Single cell type - USP33 - 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.	USP33
Gene descriptionⁱ Full gene name according to HGNC.	Ubiquitin specific peptidase 33
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Enzymes Metabolic 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.	8

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	Fibroblasts - ECM organization (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 (Inhibitory neurons)
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 (Inhibitory neurons)

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

USP33 is part of cluster 50 Fibroblasts - ECM organization with confidenceⁱ 1
441 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
ABCA9	ATP binding cassette subfamily A member 9	0.5764	50
CLEC3B	C-type lectin domain family 3 member B	0.5701	50
MFN1	Mitofusin 1	0.5451	44
PTPN9	Protein tyrosine phosphatase non-receptor type 9	0.5450	50
CFD	Complement factor D	0.5310	50
TMDD1	Transmembrane and death domain 1	0.5296	50
CCN5	Cellular communication network factor 5	0.5237	50
OMD	Osteomodulin	0.5230	50
COL6A6	Collagen type VI alpha 6 chain	0.5153	50
PPDPFL	Pancreatic progenitor cell differentiation and proliferation factor like	0.5150	50
CARMIL1	Capping protein regulator and myosin 1 linker 1	0.5073	50
CCN2	Cellular communication network factor 2	0.5054	50
C5orf58	Chromosome 5 open reading frame 58	0.4951	50
GSN	Gelsolin	0.4878	50
FBXO42	F-box protein 42	0.4864	44

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	40.2 nTPM
Adipose tissue	41.2 nTPM
Breast	39.2 nTPM

Alveolar cells type 1	44.8 nTPM
Lung	44.8 nTPM

Alveolar cells type 2	40.9 nTPM
Lung	40.9 nTPM

Astrocytes	66.3 nTPM
Brain	66.3 nTPM

B-cells	35.1 nTPM
Bone marrow	55.6 nTPM
Spleen	51.2 nTPM
Lymph node	47.3 nTPM
Adipose tissue	40.7 nTPM
Stomach	38.6 nTPM
Breast	30.7 nTPM
PBMC	25.7 nTPM
Kidney	23.8 nTPM
Colon	22.3 nTPM
Liver	14.9 nTPM

Dendritic cells	48.8 nTPM
Adipose tissue	64.6 nTPM
PBMC	43.8 nTPM
Breast	37.9 nTPM

Endothelial cells	31.8 nTPM
Heart muscle	61.2 nTPM
Lung	56.1 nTPM
Liver	38.5 nTPM
Skeletal muscle	38.5 nTPM
Ovary	36.3 nTPM
Endometrium	33.0 nTPM
Esophagus	30.9 nTPM
Breast	29.4 nTPM
Eye	29.1 nTPM
Testis	28.8 nTPM
Placenta	19.9 nTPM
Prostate	16.7 nTPM
Skin	15.6 nTPM
Pancreas	11.6 nTPM

Fibroblasts	39.6 nTPM
Adipose tissue	81.0 nTPM
Heart muscle	55.2 nTPM
Esophagus	46.8 nTPM
Breast	44.0 nTPM
Stomach	43.0 nTPM
Skeletal muscle	42.1 nTPM
Ovary	27.5 nTPM
Skin	27.1 nTPM
Lung	25.7 nTPM
Placenta	22.5 nTPM
Prostate	21.1 nTPM

Intestinal goblet cells	28.6 nTPM
Small intestine	33.7 nTPM
Rectum	30.1 nTPM
Colon	22.1 nTPM

Macrophages	35.1 nTPM
Lung	61.8 nTPM
Bone marrow	53.7 nTPM
Stomach	41.0 nTPM
PBMC	40.9 nTPM
Spleen	40.4 nTPM
Ovary	39.7 nTPM
Esophagus	34.6 nTPM
Adipose tissue	33.8 nTPM
Skeletal muscle	32.6 nTPM
Breast	31.4 nTPM
Endometrium	30.8 nTPM
Testis	30.3 nTPM
Kidney	23.4 nTPM
Pancreas	17.8 nTPM
Prostate	13.8 nTPM

Paneth cells	27.8 nTPM
Colon	32.9 nTPM
Rectum	31.7 nTPM
Small intestine	18.8 nTPM

Plasma cells	42.4 nTPM
Esophagus	61.7 nTPM
Adipose tissue	59.4 nTPM
Bone marrow	33.0 nTPM
Stomach	30.8 nTPM
Spleen	27.0 nTPM

Respiratory ciliated cells	37.3 nTPM
Lung	39.4 nTPM
Bronchus	35.1 nTPM

Smooth muscle cells	35.6 nTPM
Adipose tissue	61.6 nTPM
Heart muscle	56.5 nTPM
Esophagus	46.5 nTPM
Skeletal muscle	40.4 nTPM
Ovary	38.7 nTPM
Endometrium	35.1 nTPM
Breast	33.8 nTPM
Bronchus	23.6 nTPM
Skin	18.8 nTPM
Pancreas	18.2 nTPM
Prostate	18.1 nTPM

T-cells	41.0 nTPM
Bone marrow	59.5 nTPM
Skeletal muscle	58.4 nTPM
Lung	53.2 nTPM
Spleen	53.2 nTPM
Lymph node	52.8 nTPM
Esophagus	45.9 nTPM
Stomach	45.2 nTPM
Adipose tissue	43.8 nTPM
Endometrium	43.7 nTPM
PBMC	40.3 nTPM
Breast	38.2 nTPM
Liver	33.6 nTPM
Ovary	33.3 nTPM
Kidney	32.2 nTPM
Colon	30.0 nTPM
Prostate	19.0 nTPM
Skin	15.2 nTPM

Basal keratinocytes	17.2 nTPM
Skin	17.2 nTPM

Basal respiratory cells	21.2 nTPM
Bronchus	21.2 nTPM

Basal squamous epithelial cells	32.5 nTPM
Esophagus	32.5 nTPM

Cholangiocytes	22.8 nTPM
Liver	22.8 nTPM

Undifferentiated cells	24.8 nTPM
Rectum	30.6 nTPM
Small intestine	25.7 nTPM
Colon	18.1 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