Single cell type - PKP4 - 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.	PKP4
Gene descriptionⁱ Full gene name according to HGNC.	Plakophilin 4
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	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. Read more	Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	4

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	Oligodendrocytes - Myelin sheath 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	Cell type enhanced (Oligodendrocytes, Excitatory neurons, Inhibitory neurons, Oligodendrocyte precursor cells)
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	Immune cell enhanced (non-classical monocyte)
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 single
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: Cell type enhanced (Oligodendrocytes, Excitatory neurons, Inhibitory neurons, Oligodendrocyte precursor cells)

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

PKP4 is part of cluster 42 Oligodendrocytes - Myelin sheath organization with confidenceⁱ 1
385 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
UNC5C	Unc-5 netrin receptor C	0.8304	42
SAMD12	Sterile alpha motif domain containing 12	0.8293	42
HECW2	HECT, C2 and WW domain containing E3 ubiquitin protein ligase 2	0.7888	8
MTMR7	Myotubularin related protein 7	0.7673	8
GRID1	Glutamate ionotropic receptor delta type subunit 1	0.7580	42
IL1RAPL1	Interleukin 1 receptor accessory protein like 1	0.7578	8
AKAP6	A-kinase anchoring protein 6	0.7576	42
ANKIB1	Ankyrin repeat and IBR domain containing 1	0.7571	42
DIP2B	Disco interacting protein 2 homolog B	0.7476	42
DOCK3	Dedicator of cytokinesis 3	0.7458	8
JAKMIP3	Janus kinase and microtubule interacting protein 3	0.7443	42
MAGEC3	MAGE family member C3	0.7410	42
SIK3	SIK family kinase 3	0.7278	42
EXOC6B	Exocyst complex component 6B	0.7216	42
TMTC2	Transmembrane O-mannosyltransferase targeting cadherins 2	0.7208	42

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	59.8 nTPM
Breast	60.6 nTPM
Adipose tissue	59.0 nTPM

Alveolar cells type 1	41.7 nTPM
Lung	41.7 nTPM

Alveolar cells type 2	18.9 nTPM
Lung	18.9 nTPM

Astrocytes	28.7 nTPM
Brain	28.7 nTPM

B-cells	3.1 nTPM
Kidney	9.5 nTPM
Breast	6.6 nTPM
Liver	4.1 nTPM
Colon	3.2 nTPM
Stomach	2.2 nTPM
Spleen	2.1 nTPM
Lymph node	1.7 nTPM
Bone marrow	0.8 nTPM
Adipose tissue	0.5 nTPM
PBMC	0.0 nTPM

Dendritic cells	3.5 nTPM
Breast	4.3 nTPM
PBMC	4.0 nTPM
Adipose tissue	2.2 nTPM

Endothelial cells	71.1 nTPM
Esophagus	171.8 nTPM
Testis	114.1 nTPM
Endometrium	99.9 nTPM
Breast	78.2 nTPM
Lung	77.9 nTPM
Prostate	74.1 nTPM
Skeletal muscle	62.3 nTPM
Liver	60.5 nTPM
Heart muscle	59.6 nTPM
Ovary	56.9 nTPM
Skin	55.2 nTPM
Placenta	37.5 nTPM
Pancreas	27.0 nTPM
Eye	21.0 nTPM

Fibroblasts	15.3 nTPM
Heart muscle	30.2 nTPM
Lung	30.1 nTPM
Ovary	28.1 nTPM
Stomach	16.3 nTPM
Prostate	14.1 nTPM
Breast	12.4 nTPM
Skin	11.9 nTPM
Esophagus	11.4 nTPM
Placenta	5.8 nTPM
Skeletal muscle	5.1 nTPM
Adipose tissue	2.6 nTPM

Intestinal goblet cells	16.6 nTPM
Rectum	20.9 nTPM
Small intestine	18.3 nTPM
Colon	10.7 nTPM

Macrophages	6.2 nTPM
Esophagus	14.2 nTPM
Spleen	11.4 nTPM
Kidney	9.9 nTPM
Lung	8.8 nTPM
Endometrium	7.2 nTPM
Skeletal muscle	6.5 nTPM
Stomach	5.9 nTPM
Adipose tissue	5.8 nTPM
Prostate	5.7 nTPM
Breast	5.5 nTPM
Ovary	4.7 nTPM
Bone marrow	3.7 nTPM
Pancreas	2.5 nTPM
Testis	1.2 nTPM
PBMC	0.0 nTPM

Paneth cells	16.7 nTPM
Rectum	29.0 nTPM
Small intestine	11.3 nTPM
Colon	9.9 nTPM

Plasma cells	5.2 nTPM
Bone marrow	9.9 nTPM
Spleen	6.7 nTPM
Stomach	5.2 nTPM
Adipose tissue	3.9 nTPM
Esophagus	0.0 nTPM

Respiratory ciliated cells	29.0 nTPM
Lung	36.5 nTPM
Bronchus	21.6 nTPM

Smooth muscle cells	13.9 nTPM
Bronchus	23.8 nTPM
Heart muscle	17.2 nTPM
Breast	17.2 nTPM
Skin	17.1 nTPM
Prostate	15.0 nTPM
Endometrium	12.5 nTPM
Esophagus	10.9 nTPM
Pancreas	10.6 nTPM
Adipose tissue	10.4 nTPM
Skeletal muscle	9.9 nTPM
Ovary	8.8 nTPM

T-cells	5.0 nTPM
Endometrium	9.8 nTPM
Lymph node	8.6 nTPM
Breast	7.4 nTPM
Esophagus	6.6 nTPM
Skin	6.4 nTPM
Adipose tissue	5.3 nTPM
Prostate	4.7 nTPM
Lung	4.5 nTPM
Ovary	4.5 nTPM
Liver	4.2 nTPM
Skeletal muscle	4.2 nTPM
Colon	3.8 nTPM
Spleen	3.4 nTPM
Bone marrow	3.1 nTPM
PBMC	2.9 nTPM
Kidney	2.7 nTPM
Stomach	2.2 nTPM

Basal prostatic cells	21.3 nTPM
Prostate	21.3 nTPM

Basal respiratory cells	23.5 nTPM
Bronchus	23.5 nTPM

Basal squamous epithelial cells	34.1 nTPM
Esophagus	34.1 nTPM

Cholangiocytes	38.6 nTPM
Liver	38.6 nTPM

Undifferentiated cells	19.4 nTPM
Rectum	24.6 nTPM
Small intestine	18.7 nTPM
Colon	14.8 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