Single cell type - HTATSF1 - 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.	HTATSF1
Gene descriptionⁱ Full gene name according to HGNC.	HIV-1 Tat specific factor 1
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	Cytotrophoblasts - 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	Cell type enhanced (Cardiomyocytes)
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: Cell type enhanced (Cardiomyocytes)

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

HTATSF1 is part of cluster 47 Cytotrophoblasts - Unknown function with confidenceⁱ 1
226 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
LRRC47	Leucine rich repeat containing 47	0.4890	47
SMARCA5	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5	0.4845	11
TREX2	Three prime repair exonuclease 2	0.4724	47
BCCIP	BRCA2 and CDKN1A interacting protein	0.4723	10
PARP1	Poly(ADP-ribose) polymerase 1	0.4667	47
CCDC43	Coiled-coil domain containing 43	0.4604	39
MRFAP1L1	Morf4 family associated protein 1 like 1	0.4518	59
PEG10	Paternally expressed 10	0.4511	47
IARS2	Isoleucyl-tRNA synthetase 2, mitochondrial	0.4445	54
HARS2	Histidyl-tRNA synthetase 2, mitochondrial	0.4432	59
COQ10A	Coenzyme Q10A	0.4412	54
MORC4	MORC family CW-type zinc finger 4	0.4407	47
GRAMD2A	GRAM domain containing 2A	0.4381	47
FYCO1	FYVE and coiled-coil domain autophagy adaptor 1	0.4367	54
USP10	Ubiquitin specific peptidase 10	0.4356	47

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	28.2 nTPM
Breast	35.0 nTPM
Adipose tissue	21.4 nTPM

Alveolar cells type 1	51.3 nTPM
Lung	51.3 nTPM

Alveolar cells type 2	42.9 nTPM
Lung	42.9 nTPM

Astrocytes	11.4 nTPM
Brain	11.4 nTPM

B-cells	36.8 nTPM
Stomach	53.6 nTPM
Lymph node	50.3 nTPM
Spleen	48.8 nTPM
Liver	44.1 nTPM
Bone marrow	39.2 nTPM
PBMC	32.9 nTPM
Breast	32.1 nTPM
Adipose tissue	28.5 nTPM
Colon	19.2 nTPM
Kidney	19.0 nTPM

Dendritic cells	37.6 nTPM
Adipose tissue	62.9 nTPM
Breast	29.9 nTPM
PBMC	20.0 nTPM

Endothelial cells	29.8 nTPM
Heart muscle	50.5 nTPM
Ovary	37.8 nTPM
Esophagus	34.1 nTPM
Lung	31.2 nTPM
Pancreas	30.9 nTPM
Eye	29.1 nTPM
Endometrium	29.1 nTPM
Placenta	28.4 nTPM
Breast	25.9 nTPM
Skeletal muscle	25.8 nTPM
Prostate	24.4 nTPM
Testis	23.4 nTPM
Skin	23.1 nTPM
Liver	22.9 nTPM

Enteroendocrine cells	81.2 nTPM
Colon	106.6 nTPM
Rectum	55.8 nTPM

Fibroblasts	42.1 nTPM
Heart muscle	93.7 nTPM
Lung	54.7 nTPM
Ovary	49.5 nTPM
Esophagus	44.8 nTPM
Placenta	41.0 nTPM
Stomach	34.1 nTPM
Skeletal muscle	33.7 nTPM
Breast	31.8 nTPM
Prostate	31.1 nTPM
Skin	27.6 nTPM
Adipose tissue	21.1 nTPM

Intestinal goblet cells	37.8 nTPM
Rectum	43.4 nTPM
Colon	40.0 nTPM
Small intestine	30.1 nTPM

Macrophages	30.3 nTPM
Lung	55.5 nTPM
Bone marrow	40.0 nTPM
Esophagus	36.2 nTPM
Endometrium	34.8 nTPM
Skeletal muscle	33.7 nTPM
Kidney	30.3 nTPM
Stomach	29.4 nTPM
Breast	29.3 nTPM
Adipose tissue	29.1 nTPM
Testis	28.4 nTPM
Ovary	26.6 nTPM
Spleen	24.9 nTPM
Pancreas	23.0 nTPM
Prostate	19.5 nTPM
PBMC	13.6 nTPM

Paneth cells	18.5 nTPM
Rectum	33.9 nTPM
Small intestine	15.0 nTPM
Colon	6.5 nTPM

Plasma cells	54.3 nTPM
Bone marrow	84.1 nTPM
Spleen	82.6 nTPM
Stomach	50.2 nTPM
Esophagus	30.7 nTPM
Adipose tissue	23.9 nTPM

Respiratory ciliated cells	44.4 nTPM
Lung	64.1 nTPM
Bronchus	24.8 nTPM

Smooth muscle cells	41.0 nTPM
Heart muscle	67.5 nTPM
Ovary	62.8 nTPM
Breast	45.2 nTPM
Esophagus	41.9 nTPM
Endometrium	40.7 nTPM
Pancreas	39.7 nTPM
Skeletal muscle	38.3 nTPM
Adipose tissue	36.5 nTPM
Skin	34.9 nTPM
Prostate	31.9 nTPM
Bronchus	11.2 nTPM

Basal keratinocytes	29.6 nTPM
Skin	29.6 nTPM

Basal prostatic cells	38.0 nTPM
Prostate	38.0 nTPM

Basal respiratory cells	28.0 nTPM
Bronchus	28.0 nTPM

Basal squamous epithelial cells	38.7 nTPM
Esophagus	38.7 nTPM

T-cells	51.6 nTPM
Stomach	72.4 nTPM
Adipose tissue	70.9 nTPM
Skeletal muscle	67.7 nTPM
Esophagus	65.5 nTPM
Spleen	56.6 nTPM
Lung	56.2 nTPM
Bone marrow	55.6 nTPM
Skin	53.4 nTPM
PBMC	52.9 nTPM
Lymph node	52.0 nTPM
Kidney	50.0 nTPM
Endometrium	47.3 nTPM
Ovary	44.5 nTPM
Breast	43.1 nTPM
Liver	37.9 nTPM
Colon	36.6 nTPM
Prostate	14.2 nTPM

Undifferentiated cells	32.6 nTPM
Rectum	34.2 nTPM
Small intestine	34.1 nTPM
Colon	29.6 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