Single cell type - PLCB2 - The Human Protein Atlas

PLCB2

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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.	PLCB2
Gene descriptionⁱ Full gene name according to HGNC.	Phospholipase C beta 2
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.	Monocytes - 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.	Cell type enhanced (Monocytes, Macrophages, Kupffer cells, Microglial cells, Hofbauer cells, NK-cells, Schwann 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.	0.78
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.	Cell type enhanced (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 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 (Monocytes, Macrophages, Kupffer cells, Microglial cells, Hofbauer cells, NK-cells, Schwann 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: Cell type enhanced (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

PLCB2 is part of cluster 29 Monocytes - Innate immune response with confidenceⁱ 1
447 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.
ARHGAP4	Rho GTPase activating protein 4	0.7686	58
CCL3L1	C-C motif chemokine ligand 3 like 1	0.7122	58
PARVG	Parvin gamma	0.6976	29
IFNB1	Interferon beta 1	0.6967	29
AIF1	Allograft inflammatory factor 1	0.6926	29
ADCY7	Adenylate cyclase 7	0.6763	29
WAS	WASP actin nucleation promoting factor	0.6671	29
CARD9	Caspase recruitment domain family member 9	0.6520	29
C1orf162	Chromosome 1 open reading frame 162	0.6377	29
CCL3	C-C motif chemokine ligand 3	0.6345	58
CLEC7A	C-type lectin domain containing 7A	0.6336	29
CD300A	CD300a molecule	0.6269	29
TBXAS1	Thromboxane A synthase 1	0.6254	58
IFNA14	Interferon alpha 14	0.6177	58
OSM	Oncostatin M	0.6140	74

IMMUNE CELLS

PLCB2 is part of cluster 38 Monocytes & Neutrophils - Degranulation with confidenceⁱ 1
501 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.
DDX3X	DEAD-box helicase 3 X-linked	1.0000	38
PSMD13	Proteasome 26S subunit, non-ATPase 13	1.0000	38
SLC36A4	Solute carrier family 36 member 4	1.0000	38
ANKRD22	Ankyrin repeat domain 22	1.0000	38
COPS3	COP9 signalosome subunit 3	1.0000	38
SLC16A6	Solute carrier family 16 member 6	0.9762	28
PIK3R5	Phosphoinositide-3-kinase regulatory subunit 5	0.9762	38
NUP58	Nucleoporin 58	0.9762	38
HMGCR	3-hydroxy-3-methylglutaryl-CoA reductase	0.9762	38
HIPK3	Homeodomain interacting protein kinase 3	0.9762	38
MVP	Major vault protein	0.9762	38
MEFV	MEFV innate immuity regulator, pyrin	0.9762	38
XRN2	5'-3' exoribonuclease 2	0.9762	28
UBE2D1	Ubiquitin conjugating enzyme E2 D1	0.9762	38
METTL22	Methyltransferase 22, Kin17 lysine	0.9762	38

Adipocytes	0.8 nTPM
Breast	1.2 nTPM
Adipose tissue	0.4 nTPM

Alveolar cells type 1	0.3 nTPM
Lung	0.3 nTPM

Alveolar cells type 2	0.8 nTPM
Lung	0.8 nTPM

Astrocytes	0.3 nTPM
Brain	0.3 nTPM

B-cells	12.9 nTPM
Esophagus	23.6 nTPM
Thymus	22.1 nTPM
Skin	22.0 nTPM
Spleen	16.4 nTPM
Bone marrow	14.8 nTPM
Lymph node	12.4 nTPM
Salivary gland	12.2 nTPM
Stomach	11.8 nTPM
Lung	10.7 nTPM
Liver	9.7 nTPM
Adipose tissue	7.0 nTPM
PBMC	4.6 nTPM
Kidney	0.0 nTPM

Ciliated cells	2.2 nTPM
Lung	3.1 nTPM
Bronchus	2.9 nTPM
Fallopian tube	2.4 nTPM
Endometrium	0.4 nTPM

Club cells	1.6 nTPM
Lung	3.4 nTPM
Prostate	1.0 nTPM
Bronchus	0.3 nTPM

Dendritic cells	19.5 nTPM
Adipose tissue	21.1 nTPM
PBMC	18.0 nTPM

Endothelial cells	1.0 nTPM
Liver	6.3 nTPM
Placenta	2.8 nTPM
Salivary gland	1.4 nTPM
Lung	1.2 nTPM
Vascular	1.1 nTPM
Prostate	0.9 nTPM
Thymus	0.9 nTPM
Breast	0.9 nTPM
Skin	0.6 nTPM
Esophagus	0.5 nTPM
Fallopian tube	0.4 nTPM
Testis	0.3 nTPM
Endometrium	0.3 nTPM
Tongue	0.2 nTPM
Ovary	0.1 nTPM
Heart muscle	0.0 nTPM
Pancreas	0.0 nTPM
Skeletal muscle	0.0 nTPM

