Single cell type - AP5B1 - The Human Protein Atlas

AP5B1

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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.	AP5B1
Gene descriptionⁱ Full gene name according to HGNC.	Adaptor related protein complex 5 subunit beta 1
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.	Macrophages - Innate immune response (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.	0.41
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.	Immune cell enriched (neutrophil)
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: Immune cell enriched (neutrophil)
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

AP5B1 is part of cluster 58 Macrophages - Innate immune response with confidenceⁱ 1
420 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.
TREM1	Triggering receptor expressed on myeloid cells 1	0.8835	58
ADGRE3	Adhesion G protein-coupled receptor E3	0.8809	58
RETN	Resistin	0.8744	58
NLRC4	NLR family CARD domain containing 4	0.8700	58
NCF2	Neutrophil cytosolic factor 2	0.8606	58
SLC11A1	Solute carrier family 11 member 1	0.8565	58
MCEMP1	Mast cell expressed membrane protein 1	0.7994	58
LILRB3	Leukocyte immunoglobulin like receptor B3	0.7332	74
ALOX5AP	Arachidonate 5-lipoxygenase activating protein	0.7314	58
ABHD5	Abhydrolase domain containing 5, lysophosphatidic acid acyltransferase	0.7296	74
SIRPB1	Signal regulatory protein beta 1	0.7273	74
RNF149	Ring finger protein 149	0.7230	74
CHIT1	Chitinase 1	0.7182	58
AGRP	Agouti related neuropeptide	0.7165	58
DCSTAMP	Dendrocyte expressed seven transmembrane protein	0.7088	58

IMMUNE CELLS

AP5B1 is part of cluster 35 Neutrophils - Protein binding with confidenceⁱ 0.99
504 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.
CLP1	Cleavage factor polyribonucleotide kinase subunit 1	1.0000	35
PHC2	Polyhomeotic homolog 2	1.0000	35
FGF13	Fibroblast growth factor 13	0.9762	35
CSNK1A1L	Casein kinase 1 alpha 1 like	0.9762	35
ARID3B	AT-rich interaction domain 3B	0.9762	35
CXCR1	C-X-C motif chemokine receptor 1	0.9762	35
SYNJ1	Synaptojanin 1	0.9762	35
ACSL1	Acyl-CoA synthetase long chain family member 1	0.9762	4
ARL3	ADP ribosylation factor like GTPase 3	0.9762	4
NIBAN1	Niban apoptosis regulator 1	0.9762	35
ST6GALNAC2	ST6 N-acetylgalactosaminide alpha-2,6-sialyltransferase 2	0.9762	4
NQO2	N-ribosyldihydronicotinamide:quinone reductase 2	0.9762	28
HGD	Homogentisate 1,2-dioxygenase	0.9762	28
PTP4A1	Protein tyrosine phosphatase 4A1	0.9762	35
AQP9	Aquaporin 9	0.9762	4

Adipocytes	4.4 nTPM
Adipose tissue	5.5 nTPM
Breast	3.2 nTPM

Alveolar cells type 1	21.4 nTPM
Lung	21.4 nTPM

Alveolar cells type 2	19.0 nTPM
Lung	19.0 nTPM

Astrocytes	5.9 nTPM
Brain	5.9 nTPM

B-cells	7.8 nTPM
Lung	22.8 nTPM
Salivary gland	13.9 nTPM
Thymus	12.2 nTPM
Liver	9.7 nTPM
PBMC	9.2 nTPM
Esophagus	5.9 nTPM
Spleen	5.5 nTPM
Kidney	5.2 nTPM
Adipose tissue	4.9 nTPM
Bone marrow	4.1 nTPM
Lymph node	3.6 nTPM
Stomach	3.0 nTPM
Skin	1.7 nTPM

Ciliated cells	8.8 nTPM
Endometrium	12.9 nTPM
Lung	9.0 nTPM
Bronchus	8.2 nTPM
Fallopian tube	5.3 nTPM

Club cells	13.5 nTPM
Lung	17.0 nTPM
Bronchus	12.9 nTPM
Prostate	10.5 nTPM

Endothelial cells	5.5 nTPM
Pancreas	10.3 nTPM
Lung	10.3 nTPM
Endometrium	8.8 nTPM
Tongue	8.4 nTPM
Prostate	7.7 nTPM
Salivary gland	7.1 nTPM
Fallopian tube	6.3 nTPM
Esophagus	6.0 nTPM
Vascular	5.7 nTPM
Thymus	5.6 nTPM
Skeletal muscle	4.8 nTPM
Liver	3.8 nTPM
Breast	3.5 nTPM
Placenta	3.4 nTPM
Skin	2.9 nTPM
Testis	2.7 nTPM
Ovary	2.1 nTPM
Heart muscle	0.1 nTPM

