Single cell type - TRABD - 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.	TRABD
Gene descriptionⁱ Full gene name according to HGNC.	TraB domain containing
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	Membrane
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 - Basic cellular processes (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 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

TRABD is part of cluster 39 Non-specific - Basic cellular processes with confidenceⁱ 0.99
586 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
CORO7	Coronin 7	0.5603	65
TCOF1	Treacle ribosome biogenesis factor 1	0.5579	41
SLC52A2	Solute carrier family 52 member 2	0.5400	53
PRPF38B	Pre-mRNA processing factor 38B	0.5352	39
CCDC12	Coiled-coil domain containing 12	0.5325	39
PPAN	Peter pan homolog	0.5235	39
GMPPB	GDP-mannose pyrophosphorylase B	0.5201	55
CCDC88B	Coiled-coil domain containing 88B	0.5184	63
POLG	DNA polymerase gamma, catalytic subunit	0.5120	65
BAK1	BCL2 antagonist/killer 1	0.5115	53
FAM207A	Family with sequence similarity 207 member A	0.5097	39
SDF2L1	Stromal cell derived factor 2 like 1	0.5035	55
MRPS12	Mitochondrial ribosomal protein S12	0.5031	39
PARP10	Poly(ADP-ribose) polymerase family member 10	0.5020	63
WDR55	WD repeat domain 55	0.5018	53

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	22.2 nTPM
Breast	28.1 nTPM
Adipose tissue	16.3 nTPM

Alveolar cells type 1	9.6 nTPM
Lung	9.6 nTPM

Alveolar cells type 2	19.3 nTPM
Lung	19.3 nTPM

Astrocytes	12.1 nTPM
Brain	12.1 nTPM

B-cells	80.3 nTPM
Colon	140.6 nTPM
Liver	133.4 nTPM
Stomach	129.0 nTPM
Breast	127.1 nTPM
Adipose tissue	74.7 nTPM
Lymph node	47.2 nTPM
Bone marrow	43.4 nTPM
PBMC	42.8 nTPM
Spleen	36.4 nTPM
Kidney	28.5 nTPM

Dendritic cells	151.7 nTPM
PBMC	195.3 nTPM
Breast	134.8 nTPM
Adipose tissue	124.9 nTPM

Endothelial cells	27.2 nTPM
Pancreas	73.4 nTPM
Prostate	60.3 nTPM
Eye	37.2 nTPM
Testis	27.2 nTPM
Placenta	26.1 nTPM
Ovary	25.6 nTPM
Breast	22.6 nTPM
Liver	21.1 nTPM
Endometrium	20.6 nTPM
Skin	20.3 nTPM
Skeletal muscle	15.0 nTPM
Heart muscle	12.8 nTPM
Esophagus	11.9 nTPM
Lung	6.2 nTPM

Fibroblasts	27.2 nTPM
Prostate	66.5 nTPM
Placenta	49.7 nTPM
Ovary	38.5 nTPM
Stomach	28.2 nTPM
Breast	25.6 nTPM
Skin	22.9 nTPM
Adipose tissue	20.6 nTPM
Heart muscle	14.4 nTPM
Esophagus	14.3 nTPM
Skeletal muscle	14.2 nTPM
Lung	4.5 nTPM

Intestinal goblet cells	55.3 nTPM
Colon	86.5 nTPM
Rectum	39.9 nTPM
Small intestine	39.5 nTPM

Macrophages	69.6 nTPM
Stomach	123.1 nTPM
Breast	112.1 nTPM
Pancreas	94.4 nTPM
Adipose tissue	90.7 nTPM
Bone marrow	78.8 nTPM
Spleen	75.7 nTPM
Skeletal muscle	72.0 nTPM
Prostate	71.1 nTPM
Kidney	69.6 nTPM
Testis	65.0 nTPM
Endometrium	65.0 nTPM
Ovary	51.9 nTPM
Lung	43.7 nTPM
Esophagus	17.3 nTPM
PBMC	13.6 nTPM

Paneth cells	67.7 nTPM
Colon	75.8 nTPM
Small intestine	75.1 nTPM
Rectum	52.2 nTPM

Plasma cells	133.1 nTPM
Bone marrow	168.1 nTPM
Adipose tissue	155.4 nTPM
Spleen	145.4 nTPM
Stomach	141.1 nTPM
Esophagus	55.5 nTPM

Respiratory ciliated cells	19.7 nTPM
Bronchus	24.9 nTPM
Lung	14.6 nTPM

Smooth muscle cells	23.7 nTPM
Pancreas	54.3 nTPM
Prostate	35.7 nTPM
Ovary	35.3 nTPM
Breast	30.7 nTPM
Skin	25.8 nTPM
Bronchus	16.8 nTPM
Adipose tissue	16.1 nTPM
Endometrium	15.6 nTPM
Skeletal muscle	12.5 nTPM
Esophagus	12.4 nTPM
Heart muscle	6.0 nTPM

T-cells	84.3 nTPM
Ovary	149.0 nTPM
Breast	136.9 nTPM
Adipose tissue	114.9 nTPM
Colon	112.2 nTPM
Stomach	105.4 nTPM
PBMC	96.7 nTPM
Skin	94.4 nTPM
Bone marrow	86.6 nTPM
Kidney	77.4 nTPM
Spleen	76.8 nTPM
Liver	75.5 nTPM
Skeletal muscle	67.4 nTPM
Endometrium	55.9 nTPM
Prostate	52.1 nTPM
Esophagus	45.9 nTPM
Lymph node	44.3 nTPM
Lung	41.0 nTPM

Basal keratinocytes	42.1 nTPM
Skin	42.1 nTPM

Basal prostatic cells	57.4 nTPM
Prostate	57.4 nTPM

Basal respiratory cells	48.9 nTPM
Bronchus	48.9 nTPM

Basal squamous epithelial cells	33.6 nTPM
Esophagus	33.6 nTPM

Undifferentiated cells	71.0 nTPM
Colon	121.6 nTPM
Small intestine	49.7 nTPM
Rectum	41.8 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