 nTPM
Hypothalamus	23.8 nTPM
Thalamus	23.4 nTPM
Hippocampus	22.3 nTPM

Choroid plexus epithelial cell	57.9 nTPM
Medulla oblongata	69.2 nTPM
Basal ganglia	60.3 nTPM
Hippocampus	55.5 nTPM
Thalamus	46.6 nTPM

Committed oligodendrocyte precursor	21.5 nTPM
Hypothalamus	29.4 nTPM
Pons	28.3 nTPM
Basal ganglia	27.9 nTPM
Thalamus	23.2 nTPM
Hippocampus	23.0 nTPM
Amygdala	22.0 nTPM
Medulla oblongata	20.7 nTPM
Midbrain	20.2 nTPM
Cerebral cortex	19.6 nTPM
Spinal cord	14.7 nTPM
Cerebellum	7.9 nTPM

Deep-layer corticothalamic and 6b	21.4 nTPM
Midbrain	23.3 nTPM
Cerebral cortex	22.7 nTPM
Hippocampus	21.5 nTPM
Amygdala	20.6 nTPM
Basal ganglia	20.6 nTPM
Hypothalamus	19.4 nTPM

Deep-layer intratelencephalic	20.2 nTPM
Cerebral cortex	22.4 nTPM
Basal ganglia	21.2 nTPM
Amygdala	20.8 nTPM
Hippocampus	19.1 nTPM
Hypothalamus	17.4 nTPM

Deep-layer near-projecting	24.3 nTPM
Basal ganglia	27.7 nTPM
Hippocampus	26.7 nTPM
Cerebral cortex	24.3 nTPM
Amygdala	23.0 nTPM
Hypothalamus	19.7 nTPM

Eccentric medium spiny neuron	21.2 nTPM
Hypothalamus	22.1 nTPM
Thalamus	22.1 nTPM
Hippocampus	22.0 nTPM
Basal ganglia	21.9 nTPM
Amygdala	20.0 nTPM
Cerebral cortex	19.2 nTPM

Endothelial cell	28.6 nTPM
Hippocampus	40.7 nTPM
Cerebellum	31.0 nTPM
Amygdala	30.2 nTPM
Midbrain	30.2 nTPM
Pons	28.7 nTPM
Hypothalamus	28.5 nTPM
Thalamus	27.1 nTPM
Spinal cord	25.9 nTPM
Cerebral cortex	24.9 nTPM
Basal ganglia	24.2 nTPM
Medulla oblongata	23.6 nTPM

Ependymal cell	23.2 nTPM
Amygdala	30.1 nTPM
Hippocampus	29.3 nTPM
Medulla oblongata	26.6 nTPM
Basal ganglia	25.2 nTPM
Pons	24.7 nTPM
Thalamus	21.9 nTPM
Midbrain	19.0 nTPM
Hypothalamus	18.7 nTPM
Spinal cord	13.4 nTPM