Enteroendocrine cells	4.9 nTPM
Rectum	6.7 nTPM
Colon	4.7 nTPM
Small intestine	3.4 nTPM

Fibroblasts	7.0 nTPM
Salivary gland	14.3 nTPM
Thymus	14.2 nTPM
Lung	13.4 nTPM
Vascular	10.7 nTPM
Adipose tissue	8.8 nTPM
Skeletal muscle	8.6 nTPM
Pancreas	6.2 nTPM
Placenta	6.0 nTPM
Prostate	5.9 nTPM
Fallopian tube	5.4 nTPM
Skin	4.5 nTPM
Breast	3.0 nTPM
Esophagus	2.9 nTPM
Stomach	2.9 nTPM
Liver	2.4 nTPM
Heart muscle	2.2 nTPM

Granulocytes	14.7 nTPM
Tongue	24.3 nTPM
Lung	13.1 nTPM
Fallopian tube	6.7 nTPM

Intestinal goblet cells	5.8 nTPM
Small intestine	8.7 nTPM
Rectum	4.8 nTPM
Colon	3.9 nTPM

Lymphatic endothelial cells	6.4 nTPM
Fallopian tube	7.3 nTPM
Ovary	5.5 nTPM

Macrophages	23.3 nTPM
Lung	107.6 nTPM
Pancreas	51.4 nTPM
Stomach	28.3 nTPM
Skeletal muscle	27.9 nTPM
Fallopian tube	27.2 nTPM
Salivary gland	24.3 nTPM
Thymus	21.0 nTPM
Prostate	18.6 nTPM
Tongue	18.0 nTPM
Adipose tissue	17.8 nTPM
Endometrium	16.6 nTPM
Kidney	15.9 nTPM
Spleen	15.0 nTPM
Vascular	13.5 nTPM
Bone marrow	12.2 nTPM
Skin	10.0 nTPM
Testis	8.7 nTPM
Breast	7.3 nTPM
Esophagus	1.3 nTPM

Paneth cells	6.8 nTPM
Rectum	9.7 nTPM
Colon	7.2 nTPM
Small intestine	3.5 nTPM

Basal prostatic cells	21.1 nTPM
Prostate	21.1 nTPM

Cone photoreceptor cells	13.6 nTPM
Eye	13.6 nTPM

Distal tubular cells	6.1 nTPM
Kidney	6.1 nTPM

Plasma cells	7.1 nTPM
Salivary gland	11.6 nTPM
Thymus	10.6 nTPM
Fallopian tube	10.3 nTPM
Liver	8.0 nTPM
Bone marrow	6.0 nTPM
Stomach	5.4 nTPM
Spleen	4.6 nTPM
Esophagus	0.0 nTPM

Schwann cells	6.8 nTPM
Adipose tissue	14.1 nTPM
Vascular	6.3 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	20.3 nTPM
Salivary gland	23.0 nTPM
Tongue	17.7 nTPM

Smooth muscle cells	7.0 nTPM
Salivary gland	14.2 nTPM
Lung	14.1 nTPM
Tongue	12.9 nTPM
Prostate	10.3 nTPM
Thymus	10.2 nTPM
Adipose tissue	9.6 nTPM
Vascular	9.5 nTPM
Endometrium	5.3 nTPM
Placenta	4.8 nTPM
Skeletal muscle	4.8 nTPM
Fallopian tube	4.6 nTPM
Breast	3.2 nTPM
Ovary	3.1 nTPM
Liver	3.0 nTPM
Esophagus	1.2 nTPM
Skin	1.1 nTPM

Suprabasal keratinocytes	18.2 nTPM
Tongue	32.7 nTPM
Skin	3.8 nTPM

T-cells	8.1 nTPM
Tongue	14.6 nTPM
Thymus	12.9 nTPM
Prostate	12.4 nTPM
Salivary gland	11.7 nTPM
Lung	11.6 nTPM
Endometrium	9.9 nTPM
Vascular	9.6 nTPM
PBMC	9.3 nTPM
Kidney	8.0 nTPM
Colon	7.8 nTPM
Liver	7.8 nTPM
Breast	7.7 nTPM
Skeletal muscle	7.2 nTPM
Adipose tissue	7.2 nTPM
Stomach	7.0 nTPM
Skin	6.0 nTPM
Fallopian tube	5.7 nTPM
Bone marrow	5.5 nTPM
Spleen	4.4 nTPM
Lymph node	3.2 nTPM
Esophagus	0.0 nTPM

