Single cell type - LSR - 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.	LSR
Gene descriptionⁱ Full gene name according to HGNC.	Lipolysis stimulated lipoprotein receptor
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,Membrane
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	11

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	Intestinal epithelial cells - 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 (Pancreatic endocrine cells, Distal enterocytes, Exocrine glandular cells, Paneth cells, Ductal cells, Syncytiotrophoblasts)
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	Cell line enhanced (A-431, CACO-2, CAPAN-2, HaCaT, OE19, RT4)
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 (Pancreatic endocrine cells, Distal enterocytes, Exocrine glandular cells, Paneth cells, Ductal cells, Syncytiotrophoblasts)

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

LSR is part of cluster 53 Intestinal epithelial cells - Unknown function with confidenceⁱ 1
611 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
SERINC2	Serine incorporator 2	0.7353	53
KRT18	Keratin 18	0.7236	1
TMBIM1	Transmembrane BAX inhibitor motif containing 1	0.7204	53
TAX1BP3	Tax1 binding protein 3	0.6964	53
CD151	CD151 molecule (Raph blood group)	0.6878	1
DUOX2	Dual oxidase 2	0.6810	16
RHOD	Ras homolog family member D	0.6676	16
PPARD	Peroxisome proliferator activated receptor delta	0.6611	53
C4orf19	Chromosome 4 open reading frame 19	0.6595	53
ITGA3	Integrin subunit alpha 3	0.6492	1
LRP10	LDL receptor related protein 10	0.6423	53
CHMP4C	Charged multivesicular body protein 4C	0.6325	1
RIPK3	Receptor interacting serine/threonine kinase 3	0.6325	53
SPINT2	Serine peptidase inhibitor, Kunitz type 2	0.6281	47
KRT8	Keratin 8	0.6185	16

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	38.2 nTPM
Adipose tissue	41.2 nTPM
Breast	35.1 nTPM

Alveolar cells type 1	16.0 nTPM
Lung	16.0 nTPM

Alveolar cells type 2	21.7 nTPM
Lung	21.7 nTPM

Astrocytes	0.3 nTPM
Brain	0.3 nTPM

B-cells	26.3 nTPM
Stomach	49.1 nTPM
Lymph node	48.1 nTPM
Spleen	31.8 nTPM
Liver	31.0 nTPM
Breast	28.1 nTPM
Adipose tissue	25.5 nTPM
Bone marrow	18.0 nTPM
PBMC	15.7 nTPM
Colon	11.2 nTPM
Kidney	4.8 nTPM

Dendritic cells	4.7 nTPM
Adipose tissue	9.3 nTPM
Breast	4.7 nTPM
PBMC	0.0 nTPM

Endothelial cells	44.6 nTPM
Placenta	105.7 nTPM
Eye	100.3 nTPM
Testis	66.3 nTPM
Esophagus	57.5 nTPM
Breast	56.0 nTPM
Endometrium	50.7 nTPM
Prostate	48.6 nTPM
Skin	41.1 nTPM
Skeletal muscle	40.8 nTPM
Liver	23.8 nTPM
Heart muscle	11.6 nTPM
Pancreas	11.6 nTPM
Ovary	6.9 nTPM
Lung	3.1 nTPM

Fibroblasts	11.9 nTPM
Prostate	19.2 nTPM
Lung	19.0 nTPM
Placenta	17.7 nTPM
Skin	16.4 nTPM
Stomach	13.4 nTPM
Breast	12.7 nTPM
Heart muscle	11.9 nTPM
Ovary	8.7 nTPM
Adipose tissue	4.3 nTPM
Esophagus	3.7 nTPM
Skeletal muscle	3.6 nTPM

Intestinal goblet cells	145.5 nTPM
Colon	218.0 nTPM
Rectum	122.3 nTPM
Small intestine	96.3 nTPM

Macrophages	4.6 nTPM
Prostate	16.0 nTPM
Ovary	11.8 nTPM
Endometrium	11.3 nTPM
Breast	7.3 nTPM
Esophagus	6.3 nTPM
Pancreas	5.1 nTPM
Adipose tissue	2.9 nTPM
Skeletal muscle	2.7 nTPM
Kidney	2.3 nTPM
Lung	2.1 nTPM
Testis	1.7 nTPM
PBMC	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	273.6 nTPM
Colon	454.5 nTPM
Rectum	189.7 nTPM
Small intestine	176.5 nTPM

Plasma cells	41.1 nTPM
Spleen	58.5 nTPM
Stomach	50.9 nTPM
Bone marrow	37.9 nTPM
Esophagus	36.9 nTPM
Adipose tissue	21.3 nTPM

Respiratory ciliated cells	43.8 nTPM
Bronchus	74.6 nTPM
Lung	13.1 nTPM

Smooth muscle cells	24.4 nTPM
Ovary	77.0 nTPM
Bronchus	39.3 nTPM
Prostate	29.7 nTPM
Pancreas	28.6 nTPM
Skin	19.1 nTPM
Esophagus	18.6 nTPM
Breast	16.6 nTPM
Endometrium	15.8 nTPM
Heart muscle	9.5 nTPM
Adipose tissue	8.3 nTPM
Skeletal muscle	6.2 nTPM

T-cells	24.3 nTPM
Lymph node	59.1 nTPM
Skin	45.1 nTPM
Adipose tissue	44.4 nTPM
Spleen	36.4 nTPM
Breast	28.8 nTPM
Prostate	28.4 nTPM
Stomach	28.2 nTPM
Esophagus	26.2 nTPM
PBMC	18.1 nTPM
Endometrium	17.8 nTPM
Colon	17.6 nTPM
Kidney	16.4 nTPM
Skeletal muscle	15.4 nTPM
Bone marrow	12.2 nTPM
Lung	9.1 nTPM
Liver	8.6 nTPM
Ovary	2.2 nTPM

Basal keratinocytes	51.7 nTPM
Skin	51.7 nTPM

Basal prostatic cells	123.4 nTPM
Prostate	123.4 nTPM

Basal respiratory cells	90.7 nTPM
Bronchus	90.7 nTPM

Cholangiocytes	78.6 nTPM
Liver	78.6 nTPM

Undifferentiated cells	124.2 nTPM
Rectum	142.2 nTPM
Colon	140.1 nTPM
Small intestine	90.3 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