Single cell type - CDKN2A - 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.	CDKN2A
Gene descriptionⁱ Full gene name according to HGNC.	Cyclin dependent kinase inhibitor 2A
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-related genes 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. 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	Pancreatic endocrine cells - Mixed function (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 (Late spermatids, Pancreatic endocrine cells, Early spermatids, Respiratory ciliated cells, Basal respiratory cells, Club 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 (T-reg)
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 many
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	Cell line enhanced (CAPAN-2, HEK93, HeLa, SK-MEL-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 many
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 (Late spermatids, Pancreatic endocrine cells, Early spermatids, Respiratory ciliated cells, Basal respiratory cells, Club 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

CDKN2A is part of cluster 16 Pancreatic endocrine cells - Mixed function with confidenceⁱ 1
171 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
LCN2	Lipocalin 2	0.7510	26
SERPINB7	Serpin family B member 7	0.7441	16
SPRR1B	Small proline rich protein 1B	0.7333	16
DEFB4A	Defensin beta 4A	0.7255	16
KLK10	Kallikrein related peptidase 10	0.7172	16
PRSS22	Serine protease 22	0.6927	26
SLC6A14	Solute carrier family 6 member 14	0.6864	26
MYEOV	Myeloma overexpressed	0.6661	16
LCE3D	Late cornified envelope 3D	0.6583	16
DEFB4B	Defensin beta 4B	0.6424	16
SDR16C5	Short chain dehydrogenase/reductase family 16C member 5	0.6412	26
S100A11	S100 calcium binding protein A11	0.6408	16
PRDX5	Peroxiredoxin 5	0.6393	26
MYL12B	Myosin light chain 12B	0.6367	16
C15orf48	Chromosome 15 open reading frame 48	0.6324	16

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	1.6 nTPM
Breast	2.8 nTPM
Adipose tissue	0.3 nTPM

Alveolar cells type 1	0.0 nTPM
Lung	0.0 nTPM

Alveolar cells type 2	0.0 nTPM
Lung	0.0 nTPM

Astrocytes	1.0 nTPM
Brain	1.0 nTPM

B-cells	11.5 nTPM
Liver	40.0 nTPM
Breast	26.8 nTPM
Spleen	10.0 nTPM
Stomach	9.1 nTPM
Adipose tissue	8.1 nTPM
Bone marrow	8.1 nTPM
Lymph node	7.2 nTPM
Colon	3.2 nTPM
PBMC	2.8 nTPM
Kidney	0.0 nTPM

Dendritic cells	6.2 nTPM
Adipose tissue	11.0 nTPM
Breast	7.6 nTPM
PBMC	0.0 nTPM

Endothelial cells	2.6 nTPM
Ovary	9.9 nTPM
Lung	6.2 nTPM
Breast	3.7 nTPM
Prostate	3.1 nTPM
Eye	2.4 nTPM
Heart muscle	2.0 nTPM
Liver	1.8 nTPM
Testis	1.8 nTPM
Esophagus	1.6 nTPM
Endometrium	1.3 nTPM
Placenta	1.1 nTPM
Skin	1.1 nTPM
Skeletal muscle	0.2 nTPM
Pancreas	0.0 nTPM

Fibroblasts	7.7 nTPM
Breast	25.3 nTPM
Esophagus	12.3 nTPM
Skeletal muscle	9.7 nTPM
Prostate	7.2 nTPM
Lung	5.6 nTPM
Placenta	5.3 nTPM
Adipose tissue	4.6 nTPM
Ovary	4.5 nTPM
Stomach	4.4 nTPM
Skin	4.1 nTPM
Heart muscle	1.7 nTPM

Intestinal goblet cells	6.3 nTPM
Small intestine	12.2 nTPM
Rectum	4.6 nTPM
Colon	2.2 nTPM

Macrophages	2.9 nTPM
Pancreas	12.8 nTPM
Esophagus	6.3 nTPM
Endometrium	4.4 nTPM
Spleen	4.2 nTPM
Breast	4.2 nTPM
Bone marrow	2.5 nTPM
Kidney	2.3 nTPM
Lung	2.1 nTPM
Adipose tissue	1.8 nTPM
Testis	1.2 nTPM
Ovary	0.8 nTPM
Skeletal muscle	0.4 nTPM
Prostate	0.0 nTPM
PBMC	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	12.1 nTPM
Colon	19.7 nTPM
Small intestine	11.3 nTPM
Rectum	5.2 nTPM

Plasma cells	38.7 nTPM
Bone marrow	67.6 nTPM
Spleen	57.1 nTPM
Esophagus	36.9 nTPM
Stomach	22.4 nTPM
Adipose tissue	9.7 nTPM

Respiratory ciliated cells	221.9 nTPM
Bronchus	427.7 nTPM
Lung	16.0 nTPM

Smooth muscle cells	20.8 nTPM
Bronchus	184.0 nTPM
Pancreas	11.7 nTPM
Breast	9.6 nTPM
Ovary	7.6 nTPM
Endometrium	6.0 nTPM
Prostate	4.7 nTPM
Skeletal muscle	2.7 nTPM
Heart muscle	1.1 nTPM
Adipose tissue	0.9 nTPM
Skin	0.7 nTPM
Esophagus	0.0 nTPM

T-cells	12.7 nTPM
Esophagus	26.2 nTPM
Colon	19.0 nTPM
Adipose tissue	18.9 nTPM
Ovary	17.8 nTPM
Liver	16.1 nTPM
Spleen	15.8 nTPM
Endometrium	14.8 nTPM
Skin	14.3 nTPM
Bone marrow	13.8 nTPM
Skeletal muscle	10.5 nTPM
Breast	9.8 nTPM
Stomach	8.8 nTPM
Kidney	8.2 nTPM
Lung	7.6 nTPM
Lymph node	5.7 nTPM
Prostate	4.7 nTPM
PBMC	3.4 nTPM

Cytotrophoblasts	27.9 nTPM
Placenta	27.9 nTPM

Endometrial stromal cells	6.7 nTPM
Endometrium	6.7 nTPM

Exocrine glandular cells	26.4 nTPM
Pancreas	26.4 nTPM

Undifferentiated cells	3.8 nTPM
Small intestine	7.1 nTPM
Colon	2.3 nTPM
Rectum	2.1 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