Single cell type - KLHL20 - The Human Protein Atlas

KLHL20

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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.	KLHL20
Gene descriptionⁱ Full gene name according to HGNC.	Kelch like family member 20
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.	Early spermatids - Spermatogenesis (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 (Early spermatids)
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.	0.46
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 (Early spermatids)

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

KLHL20 is part of cluster 21 Early spermatids - Spermatogenesis with confidenceⁱ 1
337 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.
G2E3	G2/M-phase specific E3 ubiquitin protein ligase	0.6906	21
TXNDC2	Thioredoxin domain containing 2	0.6899	21
ARID2	AT-rich interaction domain 2	0.6893	21
CCDC168	Coiled-coil domain containing 168	0.6880	21
OR8B3	Olfactory receptor family 8 subfamily B member 3	0.6857	21
CREB1	CAMP responsive element binding protein 1	0.6840	21
SAXO1	Stabilizer of axonemal microtubules 1	0.6760	21
NSUN3	NOP2/Sun RNA methyltransferase 3	0.6744	21
NDRG3	NDRG family member 3	0.6714	21
TRIML1	Tripartite motif family like 1	0.6707	21
TMEM270	Transmembrane protein 270	0.6699	21
ZSCAN20	Zinc finger and SCAN domain containing 20	0.6689	21
CRYGB	Crystallin gamma B	0.6678	21
ZNF790	Zinc finger protein 790	0.6674	21
SPATA31D3	SPATA31 subfamily D member 3	0.6646	21

IMMUNE CELLS

KLHL20 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.
HPS4	HPS4 biogenesis of lysosomal organelles complex 3 subunit 2	1.0000	5
RCL1	RNA terminal phosphate cyclase like 1	1.0000	5
HOXB3	Homeobox B3	1.0000	5
TMEM245	Transmembrane protein 245	0.9762	5
ZNF829	Zinc finger protein 829	0.9762	5
THOC7	THO complex subunit 7	0.9762	5
MARCHF9	Membrane associated ring-CH-type finger 9	0.9762	5
PDE6B	Phosphodiesterase 6B	0.9762	5
TMEM128	Transmembrane protein 128	0.9762	5
LDAF1	Lipid droplet assembly factor 1	0.9762	5
RAD52	RAD52 homolog, DNA repair protein	0.9524	5
TARS1	Threonyl-tRNA synthetase 1	0.9524	5
KLF9	KLF transcription factor 9	0.9524	5
AGFG2	ArfGAP with FG repeats 2	0.9524	5
POP1	POP1 homolog, ribonuclease P/MRP subunit	0.9524	5

Adipocytes	20.3 nTPM
Adipose tissue	23.5 nTPM
Breast	17.1 nTPM

Alveolar cells type 1	11.7 nTPM
Lung	11.7 nTPM

Alveolar cells type 2	19.3 nTPM
Lung	19.3 nTPM

Astrocytes	34.4 nTPM
Brain	34.4 nTPM

B-cells	17.2 nTPM
Liver	29.0 nTPM
Stomach	27.0 nTPM
Lung	24.1 nTPM
Lymph node	20.3 nTPM
Bone marrow	18.6 nTPM
PBMC	16.9 nTPM
Spleen	15.7 nTPM
Thymus	15.7 nTPM
Kidney	15.6 nTPM
Salivary gland	14.5 nTPM
Adipose tissue	14.0 nTPM
Skin	6.8 nTPM
Esophagus	5.9 nTPM

Ciliated cells	8.6 nTPM
Bronchus	12.5 nTPM
Lung	10.8 nTPM
Fallopian tube	6.5 nTPM
Endometrium	4.5 nTPM

Club cells	12.7 nTPM
Bronchus	15.0 nTPM
Lung	11.8 nTPM
Prostate	11.4 nTPM

Dendritic cells	23.4 nTPM
Adipose tissue	25.2 nTPM
PBMC	21.6 nTPM

Endothelial cells	26.1 nTPM
Liver	46.6 nTPM
Heart muscle	40.1 nTPM
Testis	36.3 nTPM
Skeletal muscle	35.5 nTPM
Placenta	30.7 nTPM
Thymus	29.8 nTPM
Vascular	27.9 nTPM
Ovary	24.8 nTPM
Fallopian tube	24.7 nTPM
Prostate	24.6 nTPM
Esophagus	24.1 nTPM
Breast	22.8 nTPM
Salivary gland	21.2 nTPM
Tongue	20.2 nTPM
Endometrium	19.0 nTPM
Lung	18.2 nTPM
Skin	17.4 nTPM
Pancreas	5.2 nTPM

