Single cell type - PTPN12 - 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.	PTPN12
Gene descriptionⁱ Full gene name according to HGNC.	Protein tyrosine phosphatase non-receptor type 12
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Enzymes Metabolic 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.	8

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	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 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	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

PTPN12 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
GFOD1	Glucose-fructose oxidoreductase domain containing 1	0.5255	14
DENND3	DENN domain containing 3	0.5085	21
TACC1	Transforming acidic coiled-coil containing protein 1	0.4941	14
KCTD10	Potassium channel tetramerization domain containing 10	0.4739	63
F2RL3	F2R like thrombin or trypsin receptor 3	0.4569	51
SSH1	Slingshot protein phosphatase 1	0.4485	14
TBXA2R	Thromboxane A2 receptor	0.4451	51
SUSD1	Sushi domain containing 1	0.4399	51
KLF7	Kruppel like factor 7	0.4381	41
TAOK1	TAO kinase 1	0.4348	10
MAP3K3	Mitogen-activated protein kinase kinase kinase 3	0.4322	19
MAPK1	Mitogen-activated protein kinase 1	0.4298	63
HIPK3	Homeodomain interacting protein kinase 3	0.4249	14
OSBPL5	Oxysterol binding protein like 5	0.4249	63
RAP2A	RAP2A, member of RAS oncogene family	0.4195	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	139.3 nTPM
Adipose tissue	172.0 nTPM
Breast	106.7 nTPM

Alveolar cells type 1	70.5 nTPM
Lung	70.5 nTPM

Alveolar cells type 2	56.2 nTPM
Lung	56.2 nTPM

Astrocytes	30.0 nTPM
Brain	30.0 nTPM

B-cells	18.2 nTPM
Adipose tissue	43.7 nTPM
PBMC	25.7 nTPM
Stomach	20.0 nTPM
Liver	17.6 nTPM
Spleen	15.3 nTPM
Lymph node	15.1 nTPM
Bone marrow	14.7 nTPM
Colon	14.4 nTPM
Breast	10.7 nTPM
Kidney	4.8 nTPM

Dendritic cells	89.0 nTPM
Adipose tissue	209.1 nTPM
Breast	53.9 nTPM
PBMC	4.0 nTPM

Endothelial cells	114.4 nTPM
Prostate	204.0 nTPM
Heart muscle	158.4 nTPM
Skin	158.2 nTPM
Skeletal muscle	153.0 nTPM
Ovary	114.6 nTPM
Liver	107.3 nTPM
Lung	106.0 nTPM
Endometrium	102.4 nTPM
Breast	97.4 nTPM
Esophagus	93.6 nTPM
Testis	91.3 nTPM
Eye	75.2 nTPM
Placenta	73.9 nTPM
Pancreas	65.6 nTPM

Fibroblasts	54.6 nTPM
Adipose tissue	79.7 nTPM
Skin	78.6 nTPM
Skeletal muscle	74.3 nTPM
Heart muscle	74.1 nTPM
Prostate	60.8 nTPM
Stomach	52.0 nTPM
Breast	44.3 nTPM
Placenta	38.2 nTPM
Esophagus	36.5 nTPM
Lung	34.7 nTPM
Ovary	27.3 nTPM

Intestinal goblet cells	21.7 nTPM
Rectum	26.8 nTPM
Colon	22.1 nTPM
Small intestine	16.2 nTPM

Macrophages	96.1 nTPM
PBMC	190.9 nTPM
Stomach	128.9 nTPM
Lung	123.9 nTPM
Pancreas	122.5 nTPM
Adipose tissue	113.9 nTPM
Spleen	113.0 nTPM
Esophagus	88.1 nTPM
Kidney	83.9 nTPM
Bone marrow	78.8 nTPM
Prostate	78.0 nTPM
Testis	74.4 nTPM
Skeletal muscle	73.1 nTPM
Endometrium	67.4 nTPM
Ovary	64.5 nTPM
Breast	40.8 nTPM

Paneth cells	21.4 nTPM
Rectum	26.0 nTPM
Colon	23.1 nTPM
Small intestine	15.0 nTPM

Plasma cells	17.6 nTPM
Adipose tissue	67.1 nTPM
Spleen	6.9 nTPM
Esophagus	6.1 nTPM
Stomach	6.0 nTPM
Bone marrow	1.7 nTPM

Respiratory ciliated cells	23.2 nTPM
Bronchus	28.9 nTPM
Lung	17.5 nTPM

Smooth muscle cells	66.8 nTPM
Heart muscle	116.2 nTPM
Skeletal muscle	100.8 nTPM
Adipose tissue	86.0 nTPM
Pancreas	75.3 nTPM
Endometrium	69.1 nTPM
Ovary	67.6 nTPM
Prostate	60.0 nTPM
Skin	53.4 nTPM
Bronchus	42.3 nTPM
Breast	35.9 nTPM
Esophagus	27.9 nTPM

T-cells	27.3 nTPM
Liver	68.0 nTPM
Lung	57.7 nTPM
Skeletal muscle	54.0 nTPM
Endometrium	45.5 nTPM
Ovary	33.3 nTPM
Adipose tissue	30.1 nTPM
Kidney	28.0 nTPM
Bone marrow	23.5 nTPM
Colon	19.5 nTPM
Prostate	19.0 nTPM
Skin	18.5 nTPM
PBMC	16.7 nTPM
Spleen	16.7 nTPM
Breast	13.3 nTPM
Stomach	8.5 nTPM
Esophagus	6.6 nTPM
Lymph node	5.0 nTPM

Basal keratinocytes	68.8 nTPM
Skin	68.8 nTPM

Basal respiratory cells	55.9 nTPM
Bronchus	55.9 nTPM

Basal squamous epithelial cells	23.9 nTPM
Esophagus	23.9 nTPM

Cholangiocytes	28.6 nTPM
Liver	28.6 nTPM

Undifferentiated cells	23.3 nTPM
Colon	33.1 nTPM
Rectum	21.1 nTPM
Small intestine	15.8 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