Single cell type - KLHL6 - The Human Protein Atlas

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.	KLHL6
Gene descriptionⁱ Full gene name according to HGNC.	Kelch like family member 6
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.	Dendritic cells - Antigen presentation (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 (Schwann cells, Plasma cells, Monocytes, Dendritic cells, B-cells, Granulocytes, Macrophages, Ciliated 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.	0.79
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.	Group enriched (Central nervous system macrophage, Leukocyte)
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 type

Cell type enrichment

Single nuclei - Brain

Immune cells

Expression clustering

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 (Schwann cells, Plasma cells, Monocytes, Dendritic cells, B-cells, Granulocytes, Macrophages, Ciliated 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: Group enriched (Central nervous system macrophage, Leukocyte)

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

KLHL6 is part of cluster 28 Dendritic cells - Antigen presentation with confidenceⁱ 1
245 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.
HLA-DQA2	Major histocompatibility complex, class II, DQ alpha 2	0.7367	28
BTN2A2	Butyrophilin subfamily 2 member A2	0.6790	30
EIF2AK4	Eukaryotic translation initiation factor 2 alpha kinase 4	0.6751	28
EDEM1	ER degradation enhancing alpha-mannosidase like protein 1	0.6613	28
WDFY4	WDFY family member 4	0.6584	28
HERPUD1	Homocysteine inducible ER protein with ubiquitin like domain 1	0.6492	77
HLA-DQB1	Major histocompatibility complex, class II, DQ beta 1	0.6368	28
CYBA	Cytochrome b-245 alpha chain	0.6341	58
HLA-DRB5	Major histocompatibility complex, class II, DR beta 5	0.6308	28
UNC93B1	Unc-93 homolog B1, TLR signaling regulator	0.6219	58
RAPGEF1	Rap guanine nucleotide exchange factor 1	0.6134	28
XCR1	X-C motif chemokine receptor 1	0.6064	28
PLA2G2D	Phospholipase A2 group IID	0.6059	77
HLA-DRA	Major histocompatibility complex, class II, DR alpha	0.6015	28
HLA-DPA1	Major histocompatibility complex, class II, DP alpha 1	0.5999	28

IMMUNE CELLS

KLHL6 is part of cluster 10 Non-specific - Membrane trafficking with confidenceⁱ 0.72
408 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.
MPLKIP	M-phase specific PLK1 interacting protein	1.0000	10
TTC9C	Tetratricopeptide repeat domain 9C	0.9524	29
ENSG00000258674	Novel protein	0.8810	36
RNASE2	Ribonuclease A family member 2	0.8810	42
CAMTA1	Calmodulin binding transcription activator 1	0.8571	41
SUB1	SUB1 regulator of transcription	0.8571	32
MRPS18A	Mitochondrial ribosomal protein S18A	0.8571	22
FMO5	Flavin containing dimethylaniline monoxygenase 5	0.8333	10
TEN1	TEN1 subunit of CST complex	0.8333	10
ZNF567	Zinc finger protein 567	0.8333	22
FAM234A	Family with sequence similarity 234 member A	0.8333	10
ISCU	Iron-sulfur cluster assembly enzyme	0.8333	22
MGME1	Mitochondrial genome maintenance exonuclease 1	0.8333	41
DGUOK	Deoxyguanosine kinase	0.8333	41
PSPC1	Paraspeckle component 1	0.8095	10