Single cell type - ESF1 - The Human Protein Atlas

ESF1

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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.	ESF1
Gene descriptionⁱ Full gene name according to HGNC.	ESF1 nucleolar pre-rRNA processing protein homolog
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.	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.	Ovarian stromal cells - Transcription (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.	Cell type enhanced (Spermatocytes)
Tau specificity scoreⁱ Tau specificity score is a numerical indicator of the specificity of the gene expression across cells or tissues. The value ranges from 0 and 1, where 0 indicates identical expression across all cells/tissue types, while 1 indicates expression in a single cell/tissue type.	0.28
Brain cluster specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell cluster types based on snRNA-seq data from brain samples. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. "cell type" refer to one of the 34 cluster names used to summarize the 2.5 million cells included in the brain cell representation.	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.	Low immune cell specificity
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); neXtProt protein existence (neXtProt evidence);and a Human Protein Atlas antibody- or RNA based score (HPA evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable.	Evidence at protein level

ASSAYSⁱ

SINGLE CELL TYPESⁱ A summary of normalized 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 RNA single cell type specificity: Cell type enhanced (Spermatocytes)

TISSUE CELL TYPEⁱ The tissue cell type section provides a cell type specificity prediction for all protein coding genes. More information on the data available can be found here and a description of the analysis here.
	Core cell typesⁱ The core cell type table displays data for a panel of eight cell types that are found in many tissues. Colored dots indicate that the selected gene has core cell type specificity in the indicated tissue. Grey dots indicate that cell type is present within that tissue, but the selected gene is not predicted to be enriched there. Category Alphabetical Enrichment Tissue specific cell typesⁱ This plot shows the enrichment score of the selected gene in all non-core cell types found within the profiled tissues, allowing comparisons between different cell types within different tissues. An enlarged symbol indicates classification of the gene as cell type enriched in the corresponding cell type.

SINGLE NUCLEI BRAINⁱ

Single nuclei cluster types

RNA brain cluster specificity: Low cell type specificity

IMMUNE CELL TYPE EXPRESSION (RNA)ⁱ Blood cell type expression overview shows RNA-seq data from three different sources: Internally generated Human Protein Atlas (HPA) data, as well as data generated by (Monaco et al) and (Schmiedel et al). Color-coding is based on blood cell type lineages, including B-cells, T-cells, NK-cells, monocytes, granulocytes and dendritic cells as well as total PBMC. To access sample data, click on tissue name or bar.
HPA datasetⁱ The resulting transcript expression values calculated as nTPM, resulting from the internal normalization pipeline for 18 immune cell types and total peripheral blood mononuclear cells (PBMC). Lineage Expression Alphabetical Immune cell type specificity: Low immune cell specificity
Monaco datasetⁱ The transcript expression values (nTPM) resulting from the internal normalization pipeline are visualized for 29 blood cell types and total peripheral blood mononuclear cells (PBMC) from Monaco et al. Lineage Expression Alphabetical
Schmiedel datasetⁱ Transcript Per Million (TPM) values are visualized for 15 blood cell types from the Schmiedel et al. dataset. Lineage Expression Alphabetical

EXPRESSION CLUSTERING & CORRELATIONⁱ

SINGLE CELL TYPE

ESF1 is part of cluster 6 Ovarian stromal cells - Transcription with confidenceⁱ 1
188 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell 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.	Clusterⁱ ID of the expression cluster of the neighboring gene.
U2SURP	U2 snRNP associated SURP domain containing	0.5376	55
FRA10AC1	FRA10A associated CGG repeat 1	0.5278	55
CBX1	Chromobox 1	0.5256	79
THAP7	THAP domain containing 7	0.5223	79
PPIG	Peptidylprolyl isomerase G	0.5178	55
NUP85	Nucleoporin 85	0.5098	15
SF3A3	Splicing factor 3a subunit 3	0.4885	15
RNF212	Ring finger protein 212	0.4883	6
CNBP	CCHC-type zinc finger nucleic acid binding protein	0.4853	15
PSMG4	Proteasome assembly chaperone 4	0.4794	44
WFIKKN2	WAP, follistatin/kazal, immunoglobulin, kunitz and netrin domain containing 2	0.4787	6
CNTLN	Centlein	0.4738	6
STAR	Steroidogenic acute regulatory protein	0.4693	6
TCF23	Transcription factor 23	0.4648	6
NR5A1	Nuclear receptor subfamily 5 group A member 1	0.4645	6

