Single cell type - CDK4 - 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.	CDK4
Gene descriptionⁱ Full gene name according to HGNC.	Cyclin dependent kinase 4
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-related genes Disease related genes Enzymes FDA approved drug targets Human disease related genes Metabolic proteins 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.	10

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	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. 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	Group enriched (HBEC3-KT, LHCN-M2, RH-30)
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

CDK4 is part of cluster 39 Non-specific - Basic cellular processes with confidenceⁱ 0.99
586 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
NLE1	Notchless homolog 1	0.7059	39
NOB1	NIN1 (RPN12) binding protein 1 homolog	0.6398	32
PAICS	Phosphoribosylaminoimidazole carboxylase and phosphoribosylaminoimidazolesuccinocarboxamide synthase	0.6061	12
LSM2	LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated	0.5998	12
PHB2	Prohibitin 2	0.5994	32
STOML2	Stomatin like 2	0.5872	39
MRTO4	MRT4 homolog, ribosome maturation factor	0.5858	39
TK1	Thymidine kinase 1	0.5851	12
GAR1	GAR1 ribonucleoprotein	0.5833	39
SIGMAR1	Sigma non-opioid intracellular receptor 1	0.5784	33
EXOSC5	Exosome component 5	0.5750	38
BCL2L12	BCL2 like 12	0.5746	12
SRM	Spermidine synthase	0.5715	55
HMGN2	High mobility group nucleosomal binding domain 2	0.5643	12
NPM3	Nucleophosmin/nucleoplasmin 3	0.5527	32

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	47.1 nTPM
Breast	62.7 nTPM
Adipose tissue	31.6 nTPM

Alveolar cells type 1	22.4 nTPM
Lung	22.4 nTPM

Alveolar cells type 2	30.8 nTPM
Lung	30.8 nTPM

Astrocytes	7.8 nTPM
Brain	7.8 nTPM

B-cells	40.0 nTPM
Liver	85.5 nTPM
Spleen	56.8 nTPM
Kidney	42.9 nTPM
PBMC	35.7 nTPM
Stomach	35.4 nTPM
Bone marrow	35.1 nTPM
Lymph node	34.4 nTPM
Breast	32.1 nTPM
Colon	25.5 nTPM
Adipose tissue	16.5 nTPM

Dendritic cells	26.1 nTPM
Breast	33.5 nTPM
Adipose tissue	24.8 nTPM
PBMC	20.0 nTPM

Endothelial cells	50.8 nTPM
Pancreas	84.9 nTPM
Placenta	67.1 nTPM
Breast	66.6 nTPM
Ovary	64.8 nTPM
Prostate	62.5 nTPM
Skin	62.3 nTPM
Endometrium	52.1 nTPM
Liver	50.4 nTPM
Testis	48.0 nTPM
Esophagus	47.4 nTPM
Eye	38.0 nTPM
Lung	37.4 nTPM
Skeletal muscle	29.3 nTPM
Heart muscle	0.1 nTPM

Fibroblasts	79.4 nTPM
Ovary	151.1 nTPM
Placenta	134.9 nTPM
Prostate	111.9 nTPM
Breast	93.6 nTPM
Adipose tissue	85.6 nTPM
Esophagus	81.0 nTPM
Skin	76.0 nTPM
Stomach	50.5 nTPM
Skeletal muscle	46.6 nTPM
Lung	42.4 nTPM
Heart muscle	0.2 nTPM

Intestinal goblet cells	42.2 nTPM
Small intestine	43.3 nTPM
Rectum	41.8 nTPM
Colon	41.4 nTPM

Macrophages	31.2 nTPM
Ovary	58.3 nTPM
Esophagus	45.6 nTPM
Pancreas	43.4 nTPM
Bone marrow	40.0 nTPM
Kidney	39.4 nTPM
Breast	39.1 nTPM
Prostate	38.9 nTPM
Testis	35.5 nTPM
Endometrium	33.2 nTPM
Adipose tissue	26.1 nTPM
Lung	20.5 nTPM
Spleen	18.6 nTPM
Skeletal muscle	18.1 nTPM
Stomach	11.7 nTPM
PBMC	0.0 nTPM

Paneth cells	18.9 nTPM
Rectum	45.7 nTPM
Small intestine	7.5 nTPM
Colon	3.3 nTPM

Plasma cells	57.8 nTPM
Spleen	93.6 nTPM
Stomach	74.4 nTPM
Bone marrow	67.6 nTPM
Esophagus	30.7 nTPM
Adipose tissue	22.5 nTPM

Respiratory ciliated cells	7.4 nTPM
Bronchus	10.4 nTPM
Lung	4.4 nTPM

Smooth muscle cells	61.9 nTPM
Pancreas	144.7 nTPM
Ovary	108.4 nTPM
Breast	62.1 nTPM
Prostate	60.3 nTPM
Skin	59.6 nTPM
Endometrium	59.0 nTPM
Adipose tissue	54.6 nTPM
Esophagus	54.3 nTPM
Skeletal muscle	45.4 nTPM
Bronchus	32.7 nTPM
Heart muscle	0.2 nTPM

T-cells	32.3 nTPM
Kidney	47.2 nTPM
Bone marrow	43.4 nTPM
Stomach	39.9 nTPM
Spleen	39.8 nTPM
Liver	39.4 nTPM
PBMC	38.1 nTPM
Lymph node	34.7 nTPM
Ovary	33.3 nTPM
Esophagus	32.8 nTPM
Breast	29.2 nTPM
Colon	29.0 nTPM
Lung	28.8 nTPM
Prostate	28.4 nTPM
Skin	26.2 nTPM
Endometrium	24.5 nTPM
Skeletal muscle	18.9 nTPM
Adipose tissue	16.2 nTPM

Basal keratinocytes	89.7 nTPM
Skin	89.7 nTPM

Basal prostatic cells	78.6 nTPM
Prostate	78.6 nTPM

Basal respiratory cells	83.4 nTPM
Bronchus	83.4 nTPM

Basal squamous epithelial cells	74.0 nTPM
Esophagus	74.0 nTPM

Undifferentiated cells	78.7 nTPM
Small intestine	95.1 nTPM
Rectum	71.6 nTPM
Colon	69.4 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