Single cell type - HLTF - The Human Protein Atlas

HLTF

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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.	HLTF
Gene descriptionⁱ Full gene name according to HGNC.	Helicase like transcription factor
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Enzymes Metabolic proteins
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.	5

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.	Bipolar cells - Visual perception (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 (Spermatocytes)
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.	0.40
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 (Spermatocytes)

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

HLTF is part of cluster 25 Bipolar cells - Visual perception with confidenceⁱ 1
152 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.
TUBGCP5	Tubulin gamma complex associated protein 5	0.5155	55
TSTD2	Thiosulfate sulfurtransferase like domain containing 2	0.5085	55
BRCA1	BRCA1 DNA repair associated	0.4507	52
PDCD7	Programmed cell death 7	0.4493	55
SENP6	SUMO specific peptidase 6	0.4426	55
LCMT2	Leucine carboxyl methyltransferase 2	0.4403	79
TCEAL6	Transcription elongation factor A like 6	0.4397	25
FKTN	Fukutin	0.4300	55
TAB1	TGF-beta activated kinase 1 (MAP3K7) binding protein 1	0.4292	25
PCDHGA7	Protocadherin gamma subfamily A, 7	0.4273	2
TTC3	Tetratricopeptide repeat domain 3	0.4272	75
PRKDC	Protein kinase, DNA-activated, catalytic subunit	0.4271	39
THUMPD2	THUMP domain containing 2	0.4247	6
NYX	Nyctalopin	0.4236	25
EFR3A	EFR3 homolog A	0.4233	25

IMMUNE CELLS

HLTF is part of cluster 5 Non-specific - Cell proliferation with confidenceⁱ 1
689 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.
CENPQ	Centromere protein Q	1.0000	5
ZNF12	Zinc finger protein 12	0.9762	5
U2SURP	U2 snRNP associated SURP domain containing	0.9762	5
ZNF614	Zinc finger protein 614	0.9762	5
RAD50	RAD50 double strand break repair protein	0.9762	5
ENSG00000283201	Zinc finger protein 724	0.9524	5
SMYD3	SET and MYND domain containing 3	0.9524	5
ATP11B	ATPase phospholipid transporting 11B (putative)	0.9524	5
CDK2	Cyclin dependent kinase 2	0.9286	5
ZNF304	Zinc finger protein 304	0.9286	5
USP11	Ubiquitin specific peptidase 11	0.9286	5
GOLPH3L	Golgi phosphoprotein 3 like	0.9286	5
HSPA13	Heat shock protein family A (Hsp70) member 13	0.9286	5
NFATC3	Nuclear factor of activated T cells 3	0.9286	5
IFT80	Intraflagellar transport 80	0.9286	5

Adipocytes	17.2 nTPM
Breast	23.1 nTPM
Adipose tissue	11.3 nTPM

Alveolar cells type 1	14.7 nTPM
Lung	14.7 nTPM

Alveolar cells type 2	22.1 nTPM
Lung	22.1 nTPM

Astrocytes	53.9 nTPM
Brain	53.9 nTPM

B-cells	17.7 nTPM
Salivary gland	34.6 nTPM
Thymus	26.9 nTPM
Lung	25.5 nTPM
Spleen	20.5 nTPM
Lymph node	19.4 nTPM
Liver	19.3 nTPM
PBMC	16.9 nTPM
Kidney	15.6 nTPM
Stomach	15.6 nTPM
Bone marrow	15.0 nTPM
Esophagus	11.8 nTPM
Adipose tissue	8.6 nTPM
Skin	0.0 nTPM

Ciliated cells	24.1 nTPM
Endometrium	41.1 nTPM
Fallopian tube	19.6 nTPM
Lung	18.7 nTPM
Bronchus	16.8 nTPM

Club cells	14.7 nTPM
Prostate	16.9 nTPM
Lung	14.7 nTPM
Bronchus	12.5 nTPM

Endothelial cells	16.1 nTPM
Heart muscle	38.9 nTPM
Endometrium	19.8 nTPM
Vascular	19.0 nTPM
Thymus	18.7 nTPM
Prostate	18.5 nTPM
Esophagus	17.7 nTPM
Ovary	17.7 nTPM
Breast	17.6 nTPM
Salivary gland	16.0 nTPM
Skeletal muscle	15.7 nTPM
Placenta	15.3 nTPM
Lung	13.5 nTPM
Tongue	12.9 nTPM
Fallopian tube	12.8 nTPM
Testis	10.7 nTPM
Skin	9.6 nTPM
Pancreas	7.8 nTPM
Liver	7.6 nTPM

Enteroendocrine cells	4.7 nTPM
Rectum	8.4 nTPM
Colon	5.7 nTPM
Small intestine	0.0 nTPM

