Single cell type - PDAP1 - The Human Protein Atlas

PDAP1

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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.	PDAP1
Gene descriptionⁱ Full gene name according to HGNC.	PDGFA associated protein 1
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.	Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	2

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.	Non-specific - Basic cellular processes (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.	0.20
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

PDAP1 is part of cluster 39 Non-specific - Basic cellular processes with confidenceⁱ 1
835 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.
NAA10	N-alpha-acetyltransferase 10, NatA catalytic subunit	0.5548	39
PSMB4	Proteasome 20S subunit beta 4	0.5401	15
DENR	Density regulated re-initiation and release factor	0.5371	79
EIF5A	Eukaryotic translation initiation factor 5A	0.5038	39
ARFRP1	ADP ribosylation factor related protein 1	0.5034	39
CCT6A	Chaperonin containing TCP1 subunit 6A	0.4956	39
RNASEH1	Ribonuclease H1	0.4925	45
PA2G4	Proliferation-associated 2G4	0.4892	39
HRAS	HRas proto-oncogene, GTPase	0.4890	12
RCC1L	RCC1 like	0.4800	53
NOP14	NOP14 nucleolar protein	0.4763	39
H2AC20	H2A clustered histone 20	0.4726	61
EXOSC2	Exosome component 2	0.4698	39
VPS4A	Vacuolar protein sorting 4 homolog A	0.4679	39
NME1	NME/NM23 nucleoside diphosphate kinase 1	0.4668	66

IMMUNE CELLS

PDAP1 is part of cluster 21 Neutrophils - Unknown function with confidenceⁱ 1
492 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.
IP6K1	Inositol hexakisphosphate kinase 1	1.0000	21
AKIRIN1	Akirin 1	1.0000	21
ENSG00000283809	Novel protein	0.9762	21
MARCHF5	Membrane associated ring-CH-type finger 5	0.9762	21
DPP8	Dipeptidyl peptidase 8	0.9762	21
MMD	Monocyte to macrophage differentiation associated	0.9762	21
TSEN34	TRNA splicing endonuclease subunit 34	0.9762	21
RBMS1	RNA binding motif single stranded interacting protein 1	0.9762	21
TRIM21	Tripartite motif containing 21	0.9524	21
CDA	Cytidine deaminase	0.9524	21
NR6A1	Nuclear receptor subfamily 6 group A member 1	0.9524	21
EPC2	Enhancer of polycomb homolog 2	0.9524	21
DCUN1D1	Defective in cullin neddylation 1 domain containing 1	0.9524	7
KLF7	KLF transcription factor 7	0.9524	21
IVNS1ABP	Influenza virus NS1A binding protein	0.9524	21

Adipocytes	76.9 nTPM
Breast	84.1 nTPM
Adipose tissue	69.8 nTPM

Alveolar cells type 1	129.7 nTPM
Lung	129.7 nTPM

Alveolar cells type 2	129.3 nTPM
Lung	129.3 nTPM

Astrocytes	5.9 nTPM
Brain	5.9 nTPM

B-cells	57.2 nTPM
Lung	85.8 nTPM
Salivary gland	82.0 nTPM
PBMC	73.9 nTPM
Kidney	72.8 nTPM
Spleen	60.4 nTPM
Stomach	59.1 nTPM
Thymus	56.6 nTPM
Bone marrow	55.1 nTPM
Skin	49.1 nTPM
Lymph node	47.4 nTPM
Adipose tissue	46.1 nTPM
Liver	43.5 nTPM
Esophagus	11.8 nTPM

Ciliated cells	74.3 nTPM
Fallopian tube	86.7 nTPM
Endometrium	82.5 nTPM
Lung	78.4 nTPM
Bronchus	49.6 nTPM

Club cells	89.4 nTPM
Prostate	110.6 nTPM
Lung	91.0 nTPM
Bronchus	66.7 nTPM

Dendritic cells	62.7 nTPM
PBMC	79.1 nTPM
Adipose tissue	46.2 nTPM

Endothelial cells	89.6 nTPM
Pancreas	206.8 nTPM
Lung	164.3 nTPM
Placenta	110.1 nTPM
Testis	106.5 nTPM
Tongue	101.1 nTPM
Vascular	95.4 nTPM
Fallopian tube	93.1 nTPM
Ovary	85.3 nTPM
Skin	79.2 nTPM
Breast	75.6 nTPM
Thymus	75.5 nTPM
Skeletal muscle	74.1 nTPM
Prostate	71.9 nTPM
Endometrium	71.4 nTPM
Esophagus	67.8 nTPM
Salivary gland	64.4 nTPM
Heart muscle	43.9 nTPM
Liver	26.5 nTPM