Undifferentiated cells	5.1 nTPM
Colon	6.5 nTPM
Rectum	4.8 nTPM
Small intestine	4.1 nTPM

Amygdala excitatory	10.2 nTPM
Hypothalamus	18.0 nTPM
Amygdala	11.9 nTPM
Hippocampus	9.6 nTPM
Cerebral cortex	8.9 nTPM
Basal ganglia	8.0 nTPM
Thalamus	4.5 nTPM

Astrocyte	9.8 nTPM
Cerebellum	13.6 nTPM
Spinal cord	11.0 nTPM
Amygdala	10.5 nTPM
Midbrain	10.4 nTPM
Hypothalamus	9.3 nTPM
Medulla oblongata	9.3 nTPM
Hippocampus	9.0 nTPM
Basal ganglia	8.8 nTPM
Cerebral cortex	8.7 nTPM
Pons	8.7 nTPM
Thalamus	8.7 nTPM

Bergmann glia	5.2 nTPM
Cerebellum	8.6 nTPM
Medulla oblongata	4.3 nTPM
Pons	2.9 nTPM

Central nervous system macrophage	8.8 nTPM
Thalamus	10.2 nTPM
Hippocampus	9.8 nTPM
Pons	9.1 nTPM
Cerebral cortex	9.0 nTPM
Basal ganglia	8.9 nTPM
Amygdala	8.8 nTPM
Hypothalamus	8.7 nTPM
Cerebellum	8.4 nTPM
Midbrain	8.4 nTPM
Medulla oblongata	8.3 nTPM
Spinal cord	7.1 nTPM

Cerebellar inhibitory	7.3 nTPM
Spinal cord	11.0 nTPM
Cerebellum	7.9 nTPM
Medulla oblongata	6.6 nTPM
Midbrain	5.9 nTPM
Pons	5.0 nTPM

Cge interneuron	6.1 nTPM
Hypothalamus	11.7 nTPM
Amygdala	6.2 nTPM
Hippocampus	5.8 nTPM
Cerebral cortex	5.7 nTPM
Basal ganglia	5.5 nTPM
Thalamus	4.1 nTPM
Midbrain	3.7 nTPM

Choroid plexus epithelial cell	5.7 nTPM
Basal ganglia	11.2 nTPM
Hippocampus	5.5 nTPM
Medulla oblongata	3.4 nTPM
Thalamus	2.7 nTPM

Committed oligodendrocyte precursor	5.1 nTPM
Cerebellum	7.9 nTPM
Hypothalamus	6.8 nTPM
Thalamus	5.9 nTPM
Amygdala	5.6 nTPM
Pons	5.3 nTPM
Cerebral cortex	5.1 nTPM
Midbrain	5.0 nTPM
Medulla oblongata	3.9 nTPM
Basal ganglia	3.8 nTPM
Spinal cord	3.7 nTPM
Hippocampus	3.4 nTPM

Deep-layer corticothalamic and 6b	11.4 nTPM
Hypothalamus	20.4 nTPM
Amygdala	11.7 nTPM
Hippocampus	10.1 nTPM
Basal ganglia	9.9 nTPM
Cerebral cortex	9.9 nTPM
Midbrain	6.7 nTPM

Deep-layer intratelencephalic	10.5 nTPM
Hypothalamus	17.8 nTPM
Amygdala	9.2 nTPM
Hippocampus	9.1 nTPM
Basal ganglia	8.1 nTPM
Cerebral cortex	8.1 nTPM

Deep-layer near-projecting	9.1 nTPM
Hypothalamus	17.1 nTPM
Amygdala	8.2 nTPM
Cerebral cortex	7.2 nTPM
Hippocampus	6.8 nTPM
Basal ganglia	6.0 nTPM

Eccentric medium spiny neuron	8.2 nTPM
Hypothalamus	9.7 nTPM
Amygdala	8.9 nTPM
Hippocampus	8.7 nTPM
Cerebral cortex	7.5 nTPM
Thalamus	7.2 nTPM
Basal ganglia	7.0 nTPM

Endothelial cell	4.1 nTPM
Medulla oblongata	6.2 nTPM
Cerebral cortex	5.8 nTPM
Midbrain	5.7 nTPM
Basal ganglia	5.6 nTPM
Cerebellum	5.4 nTPM
Hippocampus	5.1 nTPM
Amygdala	3.4 nTPM
Thalamus	2.8 nTPM
Hypothalamus	2.5 nTPM
Pons	2.5 nTPM
Spinal cord	0.0 nTPM