Single cell type - PCNP - The Human Protein Atlas

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.	PCNP
Gene descriptionⁱ Full gene name according to HGNC.	PEST proteolytic signal containing nuclear protein
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. Read more	Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	3

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. Read more	Smooth muscle cells - ECM organization (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. Read more	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. Read more	Low immune cell specificity
Immune cell distributionⁱ The RNA distribution category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: detected in all, detected in many, detected in some, detected in single and not detected. Read more	Detected in all
Cell line specificityⁱ RNA specificity category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into six different categories (enriched, group enriched, enhanced, low specificity and not detected) according to their RNA expression levels across the panel of cell lines. Read more	Low cell line specificity
Cell line distributionⁱ RNA distribution category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into five different categories (detected in all, detected in many, detected in some, detected in single and not detected) according to their pattern of detected RNA expression across the panel of cell lines. Read more	Detected in all
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); a Human Protein Atlas antibody- or RNA based score (HPA evidence); and evidence based on PeptideAtlas (MS evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable. Read more	Evidence at protein level

SINGLE CELL TYPESⁱ A summary of 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 Group Expression Alphabetical RNA single cell type specificity: Low cell type specificity

SINGLE CELL TISSUES OVERVIEWⁱ An overview of all tissues where single cell type expression has been analyzed. Each tissue name and corresponding UMAP plot is clickable and redirects to the selected tissue.
Adipose tissue Bone marrow Brain Breast Bronchus Colon Endometrium Esophagus Eye Heart muscle Kidney Liver Lung Lymph node Ovary Pancreas Placenta Prostate Rectum Skeletal muscle Skin Small intestine Spleen Stomach Testis

EXPRESSION CLUSTERING & CORRELATIONⁱ

PCNP is part of cluster 48 Smooth muscle cells - ECM organization with confidenceⁱ 1
270 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell type 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. Read more	Clusterⁱ ID of the expression cluster of the neighboring gene. Read more
PPIAL4D	Peptidylprolyl isomerase A like 4D	0.6546	48
ATF1	Activating transcription factor 1	0.6474	22
CCL19	C-C motif chemokine ligand 19	0.6417	48
C11orf58	Chromosome 11 open reading frame 58	0.6384	39
RSL24D1	Ribosomal L24 domain containing 1	0.6284	32
AXL	AXL receptor tyrosine kinase	0.6264	48
TBX18	T-box transcription factor 18	0.6248	48
GEM	GTP binding protein overexpressed in skeletal muscle	0.6009	48
ZFAND1	Zinc finger AN1-type containing 1	0.6003	32
HNRNPA0	Heterogeneous nuclear ribonucleoprotein A0	0.5933	48
CCL26	C-C motif chemokine ligand 26	0.5910	48
WTAP	WT1 associated protein	0.5694	48
FKBP1C	FKBP prolyl isomerase 1C	0.5570	48
CYP26B1	Cytochrome P450 family 26 subfamily B member 1	0.5559	48
RGS16	Regulator of G protein signaling 16	0.5510	48

SINGLE CELL TISSUESⁱ Single cell RNA levels of annotated cell type clusters are shown separately for each analyzed tissue. For easier navigation across tissues, use the above Single cell tissue overview, where each tissue name and UMAP plot is clickable and redirects to the selected tissue, alternatively the grey browser on the left side of the window. Barchart shows nTPM levels in each annotated cluster of single cells. To the left, a UMAP plot illustrates the RNA expression profile. The tissue name and plots are clickable and redirect to a more detailed interactive page. Color-coding is based on cell type groups, each consisting of cell types with functional features in common. Please note that the same cell type may be found in several clusters.
Cluster Expression Alphabetical Adipose tissue
Cluster Expression Alphabetical Bone marrow
Cluster Expression Alphabetical Brain
Cluster Expression Alphabetical Breast
Cluster Expression Alphabetical Bronchus
Cluster Expression Alphabetical Colon
Cluster Expression Alphabetical Endometrium
Cluster Expression Alphabetical Esophagus
Cluster Expression Alphabetical Eye
Cluster Expression Alphabetical Heart muscle
Cluster Expression Alphabetical Kidney
Cluster Expression Alphabetical Liver
Cluster Expression Alphabetical Lung
Cluster Expression Alphabetical Lymph node
Cluster Expression Alphabetical Ovary
Cluster Expression Alphabetical Pancreas
Cluster Expression Alphabetical Placenta
Cluster Expression Alphabetical Prostate
Cluster Expression Alphabetical Rectum
Cluster Expression Alphabetical Skeletal muscle
Cluster Expression Alphabetical Skin
Cluster Expression Alphabetical Small intestine
Cluster Expression Alphabetical Spleen
Cluster Expression Alphabetical Stomach
Cluster Expression Alphabetical Testis

