Single cell type - FBXO42 - The Human Protein Atlas

FBXO42

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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.	FBXO42
Gene descriptionⁱ Full gene name according to HGNC.	F-box protein 42
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.	3

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.	Glandular & Luminal cells - Unknown function (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.	0.36
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

FBXO42 is part of cluster 37 Glandular & Luminal cells - Unknown function with confidenceⁱ 1
334 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.
FNBP4	Formin binding protein 4	0.5316	55
ABI1	Abl interactor 1	0.4652	47
KHDC4	KH domain containing 4, pre-mRNA splicing factor	0.4642	55
HERC4	HECT and RLD domain containing E3 ubiquitin protein ligase 4	0.4639	34
MARK1	Microtubule affinity regulating kinase 1	0.4575	8
FBXL20	F-box and leucine rich repeat protein 20	0.4508	65
PUM1	Pumilio RNA binding family member 1	0.4506	37
ZNF611	Zinc finger protein 611	0.4487	37
ZNF292	Zinc finger protein 292	0.4470	55
HIVEP2	HIVEP zinc finger 2	0.4343	34
ATP6V1H	ATPase H+ transporting V1 subunit H	0.4334	37
PAPSS1	3'-phosphoadenosine 5'-phosphosulfate synthase 1	0.4316	37
KMT2C	Lysine methyltransferase 2C	0.4305	55
SNX9	Sorting nexin 9	0.4256	37
ZNF589	Zinc finger protein 589	0.4254	37

IMMUNE CELLS

FBXO42 is part of cluster 10 Non-specific - Membrane trafficking with confidenceⁱ 0.91
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.
SLC25A11	Solute carrier family 25 member 11	0.9762	10
ATP6V1D	ATPase H+ transporting V1 subunit D	0.9524	37
SLC43A3	Solute carrier family 43 member 3	0.9524	10
COX7B	Cytochrome c oxidase subunit 7B	0.9524	10
NAGA	Alpha-N-acetylgalactosaminidase	0.9286	10
SEPTIN2	Septin 2	0.9286	10
ATP5F1C	ATP synthase F1 subunit gamma	0.9286	33
MFSD11	Major facilitator superfamily domain containing 11	0.9286	33
SNAP29	Synaptosome associated protein 29	0.9286	10
MVB12A	Multivesicular body subunit 12A	0.9286	10
EMC7	ER membrane protein complex subunit 7	0.9286	10
ACLY	ATP citrate lyase	0.9286	37
COPS7A	COP9 signalosome subunit 7A	0.9048	42
RNF7	Ring finger protein 7	0.9048	10
M6PR	Mannose-6-phosphate receptor, cation dependent	0.9048	42

Adipocytes	8.6 nTPM
Adipose tissue	9.5 nTPM
Breast	7.8 nTPM

Alveolar cells type 1	10.5 nTPM
Lung	10.5 nTPM

Alveolar cells type 2	10.4 nTPM
Lung	10.4 nTPM

Astrocytes	44.6 nTPM
Brain	44.6 nTPM

B-cells	18.9 nTPM
Esophagus	41.3 nTPM
Lymph node	24.7 nTPM
PBMC	21.6 nTPM
Thymus	20.0 nTPM
Stomach	19.4 nTPM
Salivary gland	17.1 nTPM
Adipose tissue	16.9 nTPM
Kidney	15.6 nTPM
Spleen	15.0 nTPM
Liver	14.5 nTPM
Skin	13.6 nTPM
Bone marrow	13.4 nTPM
Lung	12.1 nTPM

Ciliated cells	13.0 nTPM
Endometrium	19.5 nTPM
Lung	14.3 nTPM
Bronchus	10.1 nTPM
Fallopian tube	8.2 nTPM

Club cells	13.3 nTPM
Bronchus	13.9 nTPM
Lung	13.4 nTPM
Prostate	12.7 nTPM

Dendritic cells	24.2 nTPM
Adipose tissue	26.8 nTPM
PBMC	21.6 nTPM

Endothelial cells	10.2 nTPM
Heart muscle	15.5 nTPM
Prostate	15.0 nTPM
Skeletal muscle	14.5 nTPM
Salivary gland	14.3 nTPM
Ovary	13.0 nTPM
Esophagus	11.7 nTPM
Endometrium	10.6 nTPM
Tongue	10.4 nTPM
Vascular	10.4 nTPM
Thymus	10.2 nTPM
Testis	10.1 nTPM
Skin	8.3 nTPM
Pancreas	7.8 nTPM
Liver	7.6 nTPM
Lung	7.1 nTPM
Placenta	6.8 nTPM
Fallopian tube	6.2 nTPM
Breast	3.5 nTPM

