Single cell type - PHB - 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.	PHB
Gene descriptionⁱ Full gene name according to HGNC.	Prohibitin
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	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.	7

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 - 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 (Proximal tubular cells)
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	Cell line enhanced (CACO-2)
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 (Proximal tubular cells)

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

PHB is part of cluster 10 Non-specific - Unknown function with confidenceⁱ 1
482 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
ESD	Esterase D	0.7714	10
CCDC58	Coiled-coil domain containing 58	0.7248	10
RRP9	Ribosomal RNA processing 9, U3 small nucleolar RNA binding protein	0.7195	10
EIF3I	Eukaryotic translation initiation factor 3 subunit I	0.6985	10
WDR12	WD repeat domain 12	0.6975	10
PARL	Presenilin associated rhomboid like	0.6947	10
GSTA5	Glutathione S-transferase alpha 5	0.6864	10
PFDN6	Prefoldin subunit 6	0.6826	10
POLR1C	RNA polymerase I and III subunit C	0.6718	10
POTEM	POTE ankyrin domain family member M	0.6627	10
ANGPTL6	Angiopoietin like 6	0.6620	10
EMG1	EMG1 N1-specific pseudouridine methyltransferase	0.6607	10
PSMB5	Proteasome 20S subunit beta 5	0.6572	10
ZMAT5	Zinc finger matrin-type 5	0.6563	10
PSMB3	Proteasome 20S subunit beta 3	0.6510	10

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	88.5 nTPM
Breast	124.8 nTPM
Adipose tissue	52.2 nTPM

Alveolar cells type 1	48.1 nTPM
Lung	48.1 nTPM

Alveolar cells type 2	46.8 nTPM
Lung	46.8 nTPM

Astrocytes	8.8 nTPM
Brain	8.8 nTPM

B-cells	78.3 nTPM
Liver	172.4 nTPM
PBMC	105.6 nTPM
Kidney	104.8 nTPM
Spleen	77.2 nTPM
Breast	68.3 nTPM
Colon	67.1 nTPM
Bone marrow	54.0 nTPM
Stomach	49.9 nTPM
Lymph node	48.2 nTPM
Adipose tissue	36.0 nTPM

Dendritic cells	144.4 nTPM
PBMC	259.0 nTPM
Breast	103.2 nTPM
Adipose tissue	71.1 nTPM

Endothelial cells	92.6 nTPM
Pancreas	208.5 nTPM
Placenta	158.1 nTPM
Prostate	139.4 nTPM
Ovary	119.8 nTPM
Skin	103.2 nTPM
Breast	99.9 nTPM
Liver	87.2 nTPM
Endometrium	76.8 nTPM
Testis	67.9 nTPM
Eye	65.5 nTPM
Esophagus	61.1 nTPM
Skeletal muscle	56.7 nTPM
Lung	49.9 nTPM
Heart muscle	2.8 nTPM

Enteroendocrine cells	131.9 nTPM
Rectum	135.9 nTPM
Colon	127.9 nTPM

Fibroblasts	87.8 nTPM
Ovary	186.4 nTPM
Placenta	165.2 nTPM
Breast	98.8 nTPM
Skin	98.5 nTPM
Prostate	92.3 nTPM
Adipose tissue	90.9 nTPM
Esophagus	68.6 nTPM
Skeletal muscle	65.2 nTPM
Lung	53.6 nTPM
Stomach	38.6 nTPM
Heart muscle	7.4 nTPM

Intestinal goblet cells	281.7 nTPM
Colon	483.2 nTPM
Rectum	190.9 nTPM
Small intestine	171.0 nTPM

Macrophages	70.9 nTPM
Pancreas	142.9 nTPM
Kidney	138.4 nTPM
Ovary	118.7 nTPM
Breast	90.6 nTPM
Endometrium	84.7 nTPM
Testis	75.5 nTPM
Prostate	71.1 nTPM
Esophagus	66.1 nTPM
Lung	57.8 nTPM
Adipose tissue	56.2 nTPM
Bone marrow	43.7 nTPM
Skeletal muscle	41.6 nTPM
Spleen	41.4 nTPM
Stomach	20.5 nTPM
PBMC	13.6 nTPM

Paneth cells	139.8 nTPM
Rectum	187.2 nTPM
Colon	138.3 nTPM
Small intestine	93.9 nTPM

Plasma cells	93.0 nTPM
Spleen	173.6 nTPM
Bone marrow	150.0 nTPM
Stomach	60.2 nTPM
Esophagus	55.5 nTPM
Adipose tissue	25.8 nTPM

Respiratory ciliated cells	68.0 nTPM
Bronchus	71.8 nTPM
Lung	64.1 nTPM

Smooth muscle cells	306.5 nTPM
Bronchus	2294.3 nTPM
Pancreas	315.2 nTPM
Ovary	184.4 nTPM
Prostate	122.5 nTPM
Breast	102.8 nTPM
Skin	84.4 nTPM
Esophagus	77.6 nTPM
Endometrium	67.2 nTPM
Skeletal muscle	58.4 nTPM
Adipose tissue	53.5 nTPM
Heart muscle	11.3 nTPM

Basal keratinocytes	117.5 nTPM
Skin	117.5 nTPM

Basal prostatic cells	147.5 nTPM
Prostate	147.5 nTPM

Basal respiratory cells	182.6 nTPM
Bronchus	182.6 nTPM

Basal squamous epithelial cells	70.0 nTPM
Esophagus	70.0 nTPM

T-cells	75.9 nTPM
Ovary	166.8 nTPM
Kidney	124.5 nTPM
Liver	97.8 nTPM
PBMC	86.5 nTPM
Lung	77.5 nTPM
Colon	77.4 nTPM
Breast	76.8 nTPM
Skin	73.7 nTPM
Endometrium	67.7 nTPM
Stomach	65.4 nTPM
Bone marrow	64.0 nTPM
Spleen	59.3 nTPM
Skeletal muscle	58.2 nTPM
Esophagus	52.4 nTPM
Prostate	52.1 nTPM
Adipose tissue	44.9 nTPM
Lymph node	44.8 nTPM

Undifferentiated cells	337.2 nTPM
Colon	539.9 nTPM
Rectum	248.3 nTPM
Small intestine	223.4 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