IMMUNE CELLS

ESF1 is part of cluster 24 Non-specific - Transcription with confidenceⁱ 0.52
516 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell 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.	Clusterⁱ ID of the expression cluster of the neighboring gene.
MGA	MAX dimerization protein MGA	1.0000	24
ZNF175	Zinc finger protein 175	0.9762	14
H2BC8	H2B clustered histone 8	0.9762	30
KRBOX1	KRAB box domain containing 1	0.9762	24
INTS1	Integrator complex subunit 1	0.9762	24
PDCD2L	Programmed cell death 2 like	0.9762	30
ATP8A1	ATPase phospholipid transporting 8A1	0.9762	24
TWNK	Twinkle mtDNA helicase	0.9762	30
EXOG	Exo/endonuclease G	0.9524	24
ZBTB5	Zinc finger and BTB domain containing 5	0.9524	24
ARL10	ADP ribosylation factor like GTPase 10	0.9524	34
ARMCX2	Armadillo repeat containing X-linked 2	0.9524	34
ZBTB44	Zinc finger and BTB domain containing 44	0.9524	24
H4C9	H4 clustered histone 9	0.9524	14
PRRC2B	Proline rich coiled-coil 2B	0.9524	34

Adipocytes	71.4 nTPM
Adipose tissue	80.1 nTPM
Breast	62.7 nTPM

Alveolar cells type 1	56.2 nTPM
Lung	56.2 nTPM

Alveolar cells type 2	53.5 nTPM
Lung	53.5 nTPM

Astrocytes	34.7 nTPM
Brain	34.7 nTPM

B-cells	55.4 nTPM
Adipose tissue	77.0 nTPM
PBMC	70.8 nTPM
Salivary gland	69.3 nTPM
Lung	67.1 nTPM
Spleen	62.7 nTPM
Stomach	58.2 nTPM
Lymph node	58.0 nTPM
Bone marrow	50.0 nTPM
Liver	48.3 nTPM
Esophagus	47.2 nTPM
Kidney	46.8 nTPM
Thymus	46.6 nTPM
Skin	18.6 nTPM

Ciliated cells	37.2 nTPM
Fallopian tube	46.9 nTPM
Endometrium	42.2 nTPM
Lung	33.1 nTPM
Bronchus	26.7 nTPM

Club cells	39.4 nTPM
Bronchus	42.5 nTPM
Prostate	38.9 nTPM
Lung	36.9 nTPM

Dendritic cells	51.2 nTPM
PBMC	75.5 nTPM
Adipose tissue	26.8 nTPM

Endothelial cells	60.8 nTPM
Fallopian tube	119.2 nTPM
Ovary	106.6 nTPM
Skeletal muscle	86.0 nTPM
Heart muscle	81.3 nTPM
Pancreas	75.0 nTPM
Lung	74.2 nTPM
Endometrium	59.3 nTPM
Vascular	55.1 nTPM
Testis	53.7 nTPM
Thymus	51.5 nTPM
Skin	49.2 nTPM
Breast	48.3 nTPM
Salivary gland	46.0 nTPM
Placenta	43.1 nTPM
Prostate	42.5 nTPM
Tongue	41.3 nTPM
Esophagus	40.1 nTPM
Liver	22.7 nTPM

Enteroendocrine cells	40.4 nTPM
Rectum	43.6 nTPM
Colon	43.2 nTPM
Small intestine	34.3 nTPM

Fibroblasts	54.0 nTPM
Adipose tissue	81.7 nTPM
Heart muscle	74.1 nTPM
Lung	73.9 nTPM
Fallopian tube	72.2 nTPM
Skeletal muscle	65.0 nTPM
Prostate	56.1 nTPM
Pancreas	55.7 nTPM
Vascular	55.1 nTPM
Breast	50.5 nTPM
Liver	48.6 nTPM
Salivary gland	46.1 nTPM
Thymus	43.2 nTPM
Skin	42.6 nTPM
Placenta	41.7 nTPM
Esophagus	29.0 nTPM
Stomach	28.8 nTPM