Fibroblasts	25.7 nTPM
Heart muscle	70.6 nTPM
Skeletal muscle	35.2 nTPM
Breast	32.2 nTPM
Fallopian tube	29.8 nTPM
Salivary gland	28.9 nTPM
Vascular	28.7 nTPM
Adipose tissue	26.0 nTPM
Esophagus	22.4 nTPM
Thymus	20.5 nTPM
Placenta	19.8 nTPM
Prostate	19.8 nTPM
Lung	18.4 nTPM
Liver	17.8 nTPM
Stomach	17.3 nTPM
Pancreas	15.1 nTPM
Skin	9.4 nTPM

Granulocytes	43.9 nTPM
Lung	66.6 nTPM
Tongue	34.0 nTPM
Fallopian tube	31.1 nTPM

Intestinal goblet cells	6.1 nTPM
Rectum	9.0 nTPM
Small intestine	5.0 nTPM
Colon	4.4 nTPM

Lymphatic endothelial cells	14.4 nTPM
Fallopian tube	18.0 nTPM
Ovary	10.9 nTPM

Macrophages	12.0 nTPM
Prostate	22.0 nTPM
Breast	21.6 nTPM
Salivary gland	19.3 nTPM
Endometrium	17.2 nTPM
Lung	14.5 nTPM
Esophagus	14.1 nTPM
Tongue	13.6 nTPM
Kidney	13.3 nTPM
Testis	13.0 nTPM
Skeletal muscle	11.2 nTPM
Fallopian tube	10.5 nTPM
Bone marrow	10.1 nTPM
Vascular	8.5 nTPM
Adipose tissue	8.0 nTPM
Stomach	7.7 nTPM
Thymus	7.6 nTPM
Spleen	7.0 nTPM
Pancreas	6.2 nTPM
Skin	2.2 nTPM

Paneth cells	3.4 nTPM
Small intestine	6.9 nTPM
Rectum	3.2 nTPM
Colon	0.0 nTPM

Basal prostatic cells	11.0 nTPM
Prostate	11.0 nTPM

Basal respiratory cells	12.4 nTPM
Bronchus	12.4 nTPM

Basal squamous epithelial cells	12.2 nTPM
Esophagus	12.2 nTPM

Cholangiocytes	21.0 nTPM
Liver	21.0 nTPM

Plasma cells	23.0 nTPM
Thymus	46.7 nTPM
Salivary gland	29.5 nTPM
Spleen	29.1 nTPM
Bone marrow	22.7 nTPM
Stomach	18.0 nTPM
Fallopian tube	17.7 nTPM
Liver	15.0 nTPM
Esophagus	5.2 nTPM

Schwann cells	27.2 nTPM
Esophagus	35.9 nTPM
Vascular	29.3 nTPM
Adipose tissue	16.4 nTPM

Serous glandular cells	20.3 nTPM
Salivary gland	27.3 nTPM
Tongue	13.3 nTPM

Smooth muscle cells	22.4 nTPM
Endometrium	36.7 nTPM
Breast	32.4 nTPM
Vascular	31.9 nTPM
Salivary gland	29.1 nTPM
Thymus	26.5 nTPM
Adipose tissue	25.6 nTPM
Fallopian tube	22.7 nTPM
Ovary	22.3 nTPM
Prostate	21.9 nTPM
Skeletal muscle	20.7 nTPM
Esophagus	20.4 nTPM
Placenta	17.2 nTPM
Tongue	15.0 nTPM
Skin	13.0 nTPM
Lung	11.8 nTPM
Liver	10.6 nTPM

T-cells	21.4 nTPM
Esophagus	41.4 nTPM
Prostate	37.5 nTPM
Salivary gland	29.7 nTPM
Endometrium	27.4 nTPM
Stomach	25.3 nTPM
Breast	24.7 nTPM
Bone marrow	22.7 nTPM
Spleen	22.2 nTPM
Vascular	22.1 nTPM
Fallopian tube	20.9 nTPM
Tongue	20.7 nTPM
Lung	20.5 nTPM
Thymus	20.2 nTPM
Lymph node	17.9 nTPM
PBMC	17.6 nTPM
Skeletal muscle	17.0 nTPM
Liver	15.4 nTPM
Adipose tissue	12.8 nTPM
Colon	12.7 nTPM
Kidney	11.5 nTPM
Skin	8.4 nTPM

Undifferentiated cells	12.1 nTPM
Colon	15.4 nTPM
Small intestine	11.5 nTPM
Rectum	9.3 nTPM

