Single cell type - GAR1 - 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.	GAR1
Gene descriptionⁱ Full gene name according to HGNC.	GAR1 ribonucleoprotein
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.	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	Non-specific - Basic cellular processes (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

GAR1 is part of cluster 39 Non-specific - Basic cellular processes with confidenceⁱ 0.99
586 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
CCT6A	Chaperonin containing TCP1 subunit 6A	0.6175	39
PUS1	Pseudouridine synthase 1	0.6167	39
NOB1	NIN1 (RPN12) binding protein 1 homolog	0.6164	32
STOML2	Stomatin like 2	0.5995	39
BYSL	Bystin like	0.5890	39
CDK4	Cyclin dependent kinase 4	0.5833	39
MRTO4	MRT4 homolog, ribosome maturation factor	0.5751	39
GPATCH4	G-patch domain containing 4	0.5606	39
NIFK	Nucleolar protein interacting with the FHA domain of MKI67	0.5536	39
PAICS	Phosphoribosylaminoimidazole carboxylase and phosphoribosylaminoimidazolesuccinocarboxamide synthase	0.5533	12
ATAD3A	ATPase family AAA domain containing 3A	0.5443	39
DPH2	Diphthamide biosynthesis 2	0.5410	39
DKC1	Dyskerin pseudouridine synthase 1	0.5369	39
ALDH1B1	Aldehyde dehydrogenase 1 family member B1	0.5295	39
C16orf91	Chromosome 16 open reading frame 91	0.5285	39

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	25.2 nTPM
Breast	25.4 nTPM
Adipose tissue	24.9 nTPM

Alveolar cells type 1	3.2 nTPM
Lung	3.2 nTPM

Alveolar cells type 2	17.0 nTPM
Lung	17.0 nTPM

Astrocytes	4.6 nTPM
Brain	4.6 nTPM

B-cells	29.0 nTPM
Liver	42.3 nTPM
PBMC	37.1 nTPM
Kidney	33.4 nTPM
Spleen	31.8 nTPM
Stomach	29.0 nTPM
Colon	28.7 nTPM
Lymph node	25.8 nTPM
Bone marrow	22.1 nTPM
Breast	21.3 nTPM
Adipose tissue	18.0 nTPM

Dendritic cells	23.4 nTPM
Breast	24.5 nTPM
PBMC	23.9 nTPM
Adipose tissue	21.7 nTPM

Endothelial cells	30.9 nTPM
Pancreas	73.4 nTPM
Placenta	51.2 nTPM
Prostate	41.7 nTPM
Ovary	37.0 nTPM
Endometrium	35.5 nTPM
Skin	29.5 nTPM
Skeletal muscle	28.3 nTPM
Lung	28.1 nTPM
Breast	25.0 nTPM
Testis	24.3 nTPM
Esophagus	20.6 nTPM
Eye	16.2 nTPM
Liver	13.7 nTPM
Heart muscle	8.6 nTPM

Fibroblasts	24.7 nTPM
Placenta	45.1 nTPM
Ovary	44.2 nTPM
Lung	33.5 nTPM
Skeletal muscle	24.9 nTPM
Breast	22.3 nTPM
Prostate	20.5 nTPM
Adipose tissue	20.5 nTPM
Stomach	19.3 nTPM
Skin	19.1 nTPM
Esophagus	14.0 nTPM
Heart muscle	8.6 nTPM

Intestinal goblet cells	40.7 nTPM
Colon	57.2 nTPM
Rectum	35.1 nTPM
Small intestine	29.8 nTPM

Macrophages	16.0 nTPM
Endometrium	31.8 nTPM
Kidney	27.2 nTPM
Breast	24.7 nTPM
Lung	21.5 nTPM
Pancreas	20.4 nTPM
Adipose tissue	20.4 nTPM
Skeletal muscle	18.0 nTPM
Spleen	15.6 nTPM
Prostate	13.8 nTPM
Ovary	11.8 nTPM
Bone marrow	11.3 nTPM
Esophagus	11.0 nTPM
Testis	10.5 nTPM
Stomach	2.9 nTPM
PBMC	0.0 nTPM

Paneth cells	22.7 nTPM
Rectum	31.7 nTPM
Small intestine	26.3 nTPM
Colon	9.9 nTPM

Plasma cells	24.7 nTPM
Bone marrow	44.5 nTPM
Spleen	34.7 nTPM
Stomach	20.2 nTPM
Esophagus	12.3 nTPM
Adipose tissue	11.6 nTPM

Respiratory ciliated cells	35.6 nTPM
Lung	37.9 nTPM
Bronchus	33.3 nTPM

Smooth muscle cells	27.7 nTPM
Pancreas	60.5 nTPM
Ovary	46.3 nTPM
Skeletal muscle	32.4 nTPM
Skin	31.7 nTPM
Endometrium	30.5 nTPM
Breast	22.4 nTPM
Adipose tissue	20.8 nTPM
Prostate	19.4 nTPM
Bronchus	14.1 nTPM
Heart muscle	13.7 nTPM
Esophagus	12.4 nTPM

T-cells	24.8 nTPM
Endometrium	33.3 nTPM
Esophagus	32.8 nTPM
Lymph node	29.7 nTPM
Prostate	28.4 nTPM
Breast	27.7 nTPM
Adipose tissue	26.8 nTPM
Ovary	26.7 nTPM
PBMC	26.6 nTPM
Stomach	25.0 nTPM
Bone marrow	24.6 nTPM
Spleen	24.6 nTPM
Kidney	21.2 nTPM
Skeletal muscle	20.4 nTPM
Liver	19.9 nTPM
Lung	19.7 nTPM
Colon	19.5 nTPM
Skin	14.3 nTPM

Basal keratinocytes	57.9 nTPM
Skin	57.9 nTPM

Basal prostatic cells	40.9 nTPM
Prostate	40.9 nTPM

Basal respiratory cells	42.7 nTPM
Bronchus	42.7 nTPM

Basal squamous epithelial cells	27.3 nTPM
Esophagus	27.3 nTPM

Undifferentiated cells	46.1 nTPM
Colon	51.5 nTPM
Small intestine	45.5 nTPM
Rectum	41.1 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