Granulocytes	53.4 nTPM
Fallopian tube	56.7 nTPM
Lung	55.0 nTPM
Tongue	48.5 nTPM

Intestinal goblet cells	40.7 nTPM
Rectum	51.2 nTPM
Small intestine	41.6 nTPM
Colon	29.3 nTPM

Lymphatic endothelial cells	85.9 nTPM
Ovary	98.2 nTPM
Fallopian tube	73.5 nTPM

Macrophages	39.2 nTPM
Pancreas	63.7 nTPM
Lung	63.5 nTPM
Testis	56.4 nTPM
Kidney	46.0 nTPM
Breast	45.7 nTPM
Vascular	44.0 nTPM
Endometrium	43.0 nTPM
Adipose tissue	41.4 nTPM
Thymus	39.5 nTPM
Fallopian tube	39.4 nTPM
Skin	37.9 nTPM
Prostate	36.7 nTPM
Salivary gland	36.5 nTPM
Spleen	34.1 nTPM
Skeletal muscle	33.1 nTPM
Bone marrow	31.4 nTPM
Tongue	31.3 nTPM
Esophagus	16.7 nTPM
Stomach	5.1 nTPM

Basal keratinocytes	70.4 nTPM
Skin	80.7 nTPM
Tongue	60.1 nTPM

Basal prostatic cells	44.1 nTPM
Prostate	44.1 nTPM

Basal respiratory cells	56.0 nTPM
Bronchus	56.0 nTPM

Basal squamous epithelial cells	41.2 nTPM
Esophagus	41.2 nTPM

Paneth cells	44.1 nTPM
Rectum	54.9 nTPM
Small intestine	44.9 nTPM
Colon	32.6 nTPM

Plasma cells	29.8 nTPM
Liver	43.1 nTPM
Fallopian tube	38.0 nTPM
Thymus	34.1 nTPM
Salivary gland	31.8 nTPM
Spleen	28.6 nTPM
Stomach	28.5 nTPM
Bone marrow	24.2 nTPM
Esophagus	10.4 nTPM

Schwann cells	30.8 nTPM
Vascular	60.6 nTPM
Adipose tissue	19.9 nTPM
Esophagus	12.0 nTPM

Serous glandular cells	25.7 nTPM
Salivary gland	33.7 nTPM
Tongue	17.7 nTPM

Smooth muscle cells	64.1 nTPM
Ovary	100.9 nTPM
Adipose tissue	89.1 nTPM
Fallopian tube	84.3 nTPM
Skeletal muscle	80.2 nTPM
Vascular	78.6 nTPM
Placenta	64.2 nTPM
Prostate	61.4 nTPM
Skin	59.9 nTPM
Endometrium	59.5 nTPM
Salivary gland	56.5 nTPM
Breast	56.3 nTPM
Thymus	55.8 nTPM
Tongue	55.7 nTPM
Liver	53.9 nTPM
Lung	44.7 nTPM
Esophagus	25.2 nTPM

Suprabasal keratinocytes	62.9 nTPM
Skin	66.0 nTPM
Tongue	59.9 nTPM

T-cells	45.5 nTPM
PBMC	72.4 nTPM
Fallopian tube	59.4 nTPM
Adipose tissue	59.2 nTPM
Prostate	53.4 nTPM
Endometrium	52.8 nTPM
Salivary gland	51.5 nTPM
Liver	50.9 nTPM
Thymus	50.7 nTPM
Kidney	48.8 nTPM
Lymph node	46.6 nTPM
Breast	45.2 nTPM
Lung	45.0 nTPM
Vascular	43.8 nTPM
Skeletal muscle	40.5 nTPM
Tongue	38.9 nTPM
Colon	38.0 nTPM
Stomach	37.9 nTPM
Bone marrow	37.5 nTPM
Spleen	35.0 nTPM
Skin	30.5 nTPM
Esophagus	17.0 nTPM