Amygdala excitatory	86.7 nTPM
Thalamus	118.4 nTPM
Hippocampus	87.5 nTPM
Basal ganglia	82.4 nTPM
Cerebral cortex	78.6 nTPM
Amygdala	78.1 nTPM
Hypothalamus	75.0 nTPM

Astrocyte	101.7 nTPM
Pons	123.3 nTPM
Hypothalamus	112.8 nTPM
Thalamus	111.0 nTPM
Midbrain	107.6 nTPM
Amygdala	103.5 nTPM
Basal ganglia	99.7 nTPM
Spinal cord	99.5 nTPM
Cerebral cortex	95.5 nTPM
Medulla oblongata	95.5 nTPM
Hippocampus	85.7 nTPM
Cerebellum	85.0 nTPM

Bergmann glia	83.3 nTPM
Cerebellum	102.0 nTPM
Pons	82.0 nTPM
Medulla oblongata	66.1 nTPM

Central nervous system macrophage	73.5 nTPM
Amygdala	92.6 nTPM
Midbrain	80.6 nTPM
Hypothalamus	79.8 nTPM
Thalamus	76.6 nTPM
Basal ganglia	73.7 nTPM
Pons	71.4 nTPM
Cerebellum	71.0 nTPM
Hippocampus	70.7 nTPM
Medulla oblongata	66.2 nTPM
Cerebral cortex	66.1 nTPM
Spinal cord	59.5 nTPM

Cerebellar inhibitory	132.6 nTPM
Cerebellum	148.3 nTPM
Midbrain	146.8 nTPM
Pons	133.8 nTPM
Medulla oblongata	132.4 nTPM
Spinal cord	101.7 nTPM

Cge interneuron	101.7 nTPM
Thalamus	110.7 nTPM
Amygdala	106.7 nTPM
Hippocampus	104.9 nTPM
Basal ganglia	101.2 nTPM
Cerebral cortex	100.8 nTPM
Midbrain	97.2 nTPM
Hypothalamus	90.5 nTPM

Choroid plexus epithelial cell	113.9 nTPM
Medulla oblongata	138.7 nTPM
Basal ganglia	123.9 nTPM
Hippocampus	108.2 nTPM
Thalamus	85.0 nTPM

Committed oligodendrocyte precursor	90.5 nTPM
Spinal cord	121.4 nTPM
Cerebellum	117.3 nTPM
Pons	98.3 nTPM
Amygdala	91.3 nTPM
Medulla oblongata	90.4 nTPM
Cerebral cortex	84.9 nTPM
Midbrain	84.0 nTPM
Hippocampus	83.8 nTPM
Thalamus	75.6 nTPM
Hypothalamus	75.1 nTPM
Basal ganglia	72.8 nTPM

Deep-layer corticothalamic and 6b	87.3 nTPM
Cerebral cortex	92.1 nTPM
Basal ganglia	91.7 nTPM
Hippocampus	90.8 nTPM
Amygdala	90.5 nTPM
Midbrain	81.0 nTPM
Hypothalamus	77.4 nTPM

Deep-layer intratelencephalic	76.8 nTPM
Amygdala	87.5 nTPM
Cerebral cortex	80.1 nTPM
Hippocampus	77.2 nTPM
Basal ganglia	76.0 nTPM
Hypothalamus	63.3 nTPM

Deep-layer near-projecting	117.8 nTPM
Amygdala	130.3 nTPM
Cerebral cortex	128.9 nTPM
Basal ganglia	116.5 nTPM
Hippocampus	112.2 nTPM
Hypothalamus	101.0 nTPM

Eccentric medium spiny neuron	92.9 nTPM
Hippocampus	103.2 nTPM
Thalamus	99.5 nTPM
Amygdala	92.3 nTPM
Hypothalamus	92.1 nTPM
Basal ganglia	89.3 nTPM
Cerebral cortex	80.9 nTPM

Endothelial cell	44.2 nTPM
Thalamus	54.8 nTPM
Basal ganglia	49.4 nTPM
Hippocampus	48.1 nTPM
Cerebellum	48.0 nTPM
Pons	46.8 nTPM
Midbrain	44.4 nTPM
Cerebral cortex	44.1 nTPM
Amygdala	42.5 nTPM
Hypothalamus	39.7 nTPM
Medulla oblongata	36.9 nTPM
Spinal cord	31.1 nTPM

Ependymal cell	83.9 nTPM
Spinal cord	99.7 nTPM
Thalamus	91.1 nTPM
Hypothalamus	88.3 nTPM
Medulla oblongata	80.6 nTPM
Midbrain	80.6 nTPM
Pons	80.5 nTPM
Basal ganglia	78.2 nTPM
Amygdala	77.9 nTPM
Hippocampus	77.8 nTPM