Enteroendocrine cells	109.8 nTPM
Colon	129.1 nTPM
Small intestine	106.4 nTPM
Rectum	93.9 nTPM

Erythroid cells	156.0 nTPM
Liver	202.8 nTPM
Bone marrow	109.3 nTPM

Fibroblasts	103.1 nTPM
Pancreas	211.2 nTPM
Lung	173.4 nTPM
Vascular	130.3 nTPM
Placenta	127.6 nTPM
Adipose tissue	114.3 nTPM
Thymus	101.5 nTPM
Salivary gland	100.8 nTPM
Fallopian tube	96.7 nTPM
Prostate	93.1 nTPM
Breast	85.6 nTPM
Skin	84.9 nTPM
Esophagus	81.8 nTPM
Skeletal muscle	81.1 nTPM
Stomach	63.4 nTPM
Heart muscle	54.6 nTPM
Liver	49.8 nTPM

Granulocytes	58.9 nTPM
Fallopian tube	71.9 nTPM
Lung	66.0 nTPM
Tongue	38.8 nTPM

Intestinal goblet cells	98.7 nTPM
Colon	138.5 nTPM
Rectum	84.2 nTPM
Small intestine	73.2 nTPM

Lymphatic endothelial cells	84.1 nTPM
Fallopian tube	108.1 nTPM
Ovary	60.0 nTPM

Basal keratinocytes	114.2 nTPM
Tongue	169.1 nTPM
Skin	59.2 nTPM

Basal prostatic cells	93.8 nTPM
Prostate	93.8 nTPM

Basal respiratory cells	103.2 nTPM
Bronchus	103.2 nTPM

Basal squamous epithelial cells	74.7 nTPM
Esophagus	74.7 nTPM

Macrophages	63.6 nTPM
Pancreas	94.6 nTPM
Testis	88.0 nTPM
Vascular	82.9 nTPM
Endometrium	75.6 nTPM
Tongue	75.5 nTPM
Thymus	72.5 nTPM
Lung	66.6 nTPM
Prostate	64.6 nTPM
Fallopian tube	62.6 nTPM
Breast	62.5 nTPM
Salivary gland	59.7 nTPM
Stomach	59.2 nTPM
Bone marrow	57.8 nTPM
Adipose tissue	57.3 nTPM
Kidney	54.9 nTPM
Skin	52.4 nTPM
Skeletal muscle	46.2 nTPM
Spleen	45.1 nTPM
Esophagus	30.8 nTPM

Paneth cells	91.7 nTPM
Colon	126.7 nTPM
Rectum	100.0 nTPM
Small intestine	48.4 nTPM

Plasma cells	120.8 nTPM
Liver	192.3 nTPM
Spleen	154.4 nTPM
Bone marrow	143.5 nTPM
Thymus	142.4 nTPM
Salivary gland	103.9 nTPM
Fallopian tube	82.3 nTPM
Stomach	74.5 nTPM
Esophagus	72.8 nTPM

Schwann cells	90.4 nTPM
Vascular	106.6 nTPM
Esophagus	95.8 nTPM
Adipose tissue	68.7 nTPM

Serous glandular cells	105.6 nTPM
Salivary gland	114.0 nTPM
Tongue	97.2 nTPM

Smooth muscle cells	104.8 nTPM
Vascular	160.2 nTPM
Fallopian tube	130.1 nTPM
Ovary	127.9 nTPM
Placenta	118.4 nTPM
Lung	117.6 nTPM
Prostate	115.6 nTPM
Breast	108.7 nTPM
Salivary gland	101.5 nTPM
Thymus	98.2 nTPM
Tongue	96.4 nTPM
Endometrium	95.1 nTPM
Adipose tissue	94.4 nTPM
Skeletal muscle	85.3 nTPM
Skin	81.8 nTPM
Liver	75.1 nTPM
Esophagus	70.9 nTPM

