Single cell type - ATXN7L3B - 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.	ATXN7L3B
Gene descriptionⁱ Full gene name according to HGNC.	Ataxin 7 like 3B
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Disease related genes
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	Non-specific - Unknown function (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 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: 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

ATXN7L3B is part of cluster 10 Non-specific - Unknown function with confidenceⁱ 1
482 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
UTP3	UTP3 small subunit processome component	0.6015	10
SRRM2	Serine/arginine repetitive matrix 2	0.5974	52
CSNK2A3	Casein kinase 2 alpha 3	0.5593	10
HSPA4	Heat shock protein family A (Hsp70) member 4	0.5517	10
HNRNPCL1	Heterogeneous nuclear ribonucleoprotein C like 1	0.5434	10
HNRNPA3	Heterogeneous nuclear ribonucleoprotein A3	0.5422	10
SART1	Spliceosome associated factor 1, recruiter of U4/U6.U5 tri-snRNP	0.5389	10
PPID	Peptidylprolyl isomerase D	0.5327	10
ZNF90	Zinc finger protein 90	0.5233	10
FCF1	FCF1 rRNA-processing protein	0.5168	10
RPL23	Ribosomal protein L23	0.5072	32
LENEP	Lens epithelial protein	0.5071	5
SMC1A	Structural maintenance of chromosomes 1A	0.5058	10
GSTA5	Glutathione S-transferase alpha 5	0.5037	10
MFAP1	Microfibril associated protein 1	0.5006	10

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	40.1 nTPM
Breast	40.6 nTPM
Adipose tissue	39.6 nTPM

Alveolar cells type 1	73.7 nTPM
Lung	73.7 nTPM

Alveolar cells type 2	46.3 nTPM
Lung	46.3 nTPM

Astrocytes	10.1 nTPM
Brain	10.1 nTPM

B-cells	33.4 nTPM
PBMC	69.9 nTPM
Adipose tissue	55.1 nTPM
Stomach	42.2 nTPM
Colon	30.3 nTPM
Bone marrow	28.6 nTPM
Breast	26.8 nTPM
Lymph node	25.7 nTPM
Spleen	25.0 nTPM
Liver	16.2 nTPM
Kidney	14.3 nTPM

Dendritic cells	54.8 nTPM
Adipose tissue	84.3 nTPM
PBMC	43.8 nTPM
Breast	36.4 nTPM

Endothelial cells	39.9 nTPM
Lung	71.7 nTPM
Endometrium	54.9 nTPM
Heart muscle	51.7 nTPM
Eye	51.0 nTPM
Ovary	41.9 nTPM
Prostate	39.2 nTPM
Testis	36.7 nTPM
Esophagus	35.0 nTPM
Liver	34.8 nTPM
Placenta	32.4 nTPM
Skeletal muscle	31.5 nTPM
Breast	31.3 nTPM
Pancreas	30.9 nTPM
Skin	16.1 nTPM

Fibroblasts	41.7 nTPM
Adipose tissue	70.2 nTPM
Heart muscle	53.4 nTPM
Lung	49.2 nTPM
Esophagus	45.5 nTPM
Skeletal muscle	43.5 nTPM
Stomach	43.0 nTPM
Prostate	41.8 nTPM
Breast	41.0 nTPM
Placenta	31.7 nTPM
Ovary	25.4 nTPM
Skin	14.0 nTPM

Intestinal goblet cells	38.7 nTPM
Rectum	43.8 nTPM
Small intestine	37.2 nTPM
Colon	35.1 nTPM

Macrophages	25.9 nTPM
Endometrium	54.3 nTPM
Lung	39.4 nTPM
Adipose tissue	33.0 nTPM
Bone marrow	30.0 nTPM
Breast	29.8 nTPM
PBMC	27.3 nTPM
Ovary	26.3 nTPM
Skeletal muscle	23.7 nTPM
Pancreas	23.0 nTPM
Kidney	21.9 nTPM
Prostate	21.8 nTPM
Testis	18.6 nTPM
Spleen	15.6 nTPM
Esophagus	12.6 nTPM
Stomach	11.7 nTPM

Paneth cells	23.4 nTPM
Rectum	35.1 nTPM
Small intestine	18.8 nTPM
Colon	16.5 nTPM

Plasma cells	27.6 nTPM
Adipose tissue	61.9 nTPM
Stomach	31.0 nTPM
Esophagus	18.4 nTPM
Spleen	14.9 nTPM
Bone marrow	11.5 nTPM

Respiratory ciliated cells	113.5 nTPM
Lung	185.1 nTPM
Bronchus	41.9 nTPM

Smooth muscle cells	81.5 nTPM
Bronchus	550.0 nTPM
Adipose tissue	54.5 nTPM
Heart muscle	53.7 nTPM
Endometrium	46.8 nTPM
Ovary	45.4 nTPM
Breast	35.3 nTPM
Skeletal muscle	32.2 nTPM
Prostate	26.3 nTPM
Esophagus	20.1 nTPM
Pancreas	19.3 nTPM
Skin	12.5 nTPM

T-cells	37.5 nTPM
Endometrium	67.4 nTPM
PBMC	67.1 nTPM
Adipose tissue	56.7 nTPM
Lung	56.2 nTPM
Stomach	40.9 nTPM
Breast	39.5 nTPM
Ovary	37.8 nTPM
Colon	37.1 nTPM
Lymph node	36.8 nTPM
Liver	36.6 nTPM
Skeletal muscle	32.4 nTPM
Bone marrow	32.2 nTPM
Spleen	28.7 nTPM
Prostate	23.6 nTPM
Kidney	21.2 nTPM
Esophagus	13.1 nTPM
Skin	10.2 nTPM

Basal prostatic cells	42.1 nTPM
Prostate	42.1 nTPM

Basal respiratory cells	25.2 nTPM
Bronchus	25.2 nTPM

Cholangiocytes	41.5 nTPM
Liver	41.5 nTPM

Collecting duct cells	38.6 nTPM
Kidney	38.6 nTPM

Undifferentiated cells	35.8 nTPM
Rectum	37.8 nTPM
Small intestine	35.3 nTPM
Colon	34.5 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