Single cell type - SSBP3 - The Human Protein Atlas

SSBP3

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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.	SSBP3
Gene descriptionⁱ Full gene name according to HGNC.	Single stranded DNA binding protein 3
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.	6

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.	Ovarian stromal cells - Transcription (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.	0.31
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

SSBP3 is part of cluster 6 Ovarian stromal cells - Transcription with confidenceⁱ 1
188 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.
FAM131A	Family with sequence similarity 131 member A	0.5320	71
PRRT1	Proline rich transmembrane protein 1	0.4617	25
NAXD	NAD(P)HX dehydratase	0.4509	6
PKD1	Polycystin 1, transient receptor potential channel interacting	0.4485	32
PRRT2	Proline rich transmembrane protein 2	0.4442	6
RAB26	RAB26, member RAS oncogene family	0.4366	20
KLHDC8A	Kelch domain containing 8A	0.4307	6
RCOR2	REST corepressor 2	0.4244	25
TMEM240	Transmembrane protein 240	0.4240	71
PABPC5	Poly(A) binding protein cytoplasmic 5	0.4176	6
WIPF3	WAS/WASL interacting protein family member 3	0.4166	6
MARK4	Microtubule affinity regulating kinase 4	0.4090	71
SHF	Src homology 2 domain containing F	0.4036	25
TCEAL6	Transcription elongation factor A like 6	0.3995	25
RAP1GAP	RAP1 GTPase activating protein	0.3982	16

IMMUNE CELLS

SSBP3 is part of cluster 3 Non-specific - Nuclear processes with confidenceⁱ 0.9
471 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.
MLH3	MutL homolog 3	0.9524	3
C11orf1	Chromosome 11 open reading frame 1	0.9286	3
ZNHIT3	Zinc finger HIT-type containing 3	0.9286	43
DNAJC19	DnaJ heat shock protein family (Hsp40) member C19	0.9286	3
ZNF830	Zinc finger protein 830	0.9286	43
SHISA2	Shisa family member 2	0.9286	43
TMEM177	Transmembrane protein 177	0.9286	43
WDR89	WD repeat domain 89	0.9286	43
MPP2	MAGUK p55 scaffold protein 2	0.9286	3
GSTM3	Glutathione S-transferase mu 3	0.9048	43
SNAPC1	Small nuclear RNA activating complex polypeptide 1	0.9048	24
LY9	Lymphocyte antigen 9	0.9048	11
PXYLP1	2-phosphoxylose phosphatase 1	0.9048	3
GTPBP8	GTP binding protein 8 (putative)	0.9048	3
PRRT3	Proline rich transmembrane protein 3	0.9048	43

Adipocytes	31.5 nTPM
Adipose tissue	32.8 nTPM
Breast	30.1 nTPM

Alveolar cells type 1	5.4 nTPM
Lung	5.4 nTPM

Alveolar cells type 2	10.6 nTPM
Lung	10.6 nTPM

Astrocytes	30.0 nTPM
Brain	30.0 nTPM

B-cells	9.3 nTPM
Thymus	26.8 nTPM
Lung	25.5 nTPM
Salivary gland	13.9 nTPM
Skin	13.6 nTPM
Adipose tissue	12.8 nTPM
Stomach	5.9 nTPM
Kidney	5.2 nTPM
Liver	4.8 nTPM
Lymph node	3.6 nTPM
PBMC	3.1 nTPM
Bone marrow	3.0 nTPM
Spleen	2.8 nTPM
Esophagus	0.0 nTPM

Ciliated cells	54.9 nTPM
Lung	79.1 nTPM
Endometrium	62.8 nTPM
Fallopian tube	51.9 nTPM
Bronchus	25.6 nTPM

Club cells	28.6 nTPM
Prostate	42.2 nTPM
Lung	28.7 nTPM
Bronchus	14.8 nTPM

Endothelial cells	32.7 nTPM
Breast	65.0 nTPM
Liver	45.3 nTPM
Placenta	40.3 nTPM
Ovary	37.6 nTPM
Skin	37.4 nTPM
Fallopian tube	35.9 nTPM
Prostate	34.9 nTPM
Testis	34.5 nTPM
Thymus	31.7 nTPM
Esophagus	31.6 nTPM
Endometrium	29.7 nTPM
Vascular	28.8 nTPM
Salivary gland	26.7 nTPM
Tongue	25.6 nTPM
Skeletal muscle	22.9 nTPM
Lung	22.6 nTPM
Heart muscle	19.5 nTPM
Pancreas	18.1 nTPM

