Single cell type - PHC2 - 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.	PHC2
Gene descriptionⁱ Full gene name according to HGNC.	Polyhomeotic homolog 2
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	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	Immune cell enriched (neutrophil)
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

PHC2 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
EVI5L	Ecotropic viral integration site 5 like	0.4902	62
GNAI2	G protein subunit alpha i2	0.4827	7
ARL8A	ADP ribosylation factor like GTPase 8A	0.4764	7
PTEN	Phosphatase and tensin homolog	0.4647	48
SAP30	Sin3A associated protein 30	0.4557	41
TK2	Thymidine kinase 2	0.4496	50
MBD2	Methyl-CpG binding domain protein 2	0.4339	41
FRAT1	FRAT regulator of WNT signaling pathway 1	0.4336	31
PRKACA	Protein kinase cAMP-activated catalytic subunit alpha	0.4302	52
PKN1	Protein kinase N1	0.4269	7
LRP3	LDL receptor related protein 3	0.4236	50
DENND5A	DENN domain containing 5A	0.4223	44
PLEKHM2	Pleckstrin homology and RUN domain containing M2	0.4202	4
TLNRD1	Talin rod domain containing 1	0.4148	7
JDP2	Jun dimerization protein 2	0.4084	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	89.3 nTPM
Adipose tissue	102.0 nTPM
Breast	76.7 nTPM

Alveolar cells type 1	16.0 nTPM
Lung	16.0 nTPM

Alveolar cells type 2	13.9 nTPM
Lung	13.9 nTPM

Astrocytes	24.2 nTPM
Brain	24.2 nTPM

B-cells	5.6 nTPM
Adipose tissue	14.6 nTPM
Breast	10.7 nTPM
Kidney	9.5 nTPM
Colon	6.4 nTPM
Liver	5.1 nTPM
Lymph node	4.0 nTPM
PBMC	2.8 nTPM
Stomach	2.2 nTPM
Spleen	1.0 nTPM
Bone marrow	0.0 nTPM

Dendritic cells	17.4 nTPM
Breast	24.5 nTPM
Adipose tissue	23.6 nTPM
PBMC	4.0 nTPM

Endothelial cells	43.0 nTPM
Ovary	86.8 nTPM
Eye	83.3 nTPM
Liver	80.7 nTPM
Prostate	59.2 nTPM
Endometrium	40.9 nTPM
Skeletal muscle	39.8 nTPM
Breast	37.0 nTPM
Pancreas	30.9 nTPM
Heart muscle	30.5 nTPM
Testis	25.2 nTPM
Placenta	23.9 nTPM
Lung	21.8 nTPM
Esophagus	21.2 nTPM
Skin	21.1 nTPM

Fibroblasts	32.9 nTPM
Adipose tissue	102.5 nTPM
Prostate	52.9 nTPM
Ovary	39.5 nTPM
Breast	37.8 nTPM
Skeletal muscle	30.5 nTPM
Heart muscle	24.6 nTPM
Lung	17.9 nTPM
Skin	14.9 nTPM
Placenta	14.2 nTPM
Esophagus	13.8 nTPM
Stomach	13.4 nTPM

Intestinal goblet cells	21.9 nTPM
Rectum	28.3 nTPM
Small intestine	18.7 nTPM
Colon	18.6 nTPM

Macrophages	55.3 nTPM
Stomach	111.3 nTPM
Ovary	109.3 nTPM
Testis	87.2 nTPM
Prostate	74.5 nTPM
Adipose tissue	70.4 nTPM
Bone marrow	63.7 nTPM
Skeletal muscle	61.0 nTPM
Spleen	56.0 nTPM
Breast	45.5 nTPM
Kidney	40.1 nTPM
Endometrium	31.8 nTPM
Esophagus	26.8 nTPM
Lung	26.5 nTPM
Pancreas	25.5 nTPM
PBMC	0.0 nTPM

Paneth cells	11.0 nTPM
Colon	16.5 nTPM
Rectum	16.4 nTPM
Small intestine	0.0 nTPM

Plasma cells	2.5 nTPM
Adipose tissue	9.1 nTPM
Spleen	2.9 nTPM
Stomach	0.5 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM

Respiratory ciliated cells	14.8 nTPM
Bronchus	19.3 nTPM
Lung	10.2 nTPM

Smooth muscle cells	48.7 nTPM
Ovary	147.5 nTPM
Adipose tissue	80.1 nTPM
Breast	68.6 nTPM
Prostate	61.8 nTPM
Skeletal muscle	46.0 nTPM
Endometrium	42.0 nTPM
Pancreas	31.3 nTPM
Heart muscle	23.5 nTPM
Skin	17.1 nTPM
Esophagus	14.0 nTPM
Bronchus	3.7 nTPM

T-cells	11.4 nTPM
Ovary	24.5 nTPM
Breast	23.4 nTPM
Adipose tissue	22.9 nTPM
Skeletal muscle	18.2 nTPM
Endometrium	15.9 nTPM
Lung	12.2 nTPM
Colon	11.9 nTPM
Liver	10.5 nTPM
Prostate	9.5 nTPM
Kidney	7.5 nTPM
PBMC	7.3 nTPM
Esophagus	6.6 nTPM
Bone marrow	5.1 nTPM
Stomach	5.0 nTPM
Skin	4.6 nTPM
Spleen	4.2 nTPM
Lymph node	3.9 nTPM

Basal keratinocytes	14.1 nTPM
Skin	14.1 nTPM

Basal prostatic cells	28.9 nTPM
Prostate	28.9 nTPM

Basal respiratory cells	16.2 nTPM
Bronchus	16.2 nTPM

Cholangiocytes	25.8 nTPM
Liver	25.8 nTPM

Undifferentiated cells	20.0 nTPM
Rectum	24.2 nTPM
Colon	19.3 nTPM
Small intestine	16.4 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