Single cell type - CSGALNACT2 - 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.	CSGALNACT2
Gene descriptionⁱ Full gene name according to HGNC.	Chondroitin sulfate N-acetylgalactosaminyltransferase 2
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.	1

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	Macrophages - Immune response (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 (Langerhans 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	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 (Langerhans 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

CSGALNACT2 is part of cluster 41 Macrophages - Immune response with confidenceⁱ 1
307 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
IL1B	Interleukin 1 beta	0.8175	41
EREG	Epiregulin	0.8108	41
LIPN	Lipase family member N	0.7985	41
C5AR1	Complement C5a receptor 1	0.7911	41
NAMPT	Nicotinamide phosphoribosyltransferase	0.7762	41
CYSLTR2	Cysteinyl leukotriene receptor 2	0.7704	41
FPR2	Formyl peptide receptor 2	0.7657	41
C9orf72	C9orf72-SMCR8 complex subunit	0.7604	41
THBS1	Thrombospondin 1	0.7593	41
TET2	Tet methylcytosine dioxygenase 2	0.7415	41
NLRP3	NLR family pyrin domain containing 3	0.7376	41
BCL2A1	BCL2 related protein A1	0.7346	41
IRAK3	Interleukin 1 receptor associated kinase 3	0.7326	41
ITGAX	Integrin subunit alpha X	0.7297	41
C5AR2	Complement component 5a receptor 2	0.7268	41

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	16.3 nTPM
Breast	16.7 nTPM
Adipose tissue	15.9 nTPM

Alveolar cells type 1	16.0 nTPM
Lung	16.0 nTPM

Alveolar cells type 2	18.7 nTPM
Lung	18.7 nTPM

Astrocytes	23.8 nTPM
Brain	23.8 nTPM

B-cells	20.5 nTPM
Adipose tissue	44.1 nTPM
Colon	27.1 nTPM
Spleen	23.9 nTPM
Lymph node	22.8 nTPM
Breast	22.8 nTPM
Stomach	22.7 nTPM
Bone marrow	18.0 nTPM
Liver	13.4 nTPM
PBMC	9.9 nTPM
Kidney	0.0 nTPM

Dendritic cells	47.8 nTPM
Adipose tissue	69.7 nTPM
Breast	57.6 nTPM
PBMC	16.0 nTPM

Endothelial cells	16.8 nTPM
Heart muscle	34.2 nTPM
Prostate	29.8 nTPM
Pancreas	27.0 nTPM
Skin	21.1 nTPM
Skeletal muscle	17.6 nTPM
Eye	14.6 nTPM
Ovary	14.6 nTPM
Breast	14.5 nTPM
Endometrium	13.6 nTPM
Esophagus	12.8 nTPM
Lung	12.5 nTPM
Liver	9.2 nTPM
Testis	8.3 nTPM
Placenta	5.1 nTPM

Fibroblasts	31.4 nTPM
Prostate	85.9 nTPM
Heart muscle	43.6 nTPM
Skin	35.5 nTPM
Esophagus	29.6 nTPM
Lung	29.0 nTPM
Skeletal muscle	28.2 nTPM
Adipose tissue	27.1 nTPM
Breast	24.8 nTPM
Stomach	20.8 nTPM
Placenta	10.8 nTPM
Ovary	9.6 nTPM

Intestinal goblet cells	1.6 nTPM
Rectum	2.7 nTPM
Small intestine	2.2 nTPM
Colon	0.0 nTPM

Macrophages	82.6 nTPM
Adipose tissue	234.9 nTPM
Skeletal muscle	152.5 nTPM
Stomach	152.3 nTPM
Prostate	125.0 nTPM
Spleen	103.7 nTPM
Testis	75.0 nTPM
Bone marrow	72.4 nTPM
Lung	59.3 nTPM
Endometrium	52.7 nTPM
Ovary	49.4 nTPM
Kidney	49.1 nTPM
Esophagus	48.7 nTPM
Breast	38.3 nTPM
Pancreas	25.5 nTPM
PBMC	0.0 nTPM

Paneth cells	3.1 nTPM
Small intestine	7.5 nTPM
Rectum	1.9 nTPM
Colon	0.0 nTPM

Plasma cells	33.8 nTPM
Adipose tissue	72.2 nTPM
Stomach	36.5 nTPM
Spleen	26.7 nTPM
Bone marrow	21.4 nTPM
Esophagus	12.3 nTPM

Respiratory ciliated cells	5.8 nTPM
Lung	7.3 nTPM
Bronchus	4.3 nTPM

Smooth muscle cells	25.3 nTPM
Heart muscle	54.0 nTPM
Prostate	34.0 nTPM
Endometrium	32.0 nTPM
Pancreas	29.1 nTPM
Ovary	25.7 nTPM
Adipose tissue	25.1 nTPM
Skeletal muscle	22.1 nTPM
Esophagus	18.6 nTPM
Breast	18.0 nTPM
Skin	17.0 nTPM
Bronchus	2.8 nTPM

T-cells	37.4 nTPM
Adipose tissue	78.6 nTPM
Prostate	71.1 nTPM
Skeletal muscle	50.2 nTPM
Skin	47.5 nTPM
Breast	40.0 nTPM
Spleen	39.3 nTPM
Lymph node	38.3 nTPM
Bone marrow	38.2 nTPM
Lung	38.0 nTPM
Endometrium	36.7 nTPM
Colon	35.6 nTPM
Ovary	31.1 nTPM
Stomach	27.5 nTPM
PBMC	22.6 nTPM
Kidney	20.5 nTPM
Liver	15.0 nTPM
Esophagus	6.6 nTPM

Basal keratinocytes	17.7 nTPM
Skin	17.7 nTPM

Basal prostatic cells	13.3 nTPM
Prostate	13.3 nTPM

Basal respiratory cells	7.0 nTPM
Bronchus	7.0 nTPM

Basal squamous epithelial cells	6.2 nTPM
Esophagus	6.2 nTPM

Undifferentiated cells	1.6 nTPM
Small intestine	2.2 nTPM
Rectum	2.0 nTPM
Colon	0.7 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