Single cell type - NUCB2 - The Human Protein Atlas

NUCB2

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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.	NUCB2
Gene descriptionⁱ Full gene name according to HGNC.	Nucleobindin 2
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Cancer-related genes Plasma 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.	Secreted, Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	12

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.	Serous glandular cells - Salivary secretion (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 (Syncytiotrophoblasts, Serous glandular cells, Early spermatids, Late 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.	0.41
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.	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
Extracellular locationⁱ A possible secretion of the protein was predicted based on N-terminal signal sequence (signal peptide) predictions and transmembrane region predictions, and subsequently annotated for its local or systemic secretion based on literature, function, and protein and RNA expression data.	Protein predicted to be secreted

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 (Syncytiotrophoblasts, Serous glandular cells, Early spermatids, Late 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

NUCB2 is part of cluster 75 Serous glandular cells - Salivary secretion with confidenceⁱ 1
145 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.
TMED3	Transmembrane p24 trafficking protein 3	0.7454	75
MCFD2	Multiple coagulation factor deficiency 2, ER cargo receptor complex subunit	0.7410	75
HDLBP	High density lipoprotein binding protein	0.7108	77
ZG16B	Zymogen granule protein 16B	0.6814	75
BPIFA2	BPI fold containing family A member 2	0.6783	75
CA6	Carbonic anhydrase 6	0.6743	75
LPO	Lactoperoxidase	0.6725	75
PRR27	Proline rich 27	0.6696	75
STATH	Statherin	0.6670	75
SMR3B	Submaxillary gland androgen regulated protein 3B	0.6664	75
PRB2	Proline rich protein BstNI subfamily 2	0.6615	75
PRH1	Proline rich protein HaeIII subfamily 1	0.6606	75
RNASE8	Ribonuclease A family member 8	0.6584	75
PRH2	Proline rich protein HaeIII subfamily 2	0.6532	75
HTN1	Histatin 1	0.6523	75

IMMUNE CELLS

NUCB2 is part of cluster 30 Non-specific - DNA binding with confidenceⁱ 0.99
263 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.
FBXL22	F-box and leucine rich repeat protein 22	1.0000	30
C8orf88	Chromosome 8 open reading frame 88	0.9762	30
CEP250	Centrosomal protein 250	0.9762	30
CYP2J2	Cytochrome P450 family 2 subfamily J member 2	0.9762	30
PPT2	Palmitoyl-protein thioesterase 2	0.9762	30
NT5C1B	5'-nucleotidase, cytosolic IB	0.9762	30
C5orf34	Chromosome 5 open reading frame 34	0.9762	30
TSPYL2	TSPY like 2	0.9762	30
TM7SF2	Transmembrane 7 superfamily member 2	0.9524	30
NKAPD1	NKAP domain containing 1	0.9524	30
GRAMD2B	GRAM domain containing 2B	0.9524	30
TMIGD2	Transmembrane and immunoglobulin domain containing 2	0.9524	30
ELAPOR2	Endosome-lysosome associated apoptosis and autophagy regulator family member 2	0.9286	30
RBIS	Ribosomal biogenesis factor	0.9286	30
PTPRM	Protein tyrosine phosphatase receptor type M	0.9286	30

Adipocytes	110.3 nTPM
Breast	119.6 nTPM
Adipose tissue	101.0 nTPM

Alveolar cells type 1	69.4 nTPM
Lung	69.4 nTPM

Alveolar cells type 2	145.2 nTPM
Lung	145.2 nTPM

Astrocytes	15.5 nTPM
Brain	15.5 nTPM

B-cells	32.0 nTPM
Adipose tissue	94.6 nTPM
Lung	80.5 nTPM
Skin	57.6 nTPM
Salivary gland	51.2 nTPM
Kidney	31.2 nTPM
Liver	29.0 nTPM
PBMC	15.4 nTPM
Spleen	12.4 nTPM
Esophagus	11.8 nTPM
Thymus	11.2 nTPM
Lymph node	8.8 nTPM
Bone marrow	7.2 nTPM
Stomach	5.5 nTPM

Ciliated cells	344.9 nTPM
Lung	564.2 nTPM
Bronchus	390.8 nTPM
Fallopian tube	309.0 nTPM
Endometrium	115.6 nTPM

