Single cell type - PGGHG - 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.	PGGHG
Gene descriptionⁱ Full gene name according to HGNC.	Protein-glucosylgalactosylhydroxylysine glucosidase
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.	4

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	Alveolar cells - Smell perception (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 (Alveolar cells type 1, Alveolar cells type 2, Breast glandular cells, Collecting duct 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	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	Cell line enhanced (JURKAT, U-266/70)
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 (Alveolar cells type 1, Alveolar cells type 2, Breast glandular cells, Collecting duct 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

PGGHG is part of cluster 11 Alveolar cells - Smell perception with confidenceⁱ 1
281 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
AC008397.2	Novel protein	0.8476	11
AL157392.5	Novel protein	0.7855	7
OR51M1	Olfactory receptor family 51 subfamily M member 1	0.7802	11
IQCN	IQ motif containing N	0.7396	7
AC026464.4	Novel protein	0.7042	11
SFTPA2	Surfactant protein A2	0.6952	11
SFTPA1	Surfactant protein A1	0.6914	11
BICRA	BRD4 interacting chromatin remodeling complex associated protein	0.6896	7
FO681492.1	Synaptotagmin-15	0.6883	11
AL592490.1	Novel protein	0.6881	11
SFTPC	Surfactant protein C	0.6851	11
SFTPB	Surfactant protein B	0.6829	11
SFTPD	Surfactant protein D	0.6813	11
CSKMT	Citrate synthase lysine methyltransferase	0.6767	7
AGTR2	Angiotensin II receptor type 2	0.6760	11

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	17.8 nTPM
Breast	19.5 nTPM
Adipose tissue	16.2 nTPM

Astrocytes	0.0 nTPM
Brain	0.0 nTPM

B-cells	9.1 nTPM
Breast	48.1 nTPM
Adipose tissue	28.1 nTPM
Kidney	14.3 nTPM
Colon	0.0 nTPM
Liver	0.0 nTPM
PBMC	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Basal keratinocytes	0.0 nTPM
Skin	0.0 nTPM

Basal prostatic cells	0.0 nTPM
Prostate	0.0 nTPM

Dendritic cells	29.8 nTPM
Breast	54.3 nTPM
Adipose tissue	35.2 nTPM
PBMC	0.0 nTPM

Endothelial cells	4.5 nTPM
Lung	24.9 nTPM
Breast	15.7 nTPM
Endometrium	7.7 nTPM
Ovary	6.8 nTPM
Pancreas	3.9 nTPM
Placenta	3.4 nTPM
Eye	0.0 nTPM
Heart muscle	0.0 nTPM
Liver	0.0 nTPM
Prostate	0.0 nTPM
Testis	0.0 nTPM
Skin	0.0 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM

Fibroblasts	4.2 nTPM
Lung	17.9 nTPM
Adipose tissue	9.1 nTPM
Breast	7.8 nTPM
Placenta	7.1 nTPM
Ovary	4.1 nTPM
Heart muscle	0.0 nTPM
Prostate	0.0 nTPM
Skin	0.0 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM
Stomach	0.0 nTPM

Intestinal goblet cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Macrophages	5.8 nTPM
Breast	22.0 nTPM
Lung	19.6 nTPM
Adipose tissue	15.7 nTPM
Ovary	11.5 nTPM
Endometrium	7.9 nTPM
Kidney	7.6 nTPM
Pancreas	2.5 nTPM
Prostate	0.0 nTPM
PBMC	0.0 nTPM
Testis	0.0 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 nTPM

Plasma cells	16.1 nTPM
Adipose tissue	80.7 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Respiratory ciliated cells	10.2 nTPM
Lung	20.4 nTPM
Bronchus	0.0 nTPM

Smooth muscle cells	7.2 nTPM
Breast	30.9 nTPM
Adipose tissue	23.6 nTPM
Endometrium	13.6 nTPM
Pancreas	6.0 nTPM
Ovary	5.0 nTPM
Heart muscle	0.0 nTPM
Prostate	0.0 nTPM
Skin	0.0 nTPM
Bronchus	0.0 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM

T-cells	14.4 nTPM
Breast	64.5 nTPM
Adipose tissue	53.4 nTPM
Endometrium	49.9 nTPM
Lung	47.1 nTPM
Ovary	20.1 nTPM
Kidney	10.2 nTPM
Colon	0.0 nTPM
Liver	0.0 nTPM
Prostate	0.0 nTPM
PBMC	0.0 nTPM
Skin	0.0 nTPM
Skeletal muscle	0.0 nTPM
Esophagus	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Cytotrophoblasts	0.3 nTPM
Placenta	0.3 nTPM

Endometrial stromal cells	12.0 nTPM
Endometrium	12.0 nTPM

Undifferentiated cells	0.0 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM
Rectum	0.0 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