Single cell type - PABPN1 - The Human Protein Atlas

PABPN1

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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.	PABPN1
Gene descriptionⁱ Full gene name according to HGNC.	Poly(A) binding protein nuclear 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Disease related genes Human disease 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.	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.	Plasma cells - Immunoglobulins & histones (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.	0.34
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

PABPN1 is part of cluster 61 Plasma cells - Immunoglobulins & histones with confidenceⁱ 1
169 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.
DERPC	DERPC proline and glycine rich nuclear protein	0.8425	49
ZBED6	Zinc finger BED-type containing 6	0.8135	49
ENSG00000285304	Novel protein	0.8005	61
ENSG00000263020	Novel protein	0.7861	49
GSTM1	Glutathione S-transferase mu 1	0.7666	61
ENSG00000277836		0.7462	61
IGLV5-37	Immunoglobulin lambda variable 5-37	0.7459	61
IGHV3OR16-8	Immunoglobulin heavy variable 3/OR16-8 (non-functional)	0.7459	61
IGHV3OR15-7	Immunoglobulin heavy variable 3/OR15-7 (pseudogene)	0.7458	61
IGHV2-26	Immunoglobulin heavy variable 2-26	0.7430	61
IGLV2-33	Immunoglobulin lambda variable 2-33 (non-functional)	0.7415	61
IGHV3OR16-17	Immunoglobulin heavy variable 3/OR16-17 (non-functional)	0.7357	61
IGHV1OR15-9	Immunoglobulin heavy variable 1/OR15-9 (non-functional)	0.7347	61
IGHV1OR21-1	Immunoglobulin heavy variable 1/OR21-1 (non-functional)	0.7339	61
IGHV3OR16-12	Immunoglobulin heavy variable 3/OR16-12 (non-functional)	0.7331	61

IMMUNE CELLS

PABPN1 is part of cluster 2 Dendritic cells - Unknown function with confidenceⁱ 0.87
342 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.
MTMR9	Myotubularin related protein 9	0.9286	2
LDB1	LIM domain binding 1	0.9286	2
KLHL5	Kelch like family member 5	0.9286	2
WDFY4	WDFY family member 4	0.9286	2
AHCYL1	Adenosylhomocysteinase like 1	0.9286	2
CCDC18	Coiled-coil domain containing 18	0.9048	7
ZNF672	Zinc finger protein 672	0.9048	2
RHBDF2	Rhomboid 5 homolog 2	0.8810	2
ENSG00000288629	Novel protein	0.8810	2
TCTN1	Tectonic family member 1	0.8810	2
MLXIP	MLX interacting protein	0.8810	2
CD1A	CD1a molecule	0.8810	2
TSPAN33	Tetraspanin 33	0.8810	2
NRM	Nurim	0.8810	2
TFPI	Tissue factor pathway inhibitor	0.8810	2

Adipocytes	17.2 nTPM
Adipose tissue	22.5 nTPM
Breast	12.0 nTPM

Alveolar cells type 1	13.9 nTPM
Lung	13.9 nTPM

Alveolar cells type 2	16.4 nTPM
Lung	16.4 nTPM

Astrocytes	0.0 nTPM
Brain	0.0 nTPM

B-cells	34.9 nTPM
Thymus	125.0 nTPM
Adipose tissue	44.4 nTPM
Lymph node	38.5 nTPM
Lung	34.9 nTPM
Liver	33.8 nTPM
Esophagus	29.5 nTPM
Salivary gland	26.7 nTPM
Spleen	26.0 nTPM
Stomach	23.2 nTPM
Skin	22.0 nTPM
Bone marrow	22.0 nTPM
Kidney	15.6 nTPM
PBMC	12.3 nTPM

Ciliated cells	19.4 nTPM
Bronchus	23.0 nTPM
Lung	19.6 nTPM
Fallopian tube	18.5 nTPM
Endometrium	16.5 nTPM

Club cells	24.9 nTPM
Lung	25.8 nTPM
Prostate	25.3 nTPM
Bronchus	23.5 nTPM

Dendritic cells	42.6 nTPM
Adipose tissue	52.7 nTPM
PBMC	32.4 nTPM

Endothelial cells	23.0 nTPM
Thymus	83.2 nTPM
Esophagus	37.5 nTPM
Ovary	36.8 nTPM
Testis	35.4 nTPM
Pancreas	25.9 nTPM
Placenta	23.8 nTPM
Skin	22.0 nTPM
Lung	16.7 nTPM
Endometrium	16.6 nTPM
Liver	16.4 nTPM
Fallopian tube	15.3 nTPM
Breast	14.9 nTPM
Salivary gland	14.5 nTPM
Vascular	14.0 nTPM
Skeletal muscle	13.9 nTPM
Tongue	11.3 nTPM
Prostate	8.0 nTPM
Heart muscle	6.8 nTPM

