Single cell type - CDKN2D - 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.	CDKN2D
Gene descriptionⁱ Full gene name according to HGNC.	Cyclin dependent kinase inhibitor 2D
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.	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. Read more	Myeloid cells - Hemostasis (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 (NK-cells, dendritic cells, Spermatocytes, Erythroid cells, Macrophages)
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	Cell line enhanced (HEL, MOLT-4)
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 (NK-cells, dendritic cells, Spermatocytes, Erythroid cells, Macrophages)

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

CDKN2D is part of cluster 51 Myeloid cells - Hemostasis with confidenceⁱ 1
155 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
SCGB1C1	Secretoglobin family 1C member 1	0.7917	51
RGS18	Regulator of G protein signaling 18	0.7896	51
ALOX12	Arachidonate 12-lipoxygenase, 12S type	0.7847	51
PF4	Platelet factor 4	0.7838	51
HBG1	Hemoglobin subunit gamma 1	0.7823	51
TUBB1	Tubulin beta 1 class VI	0.7822	51
LY6G6F	Lymphocyte antigen 6 family member G6F	0.7821	51
PPBP	Pro-platelet basic protein	0.7792	51
GP9	Glycoprotein IX platelet	0.7775	51
SLFN14	Schlafen family member 14	0.7758	51
PTPN18	Protein tyrosine phosphatase non-receptor type 18	0.7753	51
TREML1	Triggering receptor expressed on myeloid cells like 1	0.7739	51
GP1BA	Glycoprotein Ib platelet subunit alpha	0.7648	51
MAP3K7CL	MAP3K7 C-terminal like	0.7628	51
CMTM5	CKLF like MARVEL transmembrane domain containing 5	0.7585	51

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	35.2 nTPM
Breast	41.9 nTPM
Adipose tissue	28.5 nTPM

Alveolar cells type 1	6.4 nTPM
Lung	6.4 nTPM

Alveolar cells type 2	7.0 nTPM
Lung	7.0 nTPM

Astrocytes	4.6 nTPM
Brain	4.6 nTPM

B-cells	65.2 nTPM
Adipose tissue	149.4 nTPM
Lymph node	119.5 nTPM
PBMC	74.3 nTPM
Breast	72.2 nTPM
Kidney	52.4 nTPM
Colon	51.1 nTPM
Bone marrow	42.5 nTPM
Stomach	36.3 nTPM
Liver	28.5 nTPM
Spleen	25.6 nTPM

Dendritic cells	146.8 nTPM
PBMC	187.3 nTPM
Breast	134.4 nTPM
Adipose tissue	118.6 nTPM

Endothelial cells	29.3 nTPM
Esophagus	70.2 nTPM
Skin	64.6 nTPM
Liver	43.1 nTPM
Skeletal muscle	39.7 nTPM
Eye	31.6 nTPM
Breast	28.5 nTPM
Prostate	28.4 nTPM
Ovary	25.6 nTPM
Placenta	16.5 nTPM
Endometrium	16.2 nTPM
Lung	15.6 nTPM
Testis	15.4 nTPM
Heart muscle	10.6 nTPM
Pancreas	3.9 nTPM

Erythroid cells	116.6 nTPM
Liver	197.9 nTPM
Bone marrow	35.3 nTPM

Fibroblasts	11.0 nTPM
Skin	29.5 nTPM
Breast	13.2 nTPM
Placenta	12.8 nTPM
Skeletal muscle	9.9 nTPM
Prostate	9.8 nTPM
Esophagus	9.3 nTPM
Heart muscle	9.1 nTPM
Lung	7.8 nTPM
Ovary	7.4 nTPM
Adipose tissue	6.6 nTPM
Stomach	6.0 nTPM

Intestinal goblet cells	6.4 nTPM
Colon	9.3 nTPM
Rectum	5.7 nTPM
Small intestine	4.3 nTPM

Macrophages	105.4 nTPM
PBMC	1050.3 nTPM
Kidney	66.6 nTPM
Skeletal muscle	60.3 nTPM
Adipose tissue	59.5 nTPM
Bone marrow	54.9 nTPM
Stomach	52.7 nTPM
Spleen	40.4 nTPM
Endometrium	34.8 nTPM
Breast	32.2 nTPM
Prostate	31.0 nTPM
Esophagus	23.6 nTPM
Lung	22.7 nTPM
Testis	22.1 nTPM
Pancreas	17.8 nTPM
Ovary	11.6 nTPM

Paneth cells	9.4 nTPM
Colon	13.2 nTPM
Small intestine	11.3 nTPM
Rectum	3.7 nTPM

Plasma cells	9.2 nTPM
Adipose tissue	21.9 nTPM
Bone marrow	8.2 nTPM
Esophagus	6.1 nTPM
Spleen	5.3 nTPM
Stomach	4.4 nTPM

Respiratory ciliated cells	10.9 nTPM
Bronchus	15.9 nTPM
Lung	5.8 nTPM

Smooth muscle cells	25.8 nTPM
Skin	39.7 nTPM
Breast	34.1 nTPM
Prostate	34.0 nTPM
Esophagus	32.5 nTPM
Ovary	31.4 nTPM
Endometrium	20.3 nTPM
Heart muscle	20.1 nTPM
Bronchus	18.9 nTPM
Adipose tissue	18.5 nTPM
Pancreas	18.2 nTPM
Skeletal muscle	15.5 nTPM

Basal keratinocytes	23.2 nTPM
Skin	23.2 nTPM

Basal prostatic cells	13.7 nTPM
Prostate	13.7 nTPM

Basal respiratory cells	17.1 nTPM
Bronchus	17.1 nTPM

Basal squamous epithelial cells	38.7 nTPM
Esophagus	38.7 nTPM

T-cells	63.4 nTPM
Skin	136.7 nTPM
Adipose tissue	91.3 nTPM
Skeletal muscle	83.8 nTPM
Ovary	82.3 nTPM
Lymph node	81.3 nTPM
Breast	71.9 nTPM
Kidney	67.8 nTPM
PBMC	66.8 nTPM
Esophagus	65.5 nTPM
Liver	62.2 nTPM
Endometrium	51.9 nTPM
Bone marrow	45.6 nTPM
Lung	41.0 nTPM
Prostate	37.9 nTPM
Spleen	35.3 nTPM
Colon	34.7 nTPM
Stomach	22.1 nTPM

Undifferentiated cells	6.9 nTPM
Colon	7.6 nTPM
Rectum	7.1 nTPM
Small intestine	6.0 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