Club cells	208.6 nTPM
Lung	356.4 nTPM
Bronchus	175.6 nTPM
Prostate	93.7 nTPM

Dendritic cells	200.8 nTPM
PBMC	223.0 nTPM
Adipose tissue	178.5 nTPM

Endothelial cells	113.2 nTPM
Heart muscle	218.1 nTPM
Lung	188.3 nTPM
Salivary gland	139.5 nTPM
Prostate	128.3 nTPM
Ovary	126.5 nTPM
Placenta	126.0 nTPM
Skeletal muscle	119.1 nTPM
Liver	118.4 nTPM
Vascular	117.3 nTPM
Testis	115.7 nTPM
Thymus	108.9 nTPM
Endometrium	104.7 nTPM
Fallopian tube	100.9 nTPM
Tongue	86.3 nTPM
Breast	74.7 nTPM
Pancreas	59.5 nTPM
Skin	53.6 nTPM
Esophagus	51.7 nTPM

Enteroendocrine cells	30.6 nTPM
Colon	39.4 nTPM
Rectum	31.9 nTPM
Small intestine	20.6 nTPM

Erythroid cells	134.0 nTPM
Bone marrow	142.2 nTPM
Liver	125.9 nTPM

Fibroblasts	146.3 nTPM
Heart muscle	336.3 nTPM
Lung	198.8 nTPM
Skeletal muscle	188.8 nTPM
Fallopian tube	188.4 nTPM
Vascular	163.0 nTPM
Pancreas	156.1 nTPM
Prostate	148.5 nTPM
Adipose tissue	127.0 nTPM
Skin	121.3 nTPM
Breast	120.3 nTPM
Esophagus	113.3 nTPM
Thymus	110.0 nTPM
Liver	106.7 nTPM
Salivary gland	97.4 nTPM
Stomach	89.3 nTPM
Placenta	75.8 nTPM

Granulocytes	61.4 nTPM
Lung	69.1 nTPM
Fallopian tube	66.7 nTPM
Tongue	48.5 nTPM

Intestinal goblet cells	154.2 nTPM
Colon	297.2 nTPM
Rectum	93.5 nTPM
Small intestine	71.7 nTPM

Lymphatic endothelial cells	49.6 nTPM
Fallopian tube	66.4 nTPM
Ovary	32.7 nTPM

Basal keratinocytes	58.4 nTPM
Tongue	93.0 nTPM
Skin	23.7 nTPM

Basal prostatic cells	354.6 nTPM
Prostate	354.6 nTPM

Basal respiratory cells	162.5 nTPM
Bronchus	162.5 nTPM

Basal squamous epithelial cells	17.7 nTPM
Esophagus	17.7 nTPM

Macrophages	45.9 nTPM
Salivary gland	165.4 nTPM
Thymus	78.1 nTPM
Endometrium	68.3 nTPM
Prostate	62.9 nTPM
Lung	47.6 nTPM
Tongue	44.7 nTPM
Vascular	44.4 nTPM
Stomach	43.7 nTPM
Pancreas	43.2 nTPM
Skeletal muscle	41.2 nTPM
Fallopian tube	40.6 nTPM
Breast	39.0 nTPM
Adipose tissue	34.1 nTPM
Bone marrow	26.4 nTPM
Spleen	22.1 nTPM
Skin	21.2 nTPM
Esophagus	18.0 nTPM
Testis	17.4 nTPM
Kidney	13.3 nTPM

Paneth cells	15.3 nTPM
Rectum	27.9 nTPM
Colon	18.1 nTPM
Small intestine	0.0 nTPM

Plasma cells	371.7 nTPM
Fallopian tube	829.8 nTPM
Salivary gland	559.6 nTPM
Stomach	398.3 nTPM
Thymus	282.8 nTPM
Esophagus	270.3 nTPM
Liver	257.9 nTPM
Spleen	213.6 nTPM
Bone marrow	161.6 nTPM

Schwann cells	15.3 nTPM
Vascular	39.7 nTPM
Adipose tissue	6.2 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	1178.3 nTPM
Salivary gland	1693.7 nTPM
Tongue	662.9 nTPM

Smooth muscle cells	107.3 nTPM
Salivary gland	449.2 nTPM
Placenta	224.8 nTPM
Prostate	135.6 nTPM
Vascular	119.9 nTPM
Liver	113.8 nTPM
Fallopian tube	97.7 nTPM
Endometrium	71.5 nTPM
Skeletal muscle	71.2 nTPM
Tongue	70.4 nTPM
Ovary	66.0 nTPM
Lung	62.3 nTPM
Thymus	59.7 nTPM
Breast	54.9 nTPM
Adipose tissue	53.0 nTPM
Skin	41.7 nTPM
Esophagus	25.2 nTPM