Enteroendocrine cells	31.1 nTPM
Small intestine	41.2 nTPM
Rectum	35.2 nTPM
Colon	16.9 nTPM

Fibroblasts	24.1 nTPM
Thymus	90.8 nTPM
Esophagus	37.2 nTPM
Adipose tissue	35.0 nTPM
Placenta	26.2 nTPM
Liver	26.1 nTPM
Stomach	24.5 nTPM
Fallopian tube	20.9 nTPM
Skin	19.5 nTPM
Salivary gland	16.8 nTPM
Lung	16.6 nTPM
Vascular	16.1 nTPM
Pancreas	15.3 nTPM
Breast	15.3 nTPM
Skeletal muscle	13.6 nTPM
Prostate	9.2 nTPM
Heart muscle	2.7 nTPM

Granulocytes	33.7 nTPM
Tongue	43.7 nTPM
Fallopian tube	31.7 nTPM
Lung	25.7 nTPM

Intestinal goblet cells	16.4 nTPM
Small intestine	19.9 nTPM
Rectum	14.9 nTPM
Colon	14.5 nTPM

Lymphatic endothelial cells	30.5 nTPM
Ovary	43.6 nTPM
Fallopian tube	17.4 nTPM

Macrophages	25.4 nTPM
Thymus	72.3 nTPM
Adipose tissue	40.0 nTPM
Testis	33.5 nTPM
Bone marrow	31.4 nTPM
Esophagus	30.8 nTPM
Stomach	28.3 nTPM
Spleen	25.1 nTPM
Breast	24.3 nTPM
Skin	22.3 nTPM
Fallopian tube	21.6 nTPM
Tongue	21.1 nTPM
Lung	20.9 nTPM
Endometrium	20.3 nTPM
Salivary gland	19.4 nTPM
Skeletal muscle	19.0 nTPM
Kidney	18.6 nTPM
Prostate	16.6 nTPM
Vascular	13.5 nTPM
Pancreas	4.1 nTPM

Basal prostatic cells	18.8 nTPM
Prostate	18.8 nTPM

Basal respiratory cells	18.1 nTPM
Bronchus	18.1 nTPM

Basal squamous epithelial cells	60.9 nTPM
Esophagus	60.9 nTPM

Bipolar cells	29.2 nTPM
Eye	29.2 nTPM

Paneth cells	29.6 nTPM
Small intestine	38.0 nTPM
Rectum	29.1 nTPM
Colon	21.7 nTPM

Plasma cells	47.9 nTPM
Thymus	155.1 nTPM
Spleen	55.6 nTPM
Esophagus	52.0 nTPM
Bone marrow	33.2 nTPM
Stomach	31.8 nTPM
Fallopian tube	21.2 nTPM
Liver	19.0 nTPM
Salivary gland	15.2 nTPM

Schwann cells	32.5 nTPM
Adipose tissue	40.2 nTPM
Esophagus	35.9 nTPM
Vascular	21.4 nTPM

Serous glandular cells	11.7 nTPM
Tongue	13.3 nTPM
Salivary gland	10.1 nTPM

Smooth muscle cells	22.5 nTPM
Thymus	85.0 nTPM
Esophagus	38.4 nTPM
Ovary	24.2 nTPM
Placenta	22.2 nTPM
Fallopian tube	21.8 nTPM
Adipose tissue	20.7 nTPM
Endometrium	19.5 nTPM
Lung	18.8 nTPM
Tongue	18.0 nTPM
Vascular	15.5 nTPM
Liver	14.9 nTPM
Breast	14.8 nTPM
Skin	12.9 nTPM
Skeletal muscle	12.6 nTPM
Salivary gland	11.1 nTPM
Prostate	9.7 nTPM