Undifferentiated cells	57.2 nTPM
Rectum	64.7 nTPM
Small intestine	56.2 nTPM
Colon	50.7 nTPM

Amygdala excitatory	95.0 nTPM
Amygdala	104.6 nTPM
Hippocampus	102.2 nTPM
Cerebral cortex	99.7 nTPM
Basal ganglia	99.6 nTPM
Thalamus	84.8 nTPM
Hypothalamus	78.8 nTPM

Astrocyte	57.9 nTPM
Cerebral cortex	69.0 nTPM
Hippocampus	67.3 nTPM
Amygdala	65.2 nTPM
Basal ganglia	65.1 nTPM
Thalamus	62.1 nTPM
Midbrain	58.2 nTPM
Hypothalamus	56.4 nTPM
Cerebellum	52.9 nTPM
Pons	51.0 nTPM
Medulla oblongata	49.8 nTPM
Spinal cord	39.8 nTPM

Bergmann glia	55.1 nTPM
Cerebellum	62.5 nTPM
Pons	51.8 nTPM
Medulla oblongata	51.1 nTPM

Central nervous system macrophage	115.4 nTPM
Spinal cord	136.0 nTPM
Cerebral cortex	125.8 nTPM
Hippocampus	123.1 nTPM
Amygdala	116.9 nTPM
Basal ganglia	114.5 nTPM
Cerebellum	114.1 nTPM
Midbrain	113.2 nTPM
Pons	110.5 nTPM
Medulla oblongata	107.5 nTPM
Thalamus	107.0 nTPM
Hypothalamus	100.6 nTPM

Cerebellar inhibitory	74.7 nTPM
Midbrain	86.2 nTPM
Cerebellum	79.0 nTPM
Medulla oblongata	70.0 nTPM
Pons	69.8 nTPM
Spinal cord	68.7 nTPM

Cge interneuron	83.4 nTPM
Midbrain	105.0 nTPM
Thalamus	90.2 nTPM
Amygdala	83.5 nTPM
Cerebral cortex	81.9 nTPM
Basal ganglia	81.5 nTPM
Hippocampus	78.3 nTPM
Hypothalamus	63.3 nTPM

Choroid plexus epithelial cell	67.6 nTPM
Basal ganglia	77.4 nTPM
Medulla oblongata	74.2 nTPM
Hippocampus	63.8 nTPM
Thalamus	54.8 nTPM

Committed oligodendrocyte precursor	79.9 nTPM
Cerebral cortex	98.2 nTPM
Spinal cord	92.0 nTPM
Amygdala	88.0 nTPM
Hippocampus	88.0 nTPM
Basal ganglia	80.5 nTPM
Cerebellum	79.3 nTPM
Midbrain	78.1 nTPM
Pons	74.4 nTPM
Hypothalamus	68.3 nTPM
Thalamus	67.8 nTPM
Medulla oblongata	64.5 nTPM

Deep-layer corticothalamic and 6b	96.1 nTPM
Hippocampus	102.3 nTPM
Amygdala	101.8 nTPM
Midbrain	101.0 nTPM
Basal ganglia	99.4 nTPM
Cerebral cortex	97.0 nTPM
Hypothalamus	75.1 nTPM

Deep-layer intratelencephalic	88.9 nTPM
Amygdala	101.2 nTPM
Basal ganglia	97.1 nTPM
Cerebral cortex	90.5 nTPM
Hippocampus	90.2 nTPM
Hypothalamus	65.8 nTPM

Deep-layer near-projecting	93.0 nTPM
Basal ganglia	111.4 nTPM
Cerebral cortex	95.6 nTPM
Hippocampus	93.0 nTPM
Amygdala	91.0 nTPM
Hypothalamus	74.1 nTPM

Eccentric medium spiny neuron	99.2 nTPM
Basal ganglia	108.5 nTPM
Hypothalamus	104.9 nTPM
Thalamus	102.3 nTPM
Amygdala	101.5 nTPM
Cerebral cortex	90.1 nTPM
Hippocampus	87.9 nTPM