Single cell type - ATN1 - 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.	ATN1
Gene descriptionⁱ Full gene name according to HGNC.	Atrophin 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Disease related genes Human disease related genes 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 - Mitochondria (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 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

ATN1 is part of cluster 7 Non-specific - Mitochondria with confidenceⁱ 1
481 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
SELENOV	Selenoprotein V	0.5237	44
HDGFL3	HDGF like 3	0.5158	7
MOSMO	Modulator of smoothened	0.5079	7
EPOP	Elongin BC and polycomb repressive complex 2 associated protein	0.5059	35
ARHGEF17	Rho guanine nucleotide exchange factor 17	0.4868	48
RNF227	Ring finger protein 227	0.4702	7
CNMD	Chondromodulin	0.4621	7
ADCY6	Adenylate cyclase 6	0.4584	53
TMEM18	Transmembrane protein 18	0.4565	40
AL391650.1	Novel protein	0.4557	35
BICRA	BRD4 interacting chromatin remodeling complex associated protein	0.4556	7
INTS3	Integrator complex subunit 3	0.4538	52
HOXD10	Homeobox D10	0.4524	36
CRIM1	Cysteine rich transmembrane BMP regulator 1	0.4522	48
NECTIN2	Nectin cell adhesion molecule 2	0.4497	7

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	66.3 nTPM
Adipose tissue	79.3 nTPM
Breast	53.2 nTPM

Alveolar cells type 1	16.0 nTPM
Lung	16.0 nTPM

Alveolar cells type 2	17.2 nTPM
Lung	17.2 nTPM

Astrocytes	76.4 nTPM
Brain	76.4 nTPM

B-cells	9.1 nTPM
Breast	14.7 nTPM
Spleen	14.2 nTPM
Bone marrow	10.6 nTPM
Adipose tissue	10.0 nTPM
Lymph node	10.0 nTPM
PBMC	9.9 nTPM
Colon	9.6 nTPM
Stomach	9.1 nTPM
Liver	2.9 nTPM
Kidney	0.0 nTPM

Dendritic cells	11.4 nTPM
Breast	14.2 nTPM
Adipose tissue	12.1 nTPM
PBMC	8.0 nTPM

Endothelial cells	40.7 nTPM
Testis	74.1 nTPM
Endometrium	60.1 nTPM
Liver	56.8 nTPM
Breast	54.3 nTPM
Skeletal muscle	47.1 nTPM
Esophagus	46.5 nTPM
Ovary	46.3 nTPM
Skin	44.3 nTPM
Lung	34.3 nTPM
Placenta	30.1 nTPM
Prostate	26.1 nTPM
Pancreas	23.1 nTPM
Heart muscle	17.2 nTPM
Eye	9.7 nTPM

Fibroblasts	30.9 nTPM
Adipose tissue	67.7 nTPM
Breast	38.4 nTPM
Skin	35.7 nTPM
Esophagus	31.2 nTPM
Stomach	31.2 nTPM
Skeletal muscle	30.1 nTPM
Placenta	29.0 nTPM
Ovary	28.4 nTPM
Lung	20.1 nTPM
Heart muscle	14.5 nTPM
Prostate	13.7 nTPM

Intestinal goblet cells	23.0 nTPM
Rectum	27.7 nTPM
Small intestine	26.4 nTPM
Colon	15.0 nTPM

Macrophages	13.7 nTPM
Esophagus	26.8 nTPM
Endometrium	26.0 nTPM
Adipose tissue	23.1 nTPM
Spleen	22.8 nTPM
Breast	17.1 nTPM
Testis	15.1 nTPM
PBMC	13.6 nTPM
Pancreas	12.8 nTPM
Skeletal muscle	12.5 nTPM
Bone marrow	10.0 nTPM
Lung	7.6 nTPM
Ovary	7.5 nTPM
Kidney	5.3 nTPM
Stomach	2.9 nTPM
Prostate	2.2 nTPM

Paneth cells	25.3 nTPM
Colon	42.8 nTPM
Rectum	21.8 nTPM
Small intestine	11.3 nTPM

Plasma cells	9.5 nTPM
Esophagus	18.4 nTPM
Adipose tissue	10.3 nTPM
Stomach	7.7 nTPM
Bone marrow	6.6 nTPM
Spleen	4.5 nTPM

Respiratory ciliated cells	15.4 nTPM
Bronchus	19.2 nTPM
Lung	11.7 nTPM

Smooth muscle cells	39.5 nTPM
Adipose tissue	86.9 nTPM
Endometrium	57.8 nTPM
Breast	48.6 nTPM
Esophagus	44.9 nTPM
Skeletal muscle	41.5 nTPM
Ovary	41.3 nTPM
Skin	40.4 nTPM
Heart muscle	24.3 nTPM
Pancreas	22.1 nTPM
Prostate	21.3 nTPM
Bronchus	5.7 nTPM

T-cells	10.9 nTPM
Endometrium	21.9 nTPM
Esophagus	19.7 nTPM
Breast	17.9 nTPM
Adipose tissue	16.3 nTPM
Ovary	13.4 nTPM
Skin	12.4 nTPM
Colon	11.9 nTPM
Lymph node	11.7 nTPM
Stomach	10.2 nTPM
Spleen	9.1 nTPM
Skeletal muscle	9.0 nTPM
Lung	7.6 nTPM
Bone marrow	6.8 nTPM
Liver	6.5 nTPM
Prostate	4.7 nTPM
Kidney	3.4 nTPM
PBMC	2.9 nTPM

Basal keratinocytes	30.2 nTPM
Skin	30.2 nTPM

Basal prostatic cells	13.5 nTPM
Prostate	13.5 nTPM

Basal respiratory cells	22.9 nTPM
Bronchus	22.9 nTPM

Collecting duct cells	29.5 nTPM
Kidney	29.5 nTPM

Undifferentiated cells	20.4 nTPM
Rectum	23.9 nTPM
Small intestine	19.4 nTPM
Colon	17.9 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