Suprabasal keratinocytes	30.5 nTPM
Skin	44.8 nTPM
Tongue	16.3 nTPM

T-cells	25.9 nTPM
Thymus	99.1 nTPM
Adipose tissue	44.9 nTPM
Lymph node	31.5 nTPM
Lung	26.4 nTPM
Breast	24.9 nTPM
Fallopian tube	23.2 nTPM
Skin	23.1 nTPM
Skeletal muscle	22.7 nTPM
Bone marrow	22.5 nTPM
Esophagus	21.9 nTPM
Endometrium	21.8 nTPM
Stomach	21.5 nTPM
Colon	21.4 nTPM
Tongue	21.0 nTPM
Spleen	20.7 nTPM
Salivary gland	19.8 nTPM
Liver	18.3 nTPM
PBMC	18.3 nTPM
Prostate	15.0 nTPM
Vascular	14.5 nTPM
Kidney	10.6 nTPM

Undifferentiated cells	23.9 nTPM
Small intestine	30.5 nTPM
Rectum	26.3 nTPM
Colon	14.9 nTPM

Amygdala excitatory	145.7 nTPM
Hypothalamus	201.1 nTPM
Basal ganglia	155.1 nTPM
Hippocampus	147.8 nTPM
Amygdala	146.4 nTPM
Cerebral cortex	137.7 nTPM
Thalamus	86.2 nTPM

Astrocyte	227.4 nTPM
Pons	280.8 nTPM
Cerebral cortex	261.3 nTPM
Midbrain	259.1 nTPM
Cerebellum	257.2 nTPM
Hippocampus	241.6 nTPM
Thalamus	241.2 nTPM
Medulla oblongata	223.9 nTPM
Spinal cord	221.5 nTPM
Basal ganglia	185.3 nTPM
Amygdala	173.9 nTPM
Hypothalamus	155.7 nTPM

Bergmann glia	165.8 nTPM
Cerebellum	217.8 nTPM
Pons	162.6 nTPM
Medulla oblongata	117.2 nTPM

Central nervous system macrophage	126.9 nTPM
Hippocampus	164.7 nTPM
Cerebellum	151.7 nTPM
Midbrain	150.3 nTPM
Cerebral cortex	144.8 nTPM
Amygdala	126.8 nTPM
Basal ganglia	118.1 nTPM
Pons	116.3 nTPM
Thalamus	116.0 nTPM
Spinal cord	107.5 nTPM
Hypothalamus	105.8 nTPM
Medulla oblongata	94.4 nTPM

Cerebellar inhibitory	118.1 nTPM
Midbrain	148.1 nTPM
Cerebellum	135.5 nTPM
Pons	124.0 nTPM
Medulla oblongata	95.2 nTPM
Spinal cord	88.0 nTPM

Cge interneuron	121.0 nTPM
Hypothalamus	167.4 nTPM
Basal ganglia	124.2 nTPM
Cerebral cortex	120.3 nTPM
Amygdala	113.3 nTPM
Hippocampus	111.4 nTPM
Midbrain	109.7 nTPM
Thalamus	100.7 nTPM

Choroid plexus epithelial cell	105.1 nTPM
Basal ganglia	130.4 nTPM
Hippocampus	105.4 nTPM
Medulla oblongata	97.1 nTPM
Thalamus	87.7 nTPM

Committed oligodendrocyte precursor	165.2 nTPM
Hypothalamus	224.6 nTPM
Hippocampus	210.1 nTPM
Cerebellum	193.4 nTPM
Cerebral cortex	184.3 nTPM
Midbrain	176.4 nTPM
Thalamus	173.8 nTPM
Amygdala	166.9 nTPM
Basal ganglia	141.8 nTPM
Spinal cord	136.1 nTPM
Pons	128.4 nTPM
Medulla oblongata	81.3 nTPM

Deep-layer corticothalamic and 6b	132.3 nTPM
Hypothalamus	173.6 nTPM
Midbrain	146.4 nTPM
Basal ganglia	131.3 nTPM
Cerebral cortex	121.4 nTPM
Hippocampus	112.3 nTPM
Amygdala	108.6 nTPM

Deep-layer intratelencephalic	139.5 nTPM
Hypothalamus	191.5 nTPM
Basal ganglia	137.0 nTPM
Amygdala	134.4 nTPM
Cerebral cortex	124.2 nTPM
Hippocampus	110.7 nTPM

Deep-layer near-projecting	137.3 nTPM
Hypothalamus	187.3 nTPM
Basal ganglia	153.0 nTPM
Cerebral cortex	139.0 nTPM
Amygdala	119.4 nTPM
Hippocampus	87.8 nTPM

Eccentric medium spiny neuron	153.3 nTPM
Amygdala	158.5 nTPM
Hypothalamus	154.9 nTPM
Thalamus	154.2 nTPM
Hippocampus	151.7 nTPM
Cerebral cortex	151.1 nTPM
Basal ganglia	149.3 nTPM