Enteroendocrine cells	77.1 nTPM
Rectum	125.8 nTPM
Small intestine	75.5 nTPM
Colon	30.1 nTPM

Fibroblasts	38.3 nTPM
Prostate	72.6 nTPM
Fallopian tube	64.0 nTPM
Liver	54.6 nTPM
Breast	51.0 nTPM
Skin	47.4 nTPM
Adipose tissue	42.9 nTPM
Placenta	35.8 nTPM
Vascular	33.7 nTPM
Skeletal muscle	33.3 nTPM
Esophagus	32.9 nTPM
Salivary gland	31.0 nTPM
Pancreas	29.0 nTPM
Thymus	27.2 nTPM
Lung	24.5 nTPM
Stomach	20.2 nTPM
Heart muscle	12.8 nTPM

Granulocytes	22.7 nTPM
Lung	39.8 nTPM
Fallopian tube	28.1 nTPM
Tongue	0.0 nTPM

Intestinal goblet cells	74.9 nTPM
Rectum	101.9 nTPM
Small intestine	78.6 nTPM
Colon	44.3 nTPM

Lymphatic endothelial cells	52.4 nTPM
Fallopian tube	61.1 nTPM
Ovary	43.6 nTPM

Macrophages	22.4 nTPM
Lung	64.2 nTPM
Pancreas	30.8 nTPM
Adipose tissue	30.2 nTPM
Skeletal muscle	27.5 nTPM
Fallopian tube	25.0 nTPM
Kidney	22.1 nTPM
Endometrium	22.1 nTPM
Spleen	22.1 nTPM
Tongue	19.9 nTPM
Vascular	19.3 nTPM
Skin	18.9 nTPM
Testis	18.0 nTPM
Prostate	17.8 nTPM
Esophagus	16.7 nTPM
Thymus	15.7 nTPM
Stomach	15.4 nTPM
Breast	14.2 nTPM
Salivary gland	13.8 nTPM
Bone marrow	12.2 nTPM

Paneth cells	27.5 nTPM
Rectum	36.7 nTPM
Small intestine	24.2 nTPM
Colon	21.7 nTPM

Basal prostatic cells	49.3 nTPM
Prostate	49.3 nTPM

Basal respiratory cells	14.3 nTPM
Bronchus	14.3 nTPM

Basal squamous epithelial cells	14.4 nTPM
Esophagus	14.4 nTPM

Bipolar cells	92.0 nTPM
Eye	92.0 nTPM

Plasma cells	15.8 nTPM
Thymus	36.0 nTPM
Liver	25.0 nTPM
Salivary gland	21.0 nTPM
Spleen	15.6 nTPM
Fallopian tube	14.5 nTPM
Esophagus	5.2 nTPM
Stomach	4.6 nTPM
Bone marrow	4.5 nTPM

Schwann cells	20.1 nTPM
Vascular	42.3 nTPM
Adipose tissue	18.0 nTPM
Esophagus	0.0 nTPM

Serous glandular cells	24.1 nTPM
Salivary gland	26.1 nTPM
Tongue	22.1 nTPM

Smooth muscle cells	47.9 nTPM
Fallopian tube	78.0 nTPM
Liver	66.7 nTPM
Vascular	59.4 nTPM
Lung	58.8 nTPM
Skin	58.1 nTPM
Breast	53.6 nTPM
Thymus	52.9 nTPM
Prostate	49.3 nTPM
Salivary gland	43.1 nTPM
Tongue	43.1 nTPM
Ovary	40.1 nTPM
Skeletal muscle	38.7 nTPM
Adipose tissue	35.4 nTPM
Placenta	34.1 nTPM
Esophagus	28.8 nTPM
Endometrium	25.8 nTPM

Suprabasal keratinocytes	39.0 nTPM
Tongue	49.3 nTPM
Skin	28.7 nTPM

T-cells	20.3 nTPM
Skeletal muscle	41.6 nTPM
Lung	40.6 nTPM
PBMC	36.8 nTPM
Endometrium	26.5 nTPM
Breast	24.2 nTPM
Thymus	23.6 nTPM
Liver	21.7 nTPM
Salivary gland	21.7 nTPM
Kidney	19.5 nTPM
Vascular	18.9 nTPM
Tongue	18.6 nTPM
Adipose tissue	17.6 nTPM
Prostate	16.6 nTPM
Bone marrow	15.9 nTPM
Esophagus	14.6 nTPM
Fallopian tube	14.5 nTPM
Lymph node	14.2 nTPM
Spleen	12.2 nTPM
Colon	11.7 nTPM
Skin	8.1 nTPM
Stomach	6.6 nTPM

