Single cell type - CTBS - 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.	CTBS
Gene descriptionⁱ Full gene name according to HGNC.	Chitobiase
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	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.	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	Monocytes & Neutrophils - Innate 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	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	Not detected in immune cells
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	Not detected
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 some
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

CTBS is part of cluster 19 Monocytes & Neutrophils - Innate immune response with confidenceⁱ 1
175 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
TLR4	Toll like receptor 4	0.6061	19
GNS	Glucosamine (N-acetyl)-6-sulfatase	0.5533	19
NAAA	N-acylethanolamine acid amidase	0.5481	45
NFAM1	NFAT activating protein with ITAM motif 1	0.5381	19
DOK3	Docking protein 3	0.5308	19
SPIC	Spi-C transcription factor	0.5223	19
HCLS1	Hematopoietic cell-specific Lyn substrate 1	0.5142	63
SIGLEC14	Sialic acid binding Ig like lectin 14	0.5133	19
LRRC25	Leucine rich repeat containing 25	0.5100	19
LYZ	Lysozyme	0.5089	19
LY96	Lymphocyte antigen 96	0.5085	4
TLR1	Toll like receptor 1	0.5048	57
LILRB1	Leukocyte immunoglobulin like receptor B1	0.4995	19
GNPTG	N-acetylglucosamine-1-phosphate transferase subunit gamma	0.4953	59
OAS2	2'-5'-oligoadenylate synthetase 2	0.4940	14

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	43.6 nTPM
Adipose tissue	51.4 nTPM
Breast	35.9 nTPM

Alveolar cells type 1	9.6 nTPM
Lung	9.6 nTPM

Alveolar cells type 2	23.4 nTPM
Lung	23.4 nTPM

Astrocytes	10.4 nTPM
Brain	10.4 nTPM

B-cells	37.4 nTPM
Stomach	46.4 nTPM
Colon	44.8 nTPM
Breast	41.5 nTPM
Lymph node	41.4 nTPM
Bone marrow	40.0 nTPM
Liver	36.5 nTPM
Spleen	34.3 nTPM
Kidney	33.4 nTPM
Adipose tissue	29.1 nTPM
PBMC	27.1 nTPM

Dendritic cells	25.4 nTPM
PBMC	31.8 nTPM
Adipose tissue	27.1 nTPM
Breast	17.1 nTPM

Endothelial cells	29.9 nTPM
Liver	43.1 nTPM
Esophagus	42.7 nTPM
Eye	42.1 nTPM
Skeletal muscle	41.7 nTPM
Testis	37.0 nTPM
Heart muscle	32.6 nTPM
Prostate	32.6 nTPM
Breast	28.7 nTPM
Ovary	23.0 nTPM
Skin	20.5 nTPM
Endometrium	20.4 nTPM
Pancreas	19.3 nTPM
Lung	18.7 nTPM
Placenta	16.5 nTPM

Fibroblasts	28.1 nTPM
Esophagus	48.2 nTPM
Adipose tissue	40.9 nTPM
Stomach	34.1 nTPM
Breast	31.8 nTPM
Skeletal muscle	30.3 nTPM
Prostate	30.2 nTPM
Placenta	25.0 nTPM
Heart muscle	21.2 nTPM
Skin	20.0 nTPM
Lung	16.8 nTPM
Ovary	10.3 nTPM

Intestinal goblet cells	18.9 nTPM
Rectum	29.4 nTPM
Small intestine	16.5 nTPM
Colon	10.7 nTPM

Macrophages	58.8 nTPM
Bone marrow	92.4 nTPM
Spleen	89.2 nTPM
Ovary	86.4 nTPM
Adipose tissue	79.2 nTPM
Stomach	76.2 nTPM
Testis	68.6 nTPM
Lung	67.1 nTPM
Skeletal muscle	51.4 nTPM
Esophagus	50.4 nTPM
Prostate	48.2 nTPM
Pancreas	43.4 nTPM
Kidney	41.5 nTPM
Breast	34.8 nTPM
PBMC	27.3 nTPM
Endometrium	26.6 nTPM

Paneth cells	25.2 nTPM
Rectum	33.3 nTPM
Small intestine	22.5 nTPM
Colon	19.7 nTPM

Plasma cells	59.8 nTPM
Stomach	114.7 nTPM
Spleen	69.3 nTPM
Esophagus	49.4 nTPM
Bone marrow	41.2 nTPM
Adipose tissue	24.5 nTPM

Respiratory ciliated cells	38.2 nTPM
Bronchus	47.3 nTPM
Lung	29.1 nTPM

Smooth muscle cells	16.6 nTPM
Adipose tissue	30.1 nTPM
Esophagus	24.8 nTPM
Pancreas	21.1 nTPM
Skeletal muscle	17.1 nTPM
Prostate	16.2 nTPM
Breast	15.4 nTPM
Bronchus	13.3 nTPM
Ovary	12.0 nTPM
Endometrium	11.9 nTPM
Skin	11.5 nTPM
Heart muscle	9.1 nTPM

T-cells	26.8 nTPM
Lymph node	49.0 nTPM
Esophagus	45.9 nTPM
Bone marrow	37.2 nTPM
Stomach	36.8 nTPM
Spleen	34.0 nTPM
Colon	30.0 nTPM
PBMC	28.6 nTPM
Adipose tissue	27.3 nTPM
Ovary	26.7 nTPM
Kidney	24.0 nTPM
Breast	22.6 nTPM
Skin	22.1 nTPM
Liver	19.3 nTPM
Skeletal muscle	19.1 nTPM
Endometrium	15.3 nTPM
Prostate	9.5 nTPM
Lung	9.1 nTPM

Basal respiratory cells	28.0 nTPM
Bronchus	28.0 nTPM

Cholangiocytes	31.5 nTPM
Liver	31.5 nTPM

Collecting duct cells	23.9 nTPM
Kidney	23.9 nTPM

Distal tubular cells	43.0 nTPM
Kidney	43.0 nTPM

Undifferentiated cells	18.4 nTPM
Rectum	24.5 nTPM
Small intestine	17.5 nTPM
Colon	13.1 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