Enteroendocrine cells	5.2 nTPM
Rectum	8.4 nTPM
Colon	7.2 nTPM
Small intestine	0.0 nTPM

Fibroblasts	14.8 nTPM
Adipose tissue	26.0 nTPM
Skeletal muscle	21.2 nTPM
Vascular	20.2 nTPM
Thymus	20.0 nTPM
Esophagus	18.0 nTPM
Salivary gland	16.9 nTPM
Skin	15.6 nTPM
Stomach	14.4 nTPM
Liver	14.2 nTPM
Fallopian tube	14.2 nTPM
Prostate	13.9 nTPM
Placenta	10.1 nTPM
Breast	9.8 nTPM
Heart muscle	8.8 nTPM
Pancreas	7.7 nTPM
Lung	5.8 nTPM

Granulocytes	11.8 nTPM
Tongue	14.6 nTPM
Lung	11.6 nTPM
Fallopian tube	9.4 nTPM

Intestinal goblet cells	6.2 nTPM
Rectum	7.5 nTPM
Colon	6.6 nTPM
Small intestine	4.5 nTPM

Lymphatic endothelial cells	11.3 nTPM
Ovary	16.4 nTPM
Fallopian tube	6.2 nTPM

Macrophages	15.1 nTPM
Lung	24.9 nTPM
Tongue	22.4 nTPM
Salivary gland	20.2 nTPM
Skeletal muscle	18.2 nTPM
Stomach	18.0 nTPM
Adipose tissue	17.2 nTPM
Bone marrow	17.2 nTPM
Thymus	15.9 nTPM
Prostate	15.7 nTPM
Fallopian tube	14.6 nTPM
Endometrium	13.5 nTPM
Vascular	13.2 nTPM
Pancreas	12.3 nTPM
Skin	12.3 nTPM
Spleen	12.0 nTPM
Testis	11.2 nTPM
Breast	10.9 nTPM
Esophagus	9.0 nTPM
Kidney	8.9 nTPM

Basal keratinocytes	19.2 nTPM
Skin	22.7 nTPM
Tongue	15.8 nTPM

Basal respiratory cells	12.9 nTPM
Bronchus	12.9 nTPM

Basal squamous epithelial cells	20.4 nTPM
Esophagus	20.4 nTPM

Cholangiocytes	15.3 nTPM
Liver	15.3 nTPM

Paneth cells	11.1 nTPM
Rectum	12.1 nTPM
Colon	10.9 nTPM
Small intestine	10.4 nTPM

Plasma cells	14.1 nTPM
Stomach	21.4 nTPM
Thymus	16.0 nTPM
Esophagus	15.6 nTPM
Spleen	15.4 nTPM
Bone marrow	15.1 nTPM
Liver	11.5 nTPM
Salivary gland	9.8 nTPM
Fallopian tube	8.0 nTPM

Schwann cells	10.1 nTPM
Adipose tissue	21.5 nTPM
Vascular	8.9 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	12.7 nTPM
Salivary gland	16.7 nTPM
Tongue	8.8 nTPM

Smooth muscle cells	13.6 nTPM
Vascular	20.5 nTPM
Prostate	18.2 nTPM
Thymus	17.9 nTPM
Ovary	16.4 nTPM
Esophagus	15.6 nTPM
Salivary gland	15.0 nTPM
Endometrium	13.6 nTPM
Tongue	13.5 nTPM
Adipose tissue	12.7 nTPM
Fallopian tube	12.5 nTPM
Skin	11.8 nTPM
Placenta	11.3 nTPM
Skeletal muscle	11.0 nTPM
Breast	10.5 nTPM
Liver	9.8 nTPM
Lung	7.1 nTPM

Suprabasal keratinocytes	28.1 nTPM
Skin	35.1 nTPM
Tongue	21.2 nTPM

T-cells	16.6 nTPM
PBMC	24.6 nTPM
Thymus	21.7 nTPM
Lymph node	21.6 nTPM
Salivary gland	20.1 nTPM
Bone marrow	19.8 nTPM
Skeletal muscle	19.7 nTPM
Stomach	19.5 nTPM
Adipose tissue	18.5 nTPM
Spleen	17.8 nTPM
Vascular	16.5 nTPM
Tongue	16.1 nTPM
Kidney	16.0 nTPM
Prostate	14.9 nTPM
Endometrium	14.8 nTPM
Breast	14.5 nTPM
Lung	13.9 nTPM
Fallopian tube	13.6 nTPM
Esophagus	12.2 nTPM
Skin	11.9 nTPM
Liver	10.8 nTPM
Colon	9.7 nTPM