Suprabasal keratinocytes	147.7 nTPM
Tongue	234.1 nTPM
Skin	61.2 nTPM

T-cells	73.3 nTPM
Lung	96.7 nTPM
Liver	96.1 nTPM
PBMC	92.5 nTPM
Kidney	86.0 nTPM
Fallopian tube	82.7 nTPM
Colon	79.9 nTPM
Breast	77.8 nTPM
Skeletal muscle	76.7 nTPM
Endometrium	75.7 nTPM
Prostate	74.9 nTPM
Vascular	72.0 nTPM
Tongue	71.8 nTPM
Spleen	69.4 nTPM
Bone marrow	68.9 nTPM
Stomach	68.5 nTPM
Salivary gland	65.2 nTPM
Thymus	65.1 nTPM
Adipose tissue	64.4 nTPM
Skin	63.8 nTPM
Lymph node	49.5 nTPM
Esophagus	41.4 nTPM

Undifferentiated cells	125.5 nTPM
Colon	186.4 nTPM
Small intestine	97.2 nTPM
Rectum	92.9 nTPM

Amygdala excitatory	16.0 nTPM
Thalamus	23.1 nTPM
Basal ganglia	20.1 nTPM
Cerebral cortex	14.8 nTPM
Hippocampus	14.6 nTPM
Amygdala	13.5 nTPM
Hypothalamus	9.6 nTPM

Astrocyte	15.0 nTPM
Cerebellum	18.2 nTPM
Cerebral cortex	16.6 nTPM
Thalamus	16.2 nTPM
Pons	15.7 nTPM
Medulla oblongata	15.6 nTPM
Basal ganglia	15.0 nTPM
Midbrain	14.4 nTPM
Hippocampus	14.2 nTPM
Spinal cord	14.1 nTPM
Amygdala	12.9 nTPM
Hypothalamus	11.6 nTPM

Bergmann glia	20.0 nTPM
Pons	24.5 nTPM
Cerebellum	22.6 nTPM
Medulla oblongata	12.8 nTPM

Central nervous system macrophage	20.1 nTPM
Amygdala	22.1 nTPM
Thalamus	21.7 nTPM
Cerebellum	21.4 nTPM
Cerebral cortex	21.0 nTPM
Medulla oblongata	20.9 nTPM
Pons	20.3 nTPM
Hypothalamus	20.0 nTPM
Midbrain	20.0 nTPM
Basal ganglia	19.3 nTPM
Hippocampus	18.7 nTPM
Spinal cord	15.9 nTPM

Cerebellar inhibitory	31.5 nTPM
Spinal cord	41.2 nTPM
Pons	32.4 nTPM
Cerebellum	29.5 nTPM
Midbrain	28.3 nTPM
Medulla oblongata	26.0 nTPM

Cge interneuron	26.8 nTPM
Thalamus	38.9 nTPM
Midbrain	31.6 nTPM
Hippocampus	27.6 nTPM
Basal ganglia	25.9 nTPM
Cerebral cortex	25.8 nTPM
Amygdala	21.8 nTPM
Hypothalamus	16.2 nTPM

Choroid plexus epithelial cell	14.0 nTPM
Hippocampus	16.6 nTPM
Medulla oblongata	15.8 nTPM
Basal ganglia	12.7 nTPM
Thalamus	11.0 nTPM

Committed oligodendrocyte precursor	21.1 nTPM
Spinal cord	40.5 nTPM
Medulla oblongata	28.4 nTPM
Midbrain	21.0 nTPM
Amygdala	20.9 nTPM
Pons	20.4 nTPM
Basal ganglia	19.2 nTPM
Hypothalamus	19.1 nTPM
Thalamus	19.1 nTPM
Hippocampus	16.0 nTPM
Cerebral cortex	15.2 nTPM
Cerebellum	12.7 nTPM

Deep-layer corticothalamic and 6b	18.4 nTPM
Midbrain	28.8 nTPM
Basal ganglia	19.6 nTPM
Cerebral cortex	17.4 nTPM
Hippocampus	17.2 nTPM
Amygdala	16.3 nTPM
Hypothalamus	10.7 nTPM

Deep-layer intratelencephalic	17.0 nTPM
Cerebral cortex	20.0 nTPM
Basal ganglia	19.5 nTPM
Hippocampus	18.2 nTPM
Amygdala	15.0 nTPM
Hypothalamus	12.0 nTPM

Deep-layer near-projecting	21.0 nTPM
Hippocampus	31.5 nTPM
Cerebral cortex	22.3 nTPM
Basal ganglia	19.6 nTPM
Amygdala	16.8 nTPM
Hypothalamus	14.8 nTPM