Single cell type - OTUD6B - 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.	OTUD6B
Gene descriptionⁱ Full gene name according to HGNC.	OTU deubiquitinase 6B
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Disease related genes Enzymes Human disease related genes Potential drug targets
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 - 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. 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	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 many
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

OTUD6B is part of cluster 59 Non-specific - Transcription with confidenceⁱ 1
354 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
RBM19	RNA binding motif protein 19	0.5119	59
URB2	URB2 ribosome biogenesis homolog	0.5000	9
TADA1	Transcriptional adaptor 1	0.4882	59
DCAF8	DDB1 and CUL4 associated factor 8	0.4316	59
TRNT1	TRNA nucleotidyl transferase 1	0.4306	59
FAM160B2	Family with sequence similarity 160 member B2	0.4285	43
NSUN2	NOP2/Sun RNA methyltransferase 2	0.4283	59
NOL11	Nucleolar protein 11	0.4250	39
CTC1	CST telomere replication complex component 1	0.4230	59
NBPF12	NBPF member 12	0.4187	59
CBWD2	COBW domain containing 2	0.4173	28
EXOSC10	Exosome component 10	0.4114	59
UTY	Ubiquitously transcribed tetratricopeptide repeat containing, Y-linked	0.4066	59
CHD7	Chromodomain helicase DNA binding protein 7	0.4042	9
ZNF549	Zinc finger protein 549	0.4002	52

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	11.9 nTPM
Adipose tissue	15.5 nTPM
Breast	8.2 nTPM

Alveolar cells type 1	9.6 nTPM
Lung	9.6 nTPM

Alveolar cells type 2	11.3 nTPM
Lung	11.3 nTPM

Astrocytes	9.8 nTPM
Brain	9.8 nTPM

B-cells	13.7 nTPM
Adipose tissue	22.5 nTPM
Spleen	21.1 nTPM
Colon	16.0 nTPM
Lymph node	15.6 nTPM
Stomach	15.5 nTPM
Kidney	14.3 nTPM
Liver	11.4 nTPM
Bone marrow	10.6 nTPM
PBMC	5.7 nTPM
Breast	4.0 nTPM

Dendritic cells	16.5 nTPM
Adipose tissue	20.1 nTPM
PBMC	16.0 nTPM
Breast	13.5 nTPM

Endothelial cells	10.9 nTPM
Lung	31.2 nTPM
Heart muscle	20.1 nTPM
Testis	12.5 nTPM
Endometrium	11.0 nTPM
Ovary	10.4 nTPM
Skeletal muscle	10.0 nTPM
Eye	9.7 nTPM
Liver	9.2 nTPM
Esophagus	8.8 nTPM
Placenta	8.0 nTPM
Skin	7.9 nTPM
Breast	7.4 nTPM
Prostate	6.4 nTPM
Pancreas	0.0 nTPM

Fibroblasts	9.0 nTPM
Lung	30.1 nTPM
Adipose tissue	9.7 nTPM
Breast	7.7 nTPM
Skeletal muscle	7.6 nTPM
Stomach	7.4 nTPM
Esophagus	7.0 nTPM
Skin	6.9 nTPM
Prostate	6.7 nTPM
Ovary	6.3 nTPM
Placenta	5.1 nTPM
Heart muscle	4.7 nTPM

Intestinal goblet cells	4.9 nTPM
Colon	7.2 nTPM
Small intestine	3.9 nTPM
Rectum	3.7 nTPM

Macrophages	8.3 nTPM
Lung	15.8 nTPM
Endometrium	13.7 nTPM
Testis	12.2 nTPM
Breast	12.2 nTPM
Adipose tissue	11.3 nTPM
Esophagus	11.0 nTPM
Stomach	8.8 nTPM
Skeletal muscle	8.3 nTPM
Kidney	7.6 nTPM
Ovary	7.1 nTPM
Bone marrow	6.2 nTPM
Spleen	5.2 nTPM
Pancreas	2.5 nTPM
Prostate	2.2 nTPM
PBMC	0.0 nTPM

Paneth cells	3.7 nTPM
Colon	6.5 nTPM
Rectum	4.6 nTPM
Small intestine	0.0 nTPM

Plasma cells	12.0 nTPM
Esophagus	18.4 nTPM
Adipose tissue	17.4 nTPM
Bone marrow	9.9 nTPM
Spleen	7.5 nTPM
Stomach	6.9 nTPM

Respiratory ciliated cells	8.8 nTPM
Lung	10.2 nTPM
Bronchus	7.4 nTPM

Smooth muscle cells	9.6 nTPM
Heart muscle	25.3 nTPM
Adipose tissue	13.1 nTPM
Skin	10.8 nTPM
Endometrium	10.7 nTPM
Esophagus	9.3 nTPM
Ovary	8.9 nTPM
Pancreas	8.1 nTPM
Skeletal muscle	6.8 nTPM
Breast	6.3 nTPM
Prostate	6.0 nTPM
Bronchus	0.0 nTPM

T-cells	10.7 nTPM
Esophagus	19.7 nTPM
Spleen	16.3 nTPM
Endometrium	15.2 nTPM
Bone marrow	14.4 nTPM
Adipose tissue	14.0 nTPM
Lymph node	13.8 nTPM
Breast	13.5 nTPM
Colon	12.8 nTPM
Stomach	12.6 nTPM
PBMC	10.2 nTPM
Liver	9.1 nTPM
Lung	9.1 nTPM
Skin	8.8 nTPM
Skeletal muscle	7.7 nTPM
Kidney	5.5 nTPM
Prostate	0.0 nTPM
Ovary	0.0 nTPM

Basal keratinocytes	23.2 nTPM
Skin	23.2 nTPM

Cholangiocytes	8.6 nTPM
Liver	8.6 nTPM

Collecting duct cells	1.8 nTPM
Kidney	1.8 nTPM

Cone photoreceptor cells	33.3 nTPM
Eye	33.3 nTPM

Undifferentiated cells	6.4 nTPM
Colon	7.1 nTPM
Small intestine	6.2 nTPM
Rectum	5.9 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