Single cell type - PHF20 - 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.	PHF20
Gene descriptionⁱ Full gene name according to HGNC.	PHD finger protein 20
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-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.	5

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 - Transcription regulation (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 (Late spermatids, Early spermatids)
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 (Late spermatids, Early spermatids)

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

PHF20 is part of cluster 24 Non-specific - Transcription regulation with confidenceⁱ 1
415 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
SYAP1	Synapse associated protein 1	0.6615	24
H2BC6	H2B clustered histone 6	0.6328	24
RPS27AP5	Ribosomal protein S27a pseudogene 5	0.6306	24
H2AC13	H2A clustered histone 13	0.6275	24
H2AC17	H2A clustered histone 17	0.6243	24
ADSS2	Adenylosuccinate synthase 2	0.6229	24
H3C13	H3 clustered histone 13	0.6200	24
IRAG2	Inositol 1,4,5-triphosphate receptor associated 2	0.6192	24
PLAAT4	Phospholipase A and acyltransferase 4	0.6148	24
H4C15	H4 clustered histone 15	0.6130	24
H2AC20	H2A clustered histone 20	0.5990	24
SEPTIN1	Septin 1	0.5955	24
CYRIB	CYFIP related Rac1 interactor B	0.5932	24
H2BC7	H2B clustered histone 7	0.5926	24
H2AC12	H2A clustered histone 12	0.5893	24

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	51.2 nTPM
Adipose tissue	57.9 nTPM
Breast	44.5 nTPM

Alveolar cells type 1	38.5 nTPM
Lung	38.5 nTPM

Alveolar cells type 2	41.8 nTPM
Lung	41.8 nTPM

Astrocytes	28.4 nTPM
Brain	28.4 nTPM

B-cells	131.1 nTPM
Adipose tissue	344.9 nTPM
Stomach	189.4 nTPM
Colon	159.8 nTPM
Spleen	110.4 nTPM
PBMC	109.9 nTPM
Kidney	104.8 nTPM
Breast	93.5 nTPM
Bone marrow	77.6 nTPM
Lymph node	73.6 nTPM
Liver	47.1 nTPM

Dendritic cells	191.0 nTPM
Adipose tissue	424.4 nTPM
Breast	104.6 nTPM
PBMC	43.8 nTPM

Endothelial cells	46.3 nTPM
Eye	91.4 nTPM
Prostate	66.3 nTPM
Liver	50.4 nTPM
Skeletal muscle	50.0 nTPM
Testis	44.5 nTPM
Lung	43.7 nTPM
Pancreas	42.5 nTPM
Ovary	42.0 nTPM
Skin	41.6 nTPM
Heart muscle	41.0 nTPM
Placenta	38.0 nTPM
Breast	35.9 nTPM
Endometrium	35.0 nTPM
Esophagus	25.8 nTPM

Fibroblasts	53.6 nTPM
Prostate	100.5 nTPM
Heart muscle	88.3 nTPM
Adipose tissue	75.3 nTPM
Lung	64.8 nTPM
Skeletal muscle	60.2 nTPM
Skin	40.5 nTPM
Breast	37.4 nTPM
Ovary	35.2 nTPM
Placenta	30.4 nTPM
Esophagus	30.2 nTPM
Stomach	26.7 nTPM

Intestinal goblet cells	27.9 nTPM
Rectum	30.8 nTPM
Colon	30.0 nTPM
Small intestine	22.9 nTPM

Macrophages	87.1 nTPM
Adipose tissue	292.4 nTPM
Prostate	149.0 nTPM
Skeletal muscle	97.6 nTPM
Stomach	96.7 nTPM
Testis	88.9 nTPM
Breast	86.7 nTPM
Spleen	78.8 nTPM
Ovary	70.9 nTPM
Kidney	65.1 nTPM
Bone marrow	60.0 nTPM
Endometrium	59.5 nTPM
Lung	56.3 nTPM
Esophagus	55.1 nTPM
Pancreas	35.7 nTPM
PBMC	13.6 nTPM

Paneth cells	26.5 nTPM
Small intestine	41.3 nTPM
Rectum	28.3 nTPM
Colon	9.9 nTPM

Plasma cells	76.9 nTPM
Adipose tissue	225.2 nTPM
Esophagus	43.0 nTPM
Bone marrow	41.2 nTPM
Stomach	40.4 nTPM
Spleen	35.0 nTPM

Respiratory ciliated cells	50.2 nTPM
Lung	62.7 nTPM
Bronchus	37.8 nTPM

Smooth muscle cells	50.6 nTPM
Prostate	95.4 nTPM
Skeletal muscle	58.8 nTPM
Heart muscle	58.2 nTPM
Breast	54.4 nTPM
Ovary	53.4 nTPM
Adipose tissue	51.6 nTPM
Esophagus	46.5 nTPM
Skin	41.2 nTPM
Endometrium	38.4 nTPM
Pancreas	36.2 nTPM
Bronchus	22.5 nTPM

T-cells	127.8 nTPM
Prostate	369.2 nTPM
Adipose tissue	341.2 nTPM
Stomach	147.9 nTPM
Colon	140.7 nTPM
Skin	131.2 nTPM
Skeletal muscle	119.9 nTPM
Ovary	115.7 nTPM
Spleen	109.7 nTPM
Breast	106.2 nTPM
PBMC	105.7 nTPM
Liver	91.2 nTPM
Bone marrow	77.7 nTPM
Endometrium	76.8 nTPM
Lymph node	72.8 nTPM
Kidney	65.8 nTPM
Lung	62.3 nTPM
Esophagus	39.3 nTPM

Basal keratinocytes	34.8 nTPM
Skin	34.8 nTPM

Basal prostatic cells	76.6 nTPM
Prostate	76.6 nTPM

Basal respiratory cells	52.5 nTPM
Bronchus	52.5 nTPM

Basal squamous epithelial cells	31.3 nTPM
Esophagus	31.3 nTPM

Undifferentiated cells	28.8 nTPM
Rectum	32.1 nTPM
Colon	27.2 nTPM
Small intestine	27.1 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