Enteroendocrine cells	11.6 nTPM
Small intestine	13.7 nTPM
Rectum	11.7 nTPM
Colon	9.3 nTPM

Fibroblasts	19.8 nTPM
Liver	37.9 nTPM
Skeletal muscle	25.4 nTPM
Adipose tissue	24.4 nTPM
Esophagus	23.3 nTPM
Breast	22.6 nTPM
Skin	21.3 nTPM
Vascular	20.9 nTPM
Thymus	20.0 nTPM
Fallopian tube	19.0 nTPM
Salivary gland	18.0 nTPM
Prostate	17.2 nTPM
Heart muscle	16.2 nTPM
Stomach	15.9 nTPM
Pancreas	11.7 nTPM
Placenta	11.6 nTPM
Lung	11.4 nTPM

Granulocytes	15.4 nTPM
Lung	25.2 nTPM
Fallopian tube	11.3 nTPM
Tongue	9.7 nTPM

Intestinal goblet cells	10.2 nTPM
Small intestine	12.1 nTPM
Rectum	11.3 nTPM
Colon	7.4 nTPM

Lymphatic endothelial cells	14.0 nTPM
Fallopian tube	17.1 nTPM
Ovary	10.9 nTPM

Macrophages	10.5 nTPM
Lung	15.4 nTPM
Spleen	14.0 nTPM
Skin	13.4 nTPM
Thymus	12.8 nTPM
Prostate	12.6 nTPM
Salivary gland	12.5 nTPM
Testis	12.4 nTPM
Tongue	11.5 nTPM
Kidney	10.6 nTPM
Esophagus	10.3 nTPM
Stomach	10.3 nTPM
Vascular	10.3 nTPM
Adipose tissue	9.5 nTPM
Skeletal muscle	9.3 nTPM
Fallopian tube	8.4 nTPM
Breast	8.2 nTPM
Endometrium	6.8 nTPM
Pancreas	6.2 nTPM
Bone marrow	5.1 nTPM

Basal respiratory cells	12.9 nTPM
Bronchus	12.9 nTPM

Collecting duct cells	13.6 nTPM
Kidney	13.6 nTPM

Cone photoreceptor cells	15.3 nTPM
Eye	15.3 nTPM

Distal tubular cells	3.1 nTPM
Kidney	3.1 nTPM

Paneth cells	11.8 nTPM
Small intestine	17.3 nTPM
Rectum	10.9 nTPM
Colon	7.2 nTPM

Plasma cells	10.8 nTPM
Bone marrow	19.6 nTPM
Stomach	13.8 nTPM
Thymus	11.8 nTPM
Spleen	11.3 nTPM
Fallopian tube	9.6 nTPM
Liver	7.5 nTPM
Salivary gland	7.2 nTPM
Esophagus	5.2 nTPM

Schwann cells	7.9 nTPM
Vascular	18.3 nTPM
Adipose tissue	5.5 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	13.1 nTPM
Tongue	17.7 nTPM
Salivary gland	8.5 nTPM

Smooth muscle cells	18.0 nTPM
Liver	34.4 nTPM
Skeletal muscle	24.6 nTPM
Vascular	21.5 nTPM
Lung	21.2 nTPM
Placenta	20.3 nTPM
Prostate	18.2 nTPM
Adipose tissue	18.0 nTPM
Skin	17.7 nTPM
Esophagus	16.8 nTPM
Thymus	16.3 nTPM
Fallopian tube	16.3 nTPM
Ovary	15.4 nTPM
Endometrium	12.8 nTPM
Tongue	12.3 nTPM
Breast	11.6 nTPM
Salivary gland	10.7 nTPM

Suprabasal keratinocytes	13.6 nTPM
Tongue	16.0 nTPM
Skin	11.2 nTPM

T-cells	16.7 nTPM
PBMC	30.3 nTPM
Liver	24.0 nTPM
Bone marrow	22.1 nTPM
Lymph node	20.3 nTPM
Salivary gland	18.8 nTPM
Thymus	18.7 nTPM
Lung	18.5 nTPM
Prostate	18.5 nTPM
Skeletal muscle	17.4 nTPM
Stomach	17.4 nTPM
Spleen	16.7 nTPM
Adipose tissue	15.6 nTPM
Breast	14.3 nTPM
Vascular	14.1 nTPM
Fallopian tube	14.1 nTPM
Tongue	14.0 nTPM
Skin	12.6 nTPM
Kidney	12.4 nTPM
Colon	11.7 nTPM
Esophagus	9.7 nTPM
Endometrium	9.0 nTPM

