Single cell type - ATF1 - 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.	ATF1
Gene descriptionⁱ Full gene name according to HGNC.	Activating transcription factor 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-related genes Disease related genes Human disease related genes Transcription factors
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.	3

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	Epithelial cell types - Mixed 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

ATF1 is part of cluster 22 Epithelial cell types - Mixed function with confidenceⁱ 0.54
298 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
PCNP	PEST proteolytic signal containing nuclear protein	0.6474	48
HNRNPA0	Heterogeneous nuclear ribonucleoprotein A0	0.5628	48
NXT1	Nuclear transport factor 2 like export factor 1	0.5475	28
COQ10B	Coenzyme Q10B	0.5466	22
PPP2CA	Protein phosphatase 2 catalytic subunit alpha	0.5390	22
DIMT1	DIMT1 rRNA methyltransferase and ribosome maturation factor	0.5363	22
RBM8A	RNA binding motif protein 8A	0.5341	39
MED30	Mediator complex subunit 30	0.5339	28
MORF4L2	Mortality factor 4 like 2	0.5305	38
RSL24D1	Ribosomal L24 domain containing 1	0.5283	32
HNRNPDL	Heterogeneous nuclear ribonucleoprotein D like	0.4895	39
NAA50	N-alpha-acetyltransferase 50, NatE catalytic subunit	0.4852	22
CGGBP1	CGG triplet repeat binding protein 1	0.4758	59
C11orf58	Chromosome 11 open reading frame 58	0.4714	39
TMEM43	Transmembrane protein 43	0.4694	50

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	25.5 nTPM
Breast	26.1 nTPM
Adipose tissue	24.9 nTPM

Alveolar cells type 1	54.5 nTPM
Lung	54.5 nTPM

Alveolar cells type 2	18.5 nTPM
Lung	18.5 nTPM

Astrocytes	22.2 nTPM
Brain	22.2 nTPM

B-cells	41.5 nTPM
Lymph node	65.0 nTPM
Colon	57.5 nTPM
Kidney	57.1 nTPM
Spleen	49.8 nTPM
Stomach	45.9 nTPM
Breast	32.1 nTPM
PBMC	31.5 nTPM
Bone marrow	31.1 nTPM
Adipose tissue	23.1 nTPM
Liver	21.6 nTPM

Dendritic cells	25.4 nTPM
Breast	44.5 nTPM
Adipose tissue	31.7 nTPM
PBMC	0.0 nTPM

Endothelial cells	23.8 nTPM
Skin	42.0 nTPM
Prostate	37.1 nTPM
Breast	32.9 nTPM
Esophagus	32.0 nTPM
Liver	25.7 nTPM
Lung	24.9 nTPM
Testis	24.9 nTPM
Skeletal muscle	20.7 nTPM
Endometrium	19.4 nTPM
Pancreas	19.3 nTPM
Heart muscle	17.0 nTPM
Placenta	15.9 nTPM
Ovary	14.3 nTPM
Eye	7.3 nTPM

Fibroblasts	33.1 nTPM
Skin	54.5 nTPM
Prostate	45.0 nTPM
Lung	39.1 nTPM
Breast	35.6 nTPM
Stomach	34.1 nTPM
Adipose tissue	33.3 nTPM
Esophagus	31.7 nTPM
Skeletal muscle	29.5 nTPM
Placenta	26.7 nTPM
Ovary	17.8 nTPM
Heart muscle	16.3 nTPM

Intestinal goblet cells	18.7 nTPM
Rectum	24.6 nTPM
Colon	18.6 nTPM
Small intestine	13.0 nTPM

Macrophages	24.2 nTPM
Kidney	37.1 nTPM
Testis	34.3 nTPM
Breast	33.0 nTPM
Esophagus	28.3 nTPM
Adipose tissue	28.0 nTPM
Lung	26.3 nTPM
Skeletal muscle	24.8 nTPM
Prostate	24.1 nTPM
Spleen	23.9 nTPM
Endometrium	23.2 nTPM
Pancreas	23.0 nTPM
Bone marrow	22.5 nTPM
Stomach	17.6 nTPM
Ovary	16.8 nTPM
PBMC	0.0 nTPM

Paneth cells	17.9 nTPM
Rectum	25.6 nTPM
Small intestine	15.0 nTPM
Colon	13.2 nTPM

Plasma cells	22.1 nTPM
Esophagus	30.7 nTPM
Spleen	29.3 nTPM
Bone marrow	21.4 nTPM
Stomach	18.1 nTPM
Adipose tissue	10.9 nTPM

Respiratory ciliated cells	19.9 nTPM
Lung	20.4 nTPM
Bronchus	19.3 nTPM

Smooth muscle cells	33.7 nTPM
Bronchus	68.4 nTPM
Skin	45.3 nTPM
Esophagus	37.2 nTPM
Heart muscle	35.2 nTPM
Adipose tissue	29.7 nTPM
Breast	29.1 nTPM
Pancreas	28.8 nTPM
Prostate	26.9 nTPM
Skeletal muscle	26.7 nTPM
Endometrium	24.0 nTPM
Ovary	19.6 nTPM

T-cells	38.4 nTPM
Lymph node	58.8 nTPM
Skin	56.6 nTPM
Prostate	52.1 nTPM
Kidney	52.0 nTPM
Colon	43.2 nTPM
Breast	43.2 nTPM
Spleen	41.5 nTPM
Stomach	40.3 nTPM
Bone marrow	38.1 nTPM
Adipose tissue	33.7 nTPM
Liver	32.6 nTPM
Skeletal muscle	31.4 nTPM
Lung	30.4 nTPM
PBMC	27.3 nTPM
Esophagus	26.2 nTPM
Endometrium	23.9 nTPM
Ovary	22.3 nTPM

Basal keratinocytes	75.3 nTPM
Skin	75.3 nTPM

Basal prostatic cells	48.4 nTPM
Prostate	48.4 nTPM

Basal respiratory cells	34.8 nTPM
Bronchus	34.8 nTPM

Basal squamous epithelial cells	52.3 nTPM
Esophagus	52.3 nTPM

Undifferentiated cells	22.8 nTPM
Small intestine	26.2 nTPM
Rectum	23.1 nTPM
Colon	19.0 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