Undifferentiated cells	40.8 nTPM
Small intestine	51.5 nTPM
Rectum	50.2 nTPM
Colon	20.6 nTPM

Amygdala excitatory	159.7 nTPM
Hypothalamus	254.0 nTPM
Basal ganglia	191.2 nTPM
Amygdala	149.2 nTPM
Hippocampus	143.2 nTPM
Cerebral cortex	117.3 nTPM
Thalamus	103.5 nTPM

Astrocyte	67.5 nTPM
Cerebellum	89.8 nTPM
Amygdala	89.7 nTPM
Hippocampus	76.1 nTPM
Hypothalamus	74.2 nTPM
Cerebral cortex	68.6 nTPM
Spinal cord	68.3 nTPM
Medulla oblongata	63.5 nTPM
Basal ganglia	62.1 nTPM
Thalamus	54.0 nTPM
Midbrain	51.5 nTPM
Pons	45.0 nTPM

Bergmann glia	105.5 nTPM
Cerebellum	122.2 nTPM
Medulla oblongata	98.0 nTPM
Pons	96.4 nTPM

Central nervous system macrophage	65.9 nTPM
Amygdala	95.0 nTPM
Midbrain	78.2 nTPM
Hippocampus	77.5 nTPM
Cerebral cortex	72.2 nTPM
Thalamus	69.0 nTPM
Hypothalamus	66.7 nTPM
Cerebellum	66.3 nTPM
Basal ganglia	62.5 nTPM
Pons	59.3 nTPM
Medulla oblongata	42.1 nTPM
Spinal cord	35.9 nTPM

Cerebellar inhibitory	72.9 nTPM
Midbrain	88.0 nTPM
Pons	83.6 nTPM
Cerebellum	71.1 nTPM
Medulla oblongata	61.5 nTPM
Spinal cord	60.5 nTPM

Cge interneuron	83.9 nTPM
Hypothalamus	129.2 nTPM
Thalamus	88.5 nTPM
Amygdala	81.9 nTPM
Basal ganglia	78.8 nTPM
Cerebral cortex	70.5 nTPM
Midbrain	70.0 nTPM
Hippocampus	68.2 nTPM

Choroid plexus epithelial cell	108.6 nTPM
Basal ganglia	194.1 nTPM
Medulla oblongata	105.6 nTPM
Thalamus	90.4 nTPM
Hippocampus	44.4 nTPM

Committed oligodendrocyte precursor	75.2 nTPM
Hypothalamus	114.7 nTPM
Amygdala	91.3 nTPM
Thalamus	80.8 nTPM
Hippocampus	79.2 nTPM
Midbrain	79.0 nTPM
Basal ganglia	73.9 nTPM
Cerebellum	69.8 nTPM
Cerebral cortex	69.0 nTPM
Medulla oblongata	58.1 nTPM
Pons	55.8 nTPM
Spinal cord	55.2 nTPM

Deep-layer corticothalamic and 6b	248.2 nTPM
Hypothalamus	463.7 nTPM
Amygdala	268.8 nTPM
Hippocampus	228.3 nTPM
Cerebral cortex	217.1 nTPM
Basal ganglia	180.6 nTPM
Midbrain	130.9 nTPM

Deep-layer intratelencephalic	263.2 nTPM
Hypothalamus	477.8 nTPM
Hippocampus	232.8 nTPM
Amygdala	230.4 nTPM
Cerebral cortex	203.1 nTPM
Basal ganglia	171.8 nTPM

Deep-layer near-projecting	299.0 nTPM
Hypothalamus	497.6 nTPM
Amygdala	312.5 nTPM
Cerebral cortex	239.9 nTPM
Basal ganglia	227.2 nTPM
Hippocampus	217.9 nTPM

Eccentric medium spiny neuron	202.6 nTPM
Hypothalamus	261.8 nTPM
Thalamus	205.9 nTPM
Cerebral cortex	204.3 nTPM
Amygdala	194.4 nTPM
Basal ganglia	181.5 nTPM
Hippocampus	167.9 nTPM

Endothelial cell	100.0 nTPM
Basal ganglia	153.8 nTPM
Amygdala	140.8 nTPM
Hypothalamus	110.4 nTPM
Hippocampus	109.0 nTPM
Spinal cord	96.7 nTPM
Cerebellum	96.0 nTPM
Cerebral cortex	91.4 nTPM
Midbrain	86.9 nTPM
Thalamus	72.3 nTPM
Pons	71.8 nTPM
Medulla oblongata	70.8 nTPM