Single cell type - LBH - 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.	LBH
Gene descriptionⁱ Full gene name according to HGNC.	LBH regulator of WNT signaling pathway
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.	5

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	Smooth muscle cells - 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 (Smooth muscle cells, Pancreatic endocrine cells, Cone photoreceptor 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	Group enriched (naive CD4 T-cell, naive CD8 T-cell, naive B-cell, gdT-cell, MAIT T-cell, memory B-cell, T-reg, memory CD8 T-cell, memory CD4 T-cell)
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	Cell line enhanced (fHDF/TERT166, hTERT-RPE1, U-2 OS)
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 many
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 (Smooth muscle cells, Pancreatic endocrine cells, Cone photoreceptor 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

LBH is part of cluster 48 Smooth muscle cells - ECM organization with confidenceⁱ 1
270 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
RERGL	RERG like	0.6873	48
REM1	RRAD and GEM like GTPase 1	0.6640	48
LMOD1	Leiomodin 1	0.6222	48
GPR20	G protein-coupled receptor 20	0.6209	48
MYH11	Myosin heavy chain 11	0.6115	48
AOC3	Amine oxidase copper containing 3	0.5984	48
NRIP2	Nuclear receptor interacting protein 2	0.5898	48
RASL12	RAS like family 12	0.5898	48
MCAM	Melanoma cell adhesion molecule	0.5837	48
MYL9	Myosin light chain 9	0.5806	48
FAM162B	Family with sequence similarity 162 member B	0.5705	48
RASGRP2	RAS guanyl releasing protein 2	0.5702	57
HIGD1B	HIG1 hypoxia inducible domain family member 1B	0.5694	48
OR51E1	Olfactory receptor family 51 subfamily E member 1	0.5683	48
NOTCH3	Notch receptor 3	0.5670	48

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	46.9 nTPM
Breast	81.3 nTPM
Adipose tissue	12.6 nTPM

Alveolar cells type 1	109.0 nTPM
Lung	109.0 nTPM

Alveolar cells type 2	20.0 nTPM
Lung	20.0 nTPM

Astrocytes	0.7 nTPM
Brain	0.7 nTPM

B-cells	167.3 nTPM
Lymph node	440.1 nTPM
PBMC	224.2 nTPM
Kidney	190.4 nTPM
Bone marrow	170.0 nTPM
Breast	148.4 nTPM
Stomach	141.3 nTPM
Spleen	119.1 nTPM
Adipose tissue	118.9 nTPM
Colon	84.7 nTPM
Liver	36.1 nTPM

Dendritic cells	152.2 nTPM
Breast	274.8 nTPM
Adipose tissue	153.8 nTPM
PBMC	27.9 nTPM

Endothelial cells	81.8 nTPM
Pancreas	320.4 nTPM
Ovary	320.3 nTPM
Esophagus	93.0 nTPM
Prostate	78.3 nTPM
Breast	69.7 nTPM
Eye	47.7 nTPM
Skin	46.1 nTPM
Heart muscle	45.4 nTPM
Skeletal muscle	40.7 nTPM
Endometrium	25.3 nTPM
Placenta	22.7 nTPM
Testis	14.9 nTPM
Liver	11.0 nTPM
Lung	9.3 nTPM

Fibroblasts	54.7 nTPM
Esophagus	124.0 nTPM
Stomach	93.6 nTPM
Lung	75.9 nTPM
Breast	55.6 nTPM
Skeletal muscle	48.0 nTPM
Skin	43.8 nTPM
Ovary	40.8 nTPM
Prostate	38.2 nTPM
Heart muscle	34.6 nTPM
Adipose tissue	27.8 nTPM
Placenta	19.0 nTPM

Intestinal goblet cells	9.3 nTPM
Colon	25.7 nTPM
Rectum	2.3 nTPM
Small intestine	0.0 nTPM

Macrophages	14.3 nTPM
Breast	95.8 nTPM
Esophagus	26.8 nTPM
Prostate	15.0 nTPM
Stomach	14.7 nTPM
Endometrium	14.0 nTPM
Adipose tissue	11.5 nTPM
Skeletal muscle	9.9 nTPM
Lung	9.4 nTPM
Bone marrow	8.7 nTPM
Pancreas	2.5 nTPM
Spleen	2.1 nTPM
Testis	1.7 nTPM
Kidney	1.5 nTPM
Ovary	0.8 nTPM
PBMC	0.0 nTPM

Paneth cells	8.7 nTPM
Rectum	16.2 nTPM
Colon	9.9 nTPM
Small intestine	0.0 nTPM

Plasma cells	26.3 nTPM
Adipose tissue	49.7 nTPM
Stomach	28.7 nTPM
Esophagus	18.4 nTPM
Spleen	18.2 nTPM
Bone marrow	16.5 nTPM

Respiratory ciliated cells	67.8 nTPM
Lung	115.2 nTPM
Bronchus	20.6 nTPM

Smooth muscle cells	435.6 nTPM
Heart muscle	1071.4 nTPM
Esophagus	986.2 nTPM
Breast	630.4 nTPM
Skin	532.1 nTPM
Skeletal muscle	364.7 nTPM
Prostate	355.7 nTPM
Adipose tissue	336.2 nTPM
Endometrium	224.6 nTPM
Bronchus	167.3 nTPM
Ovary	68.0 nTPM
Pancreas	54.9 nTPM

T-cells	205.3 nTPM
Lymph node	611.1 nTPM
Breast	403.4 nTPM
Esophagus	294.8 nTPM
PBMC	261.9 nTPM
Spleen	217.0 nTPM
Adipose tissue	213.9 nTPM
Colon	187.2 nTPM
Liver	177.6 nTPM
Kidney	170.5 nTPM
Bone marrow	155.8 nTPM
Stomach	154.1 nTPM
Ovary	144.6 nTPM
Skeletal muscle	136.6 nTPM
Skin	129.3 nTPM
Endometrium	99.4 nTPM
Lung	66.8 nTPM
Prostate	66.3 nTPM

Basal keratinocytes	12.4 nTPM
Skin	12.4 nTPM

Basal prostatic cells	64.5 nTPM
Prostate	64.5 nTPM

Basal respiratory cells	51.7 nTPM
Bronchus	51.7 nTPM

Cholangiocytes	12.8 nTPM
Liver	12.8 nTPM

Undifferentiated cells	6.3 nTPM
Colon	14.0 nTPM
Small intestine	3.3 nTPM
Rectum	1.5 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