Undifferentiated cells	8.5 nTPM
Rectum	9.8 nTPM
Small intestine	8.9 nTPM
Colon	6.8 nTPM

Amygdala excitatory	39.7 nTPM
Hypothalamus	48.4 nTPM
Thalamus	46.7 nTPM
Basal ganglia	41.0 nTPM
Amygdala	39.4 nTPM
Hippocampus	32.5 nTPM
Cerebral cortex	30.1 nTPM

Astrocyte	53.8 nTPM
Amygdala	79.4 nTPM
Hippocampus	66.4 nTPM
Cerebral cortex	63.9 nTPM
Hypothalamus	55.8 nTPM
Cerebellum	54.0 nTPM
Pons	52.5 nTPM
Midbrain	51.0 nTPM
Thalamus	48.3 nTPM
Basal ganglia	47.5 nTPM
Medulla oblongata	42.8 nTPM
Spinal cord	29.7 nTPM

Bergmann glia	39.6 nTPM
Cerebellum	46.0 nTPM
Pons	38.8 nTPM
Medulla oblongata	34.1 nTPM

Central nervous system macrophage	76.4 nTPM
Amygdala	106.3 nTPM
Hypothalamus	90.2 nTPM
Hippocampus	80.5 nTPM
Thalamus	79.7 nTPM
Midbrain	78.3 nTPM
Cerebellum	76.5 nTPM
Cerebral cortex	71.5 nTPM
Basal ganglia	68.6 nTPM
Pons	67.5 nTPM
Medulla oblongata	66.8 nTPM
Spinal cord	54.2 nTPM

Cerebellar inhibitory	52.0 nTPM
Spinal cord	66.0 nTPM
Cerebellum	51.9 nTPM
Pons	48.8 nTPM
Medulla oblongata	47.7 nTPM
Midbrain	45.7 nTPM

Cge interneuron	38.6 nTPM
Hypothalamus	48.7 nTPM
Amygdala	40.9 nTPM
Thalamus	38.1 nTPM
Hippocampus	38.0 nTPM
Cerebral cortex	36.2 nTPM
Basal ganglia	35.1 nTPM
Midbrain	33.2 nTPM

Choroid plexus epithelial cell	66.1 nTPM
Basal ganglia	87.7 nTPM
Thalamus	71.2 nTPM
Medulla oblongata	52.8 nTPM
Hippocampus	52.7 nTPM

Committed oligodendrocyte precursor	52.9 nTPM
Amygdala	67.7 nTPM
Cerebral cortex	66.5 nTPM
Midbrain	63.8 nTPM
Hippocampus	63.1 nTPM
Thalamus	58.5 nTPM
Hypothalamus	55.3 nTPM
Cerebellum	44.4 nTPM
Pons	44.3 nTPM
Spinal cord	44.1 nTPM
Basal ganglia	41.6 nTPM
Medulla oblongata	32.3 nTPM

Deep-layer corticothalamic and 6b	41.1 nTPM
Hypothalamus	49.9 nTPM
Hippocampus	41.5 nTPM
Midbrain	41.0 nTPM
Amygdala	40.3 nTPM
Cerebral cortex	38.5 nTPM
Basal ganglia	35.1 nTPM

Deep-layer intratelencephalic	32.3 nTPM
Hypothalamus	37.0 nTPM
Amygdala	32.8 nTPM
Cerebral cortex	32.5 nTPM
Basal ganglia	30.2 nTPM
Hippocampus	29.1 nTPM

Deep-layer near-projecting	52.6 nTPM
Hypothalamus	70.8 nTPM
Amygdala	61.6 nTPM
Cerebral cortex	51.4 nTPM
Basal ganglia	42.9 nTPM
Hippocampus	36.4 nTPM

Eccentric medium spiny neuron	51.7 nTPM
Thalamus	56.2 nTPM
Hypothalamus	55.7 nTPM
Amygdala	53.1 nTPM
Cerebral cortex	50.7 nTPM
Basal ganglia	49.8 nTPM
Hippocampus	44.8 nTPM