Undifferentiated cells	8.4 nTPM
Rectum	9.2 nTPM
Small intestine	8.9 nTPM
Colon	7.0 nTPM

Amygdala excitatory	118.2 nTPM
Hypothalamus	152.6 nTPM
Thalamus	122.1 nTPM
Amygdala	118.9 nTPM
Basal ganglia	112.1 nTPM
Cerebral cortex	104.7 nTPM
Hippocampus	98.9 nTPM

Astrocyte	108.0 nTPM
Amygdala	134.0 nTPM
Hypothalamus	126.8 nTPM
Spinal cord	113.3 nTPM
Basal ganglia	107.8 nTPM
Hippocampus	106.1 nTPM
Thalamus	102.4 nTPM
Cerebral cortex	100.6 nTPM
Cerebellum	99.6 nTPM
Midbrain	99.6 nTPM
Pons	98.9 nTPM
Medulla oblongata	98.7 nTPM

Bergmann glia	98.3 nTPM
Medulla oblongata	130.0 nTPM
Cerebellum	101.7 nTPM
Pons	63.3 nTPM

Central nervous system macrophage	126.9 nTPM
Hypothalamus	147.1 nTPM
Amygdala	145.2 nTPM
Hippocampus	130.5 nTPM
Cerebellum	128.3 nTPM
Cerebral cortex	124.2 nTPM
Pons	124.0 nTPM
Midbrain	123.8 nTPM
Basal ganglia	122.2 nTPM
Thalamus	121.3 nTPM
Spinal cord	121.0 nTPM
Medulla oblongata	108.8 nTPM

Cerebellar inhibitory	107.6 nTPM
Cerebellum	118.2 nTPM
Spinal cord	118.2 nTPM
Medulla oblongata	112.3 nTPM
Midbrain	94.6 nTPM
Pons	94.6 nTPM

Cge interneuron	105.9 nTPM
Hypothalamus	150.7 nTPM
Amygdala	121.5 nTPM
Cerebral cortex	100.2 nTPM
Basal ganglia	96.2 nTPM
Hippocampus	93.2 nTPM
Thalamus	90.4 nTPM
Midbrain	89.4 nTPM

Choroid plexus epithelial cell	106.0 nTPM
Basal ganglia	179.4 nTPM
Medulla oblongata	117.8 nTPM
Thalamus	65.8 nTPM
Hippocampus	61.0 nTPM

Committed oligodendrocyte precursor	95.0 nTPM
Hypothalamus	145.4 nTPM
Amygdala	116.7 nTPM
Thalamus	107.4 nTPM
Cerebral cortex	102.6 nTPM
Hippocampus	96.0 nTPM
Basal ganglia	89.2 nTPM
Midbrain	88.2 nTPM
Medulla oblongata	80.0 nTPM
Pons	77.0 nTPM
Cerebellum	72.9 nTPM
Spinal cord	69.9 nTPM

Deep-layer corticothalamic and 6b	118.6 nTPM
Hypothalamus	156.4 nTPM
Amygdala	125.2 nTPM
Cerebral cortex	116.5 nTPM
Basal ganglia	110.5 nTPM
Hippocampus	109.6 nTPM
Midbrain	93.2 nTPM

Deep-layer intratelencephalic	121.2 nTPM
Hypothalamus	168.0 nTPM
Amygdala	115.5 nTPM
Hippocampus	108.5 nTPM
Cerebral cortex	108.4 nTPM
Basal ganglia	105.4 nTPM

Deep-layer near-projecting	118.4 nTPM
Hypothalamus	160.1 nTPM
Amygdala	126.2 nTPM
Cerebral cortex	106.8 nTPM
Basal ganglia	102.9 nTPM
Hippocampus	95.9 nTPM

Eccentric medium spiny neuron	111.6 nTPM
Amygdala	119.9 nTPM
Hippocampus	116.1 nTPM
Hypothalamus	112.3 nTPM
Cerebral cortex	110.4 nTPM
Thalamus	108.3 nTPM
Basal ganglia	102.7 nTPM