Enteroendocrine cells	0.6 nTPM
Colon	1.7 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Fibroblasts	1.5 nTPM
Placenta	12.0 nTPM
Stomach	2.9 nTPM
Salivary gland	1.3 nTPM
Lung	1.2 nTPM
Breast	1.1 nTPM
Heart muscle	1.0 nTPM
Thymus	0.8 nTPM
Esophagus	0.6 nTPM
Fallopian tube	0.6 nTPM
Pancreas	0.5 nTPM
Skin	0.4 nTPM
Skeletal muscle	0.4 nTPM
Vascular	0.4 nTPM
Adipose tissue	0.1 nTPM
Liver	0.0 nTPM
Prostate	0.0 nTPM

Granulocytes	11.3 nTPM
Lung	17.6 nTPM
Fallopian tube	16.3 nTPM
Tongue	0.0 nTPM

Intestinal goblet cells	1.6 nTPM
Rectum	3.7 nTPM
Colon	1.0 nTPM
Small intestine	0.2 nTPM

Lymphatic endothelial cells	0.2 nTPM
Fallopian tube	0.4 nTPM
Ovary	0.0 nTPM

Macrophages	43.4 nTPM
Breast	72.7 nTPM
Adipose tissue	62.3 nTPM
Fallopian tube	62.0 nTPM
Stomach	61.7 nTPM
Bone marrow	60.8 nTPM
Skeletal muscle	60.7 nTPM
Spleen	48.1 nTPM
Thymus	47.6 nTPM
Salivary gland	46.9 nTPM
Lung	45.7 nTPM
Vascular	42.5 nTPM
Kidney	38.9 nTPM
Esophagus	34.7 nTPM
Testis	34.1 nTPM
Prostate	32.1 nTPM
Endometrium	26.4 nTPM
Skin	23.4 nTPM
Tongue	13.6 nTPM
Pancreas	10.3 nTPM

Cholangiocytes	1.9 nTPM
Liver	1.9 nTPM

Collecting duct cells	1.9 nTPM
Kidney	1.9 nTPM

Paneth cells	0.5 nTPM
Rectum	1.5 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Plasma cells	2.6 nTPM
Fallopian tube	6.4 nTPM
Salivary gland	6.3 nTPM
Stomach	2.1 nTPM
Liver	2.0 nTPM
Bone marrow	1.5 nTPM
Thymus	1.3 nTPM
Spleen	1.0 nTPM
Esophagus	0.0 nTPM

Schwann cells	22.4 nTPM
Adipose tissue	67.1 nTPM
Esophagus	0.0 nTPM
Vascular	0.0 nTPM

Serous glandular cells	1.9 nTPM
Salivary gland	3.9 nTPM
Tongue	0.0 nTPM

Smooth muscle cells	0.7 nTPM
Fallopian tube	2.7 nTPM
Breast	1.9 nTPM
Placenta	1.3 nTPM
Tongue	1.2 nTPM
Salivary gland	0.9 nTPM
Endometrium	0.6 nTPM
Thymus	0.5 nTPM
Vascular	0.5 nTPM
Ovary	0.4 nTPM
Skin	0.3 nTPM
Skeletal muscle	0.2 nTPM
Adipose tissue	0.2 nTPM
Liver	0.0 nTPM
Esophagus	0.0 nTPM
Lung	0.0 nTPM
Prostate	0.0 nTPM

T-cells	19.0 nTPM
Vascular	32.6 nTPM
Thymus	32.4 nTPM
Bone marrow	29.1 nTPM
Breast	27.3 nTPM
Stomach	22.9 nTPM
Spleen	20.7 nTPM
Adipose tissue	19.1 nTPM
Skeletal muscle	18.1 nTPM
Lung	18.1 nTPM
Kidney	17.7 nTPM
Lymph node	17.6 nTPM
Liver	16.9 nTPM
Endometrium	15.9 nTPM
Salivary gland	15.8 nTPM
Skin	15.4 nTPM
PBMC	15.3 nTPM
Esophagus	14.6 nTPM
Tongue	14.6 nTPM
Fallopian tube	14.6 nTPM
Colon	11.7 nTPM
Prostate	8.9 nTPM