BLOODⁱ

Single cell data

Cluster

Expression

Alphabetical

PBMC

Flow sorted data

Lineage

Expression

Alphabetical

CELL LINESⁱ

Organ

Expression

Alphabetical

Adipocytes	94.9 nTPM
Adipose tissue	103.6 nTPM
Breast	86.2 nTPM

Alveolar cells type 1	60.9 nTPM
Lung	60.9 nTPM

Alveolar cells type 2	101.4 nTPM
Lung	101.4 nTPM

Astrocytes	25.5 nTPM
Brain	25.5 nTPM

B-cells	124.2 nTPM
Kidney	199.9 nTPM
Colon	167.7 nTPM
Stomach	122.6 nTPM
Adipose tissue	120.8 nTPM
PBMC	119.9 nTPM
Lymph node	117.0 nTPM
Liver	108.6 nTPM
Bone marrow	106.3 nTPM
Spleen	104.1 nTPM
Breast	74.9 nTPM

Basal squamous epithelial cells	126.9 nTPM
Esophagus	126.9 nTPM

Dendritic cells	75.0 nTPM
Breast	98.8 nTPM
Adipose tissue	98.3 nTPM
PBMC	27.9 nTPM

Endothelial cells	111.0 nTPM
Skin	250.2 nTPM
Prostate	188.1 nTPM
Testis	146.7 nTPM
Pancreas	135.1 nTPM
Breast	111.6 nTPM
Esophagus	99.5 nTPM
Heart muscle	94.6 nTPM
Skeletal muscle	89.5 nTPM
Liver	83.5 nTPM
Lung	81.1 nTPM
Placenta	71.6 nTPM
Eye	68.0 nTPM
Endometrium	67.2 nTPM
Ovary	66.8 nTPM

Erythroid cells	195.9 nTPM
Liver	299.4 nTPM
Bone marrow	92.5 nTPM

Fibroblasts	126.9 nTPM
Skin	265.6 nTPM
Prostate	196.9 nTPM
Heart muscle	144.1 nTPM
Esophagus	130.6 nTPM
Breast	112.0 nTPM
Placenta	109.9 nTPM
Lung	100.5 nTPM
Adipose tissue	99.6 nTPM
Stomach	89.1 nTPM
Skeletal muscle	79.0 nTPM
Ovary	68.5 nTPM

Intestinal goblet cells	70.8 nTPM
Colon	75.1 nTPM
Small intestine	69.2 nTPM
Rectum	68.2 nTPM

Macrophages	105.0 nTPM
PBMC	313.7 nTPM
Prostate	149.0 nTPM
Testis	148.7 nTPM
Pancreas	122.5 nTPM
Adipose tissue	103.7 nTPM
Kidney	94.5 nTPM
Endometrium	85.1 nTPM
Esophagus	78.7 nTPM
Stomach	73.3 nTPM
Breast	73.0 nTPM
Spleen	72.5 nTPM
Lung	67.3 nTPM
Skeletal muscle	65.9 nTPM
Bone marrow	65.0 nTPM
Ovary	62.4 nTPM

Paneth cells	51.6 nTPM
Rectum	74.0 nTPM
Small intestine	67.5 nTPM
Colon	13.2 nTPM

Plasma cells	77.8 nTPM
Spleen	125.7 nTPM
Bone marrow	79.1 nTPM
Stomach	78.5 nTPM
Adipose tissue	56.1 nTPM
Esophagus	49.4 nTPM

Respiratory ciliated cells	85.8 nTPM
Bronchus	88.5 nTPM
Lung	83.1 nTPM

Cholangiocytes	75.8 nTPM
Liver	75.8 nTPM

Collecting duct cells	64.4 nTPM
Kidney	64.4 nTPM

Cone photoreceptor cells	39.6 nTPM
Eye	39.6 nTPM

Cytotrophoblasts	120.3 nTPM
Placenta	120.3 nTPM

Smooth muscle cells	170.3 nTPM
Skin	321.2 nTPM
Prostate	257.3 nTPM
Bronchus	224.3 nTPM
Heart muscle	214.7 nTPM
Esophagus	156.6 nTPM
Pancreas	156.2 nTPM
Skeletal muscle	136.2 nTPM
Adipose tissue	131.3 nTPM
Breast	128.7 nTPM
Endometrium	73.3 nTPM
Ovary	73.1 nTPM

T-cells	125.1 nTPM
Skin	276.3 nTPM
Prostate	170.4 nTPM
Colon	160.6 nTPM
Kidney	150.5 nTPM
PBMC	138.7 nTPM
Liver	136.3 nTPM
Adipose tissue	131.0 nTPM
Lymph node	127.5 nTPM
Breast	117.9 nTPM
Stomach	110.4 nTPM
Spleen	105.4 nTPM
Lung	91.1 nTPM
Bone marrow	91.0 nTPM
Skeletal muscle	89.0 nTPM
Endometrium	78.9 nTPM
Esophagus	78.6 nTPM
Ovary	73.4 nTPM

Undifferentiated cells	78.8 nTPM
Colon	88.1 nTPM
Small intestine	80.5 nTPM
Rectum	67.9 nTPM

Adipose tissue

Bone marrow

Brain

Breast

Bronchus

Colon

Endometrium

Esophagus

Eye

Heart muscle

Kidney

Liver

Lung

Lymph node

Ovary

Pancreas

Placenta

Prostate

Rectum

Skeletal muscle

Skin

Small intestine

Spleen

Stomach

Testis

PBMC