Suprabasal keratinocytes	445.1 nTPM
Tongue	860.9 nTPM
Skin	29.3 nTPM

T-cells	99.4 nTPM
Salivary gland	206.2 nTPM
PBMC	171.5 nTPM
Prostate	158.6 nTPM
Liver	141.5 nTPM
Lung	131.1 nTPM
Thymus	130.7 nTPM
Kidney	130.3 nTPM
Endometrium	103.8 nTPM
Fallopian tube	101.2 nTPM
Skeletal muscle	97.9 nTPM
Lymph node	94.9 nTPM
Spleen	82.3 nTPM
Vascular	74.8 nTPM
Bone marrow	74.6 nTPM
Breast	73.7 nTPM
Colon	71.2 nTPM
Tongue	61.8 nTPM
Adipose tissue	54.0 nTPM
Stomach	52.5 nTPM
Esophagus	43.8 nTPM
Skin	31.9 nTPM

Undifferentiated cells	70.0 nTPM
Colon	91.9 nTPM
Rectum	73.7 nTPM
Small intestine	44.5 nTPM

Amygdala excitatory	82.4 nTPM
Thalamus	103.0 nTPM
Hypothalamus	84.8 nTPM
Hippocampus	83.0 nTPM
Amygdala	78.7 nTPM
Basal ganglia	76.0 nTPM
Cerebral cortex	69.1 nTPM

Astrocyte	47.5 nTPM
Amygdala	65.5 nTPM
Hypothalamus	52.7 nTPM
Basal ganglia	50.1 nTPM
Spinal cord	46.7 nTPM
Medulla oblongata	46.1 nTPM
Hippocampus	45.7 nTPM
Midbrain	44.6 nTPM
Cerebral cortex	43.3 nTPM
Cerebellum	43.2 nTPM
Thalamus	42.8 nTPM
Pons	41.9 nTPM

Bergmann glia	54.4 nTPM
Cerebellum	64.4 nTPM
Pons	56.1 nTPM
Medulla oblongata	42.6 nTPM

Central nervous system macrophage	17.7 nTPM
Amygdala	21.6 nTPM
Thalamus	19.8 nTPM
Hypothalamus	19.2 nTPM
Cerebellum	18.2 nTPM
Basal ganglia	18.1 nTPM
Midbrain	17.4 nTPM
Pons	17.2 nTPM
Medulla oblongata	17.0 nTPM
Cerebral cortex	16.9 nTPM
Hippocampus	16.2 nTPM
Spinal cord	13.2 nTPM

Cerebellar inhibitory	80.9 nTPM
Spinal cord	96.2 nTPM
Medulla oblongata	81.8 nTPM
Midbrain	80.9 nTPM
Cerebellum	80.5 nTPM
Pons	65.1 nTPM

Cge interneuron	65.4 nTPM
Basal ganglia	71.2 nTPM
Midbrain	66.6 nTPM
Amygdala	66.4 nTPM
Hypothalamus	65.0 nTPM
Thalamus	63.9 nTPM
Hippocampus	63.2 nTPM
Cerebral cortex	61.2 nTPM

Choroid plexus epithelial cell	93.9 nTPM
Basal ganglia	132.3 nTPM
Hippocampus	91.5 nTPM
Thalamus	85.0 nTPM
Medulla oblongata	67.0 nTPM

Committed oligodendrocyte precursor	33.0 nTPM
Medulla oblongata	55.5 nTPM
Basal ganglia	37.2 nTPM
Pons	36.3 nTPM
Thalamus	35.1 nTPM
Hypothalamus	34.1 nTPM
Cerebellum	31.7 nTPM
Midbrain	29.4 nTPM
Hippocampus	29.2 nTPM
Amygdala	26.5 nTPM
Cerebral cortex	26.0 nTPM
Spinal cord	22.1 nTPM

Deep-layer corticothalamic and 6b	60.0 nTPM
Hypothalamus	64.1 nTPM
Amygdala	63.2 nTPM
Hippocampus	61.6 nTPM
Midbrain	59.9 nTPM
Basal ganglia	55.8 nTPM
Cerebral cortex	55.3 nTPM

Deep-layer intratelencephalic	56.9 nTPM
Amygdala	63.3 nTPM
Hypothalamus	59.1 nTPM
Hippocampus	58.6 nTPM
Basal ganglia	54.3 nTPM
Cerebral cortex	49.1 nTPM

Deep-layer near-projecting	57.3 nTPM
Hippocampus	63.4 nTPM
Hypothalamus	61.0 nTPM
Basal ganglia	56.6 nTPM
Cerebral cortex	55.6 nTPM
Amygdala	50.0 nTPM