Undifferentiated cells	2.5 nTPM
Rectum	6.0 nTPM
Colon	1.0 nTPM
Small intestine	0.3 nTPM

Amygdala excitatory	6.6 nTPM
Cerebral cortex	7.5 nTPM
Basal ganglia	7.2 nTPM
Amygdala	6.9 nTPM
Hippocampus	6.8 nTPM
Hypothalamus	5.9 nTPM
Thalamus	5.0 nTPM

Astrocyte	1.1 nTPM
Cerebellum	2.0 nTPM
Spinal cord	2.0 nTPM
Basal ganglia	1.9 nTPM
Hippocampus	1.4 nTPM
Midbrain	1.0 nTPM
Amygdala	0.9 nTPM
Hypothalamus	0.7 nTPM
Cerebral cortex	0.6 nTPM
Medulla oblongata	0.6 nTPM
Pons	0.5 nTPM
Thalamus	0.3 nTPM

Bergmann glia	0.1 nTPM
Cerebellum	0.4 nTPM
Medulla oblongata	0.0 nTPM
Pons	0.0 nTPM

Central nervous system macrophage	125.3 nTPM
Hippocampus	169.7 nTPM
Midbrain	149.5 nTPM
Cerebellum	141.2 nTPM
Amygdala	141.0 nTPM
Cerebral cortex	134.4 nTPM
Pons	125.6 nTPM
Basal ganglia	115.1 nTPM
Spinal cord	112.2 nTPM
Thalamus	105.1 nTPM
Medulla oblongata	99.7 nTPM
Hypothalamus	85.1 nTPM

Cerebellar inhibitory	0.2 nTPM
Medulla oblongata	0.4 nTPM
Cerebellum	0.2 nTPM
Pons	0.2 nTPM
Midbrain	0.0 nTPM
Spinal cord	0.0 nTPM

Cge interneuron	2.3 nTPM
Amygdala	2.9 nTPM
Basal ganglia	2.8 nTPM
Midbrain	2.8 nTPM
Hippocampus	2.6 nTPM
Hypothalamus	2.4 nTPM
Cerebral cortex	1.8 nTPM
Thalamus	1.0 nTPM

Choroid plexus epithelial cell	0.4 nTPM
Medulla oblongata	1.0 nTPM
Basal ganglia	0.7 nTPM
Hippocampus	0.0 nTPM
Thalamus	0.0 nTPM

Committed oligodendrocyte precursor	2.6 nTPM
Basal ganglia	7.7 nTPM
Spinal cord	3.7 nTPM
Pons	3.5 nTPM
Hippocampus	3.4 nTPM
Cerebellum	3.2 nTPM
Cerebral cortex	2.5 nTPM
Amygdala	1.7 nTPM
Midbrain	1.7 nTPM
Medulla oblongata	1.3 nTPM
Thalamus	0.5 nTPM
Hypothalamus	0.0 nTPM

Deep-layer corticothalamic and 6b	8.2 nTPM
Basal ganglia	11.9 nTPM
Amygdala	11.2 nTPM
Hippocampus	8.9 nTPM
Cerebral cortex	7.9 nTPM
Hypothalamus	6.0 nTPM
Midbrain	3.3 nTPM

Deep-layer intratelencephalic	5.1 nTPM
Amygdala	7.4 nTPM
Hippocampus	5.0 nTPM
Basal ganglia	4.9 nTPM
Hypothalamus	4.5 nTPM
Cerebral cortex	3.7 nTPM

Deep-layer near-projecting	9.6 nTPM
Hypothalamus	12.0 nTPM
Basal ganglia	11.6 nTPM
Hippocampus	9.1 nTPM
Amygdala	8.2 nTPM
Cerebral cortex	7.2 nTPM

Eccentric medium spiny neuron	23.6 nTPM
Hypothalamus	32.9 nTPM
Basal ganglia	28.1 nTPM
Thalamus	26.2 nTPM
Cerebral cortex	20.9 nTPM
Amygdala	17.5 nTPM
Hippocampus	16.2 nTPM

Endothelial cell	1.6 nTPM
Hippocampus	4.5 nTPM
Basal ganglia	2.8 nTPM
Cerebellum	2.3 nTPM
Cerebral cortex	1.9 nTPM
Pons	1.9 nTPM
Hypothalamus	1.2 nTPM
Amygdala	1.1 nTPM
Midbrain	0.9 nTPM
Thalamus	0.6 nTPM
Medulla oblongata	0.0 nTPM
Spinal cord	0.0 nTPM