Cell type atlas - LSM2 - The Human Protein Atlas

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LSM2

SUMMARY

TISSUE

CELL TYPE

PATHOLOGY

BRAIN

BLOOD

CELL

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.	LSM2
Gene descriptionⁱ Full gene name according to HGNC.	LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated
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	Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	1

HUMAN PROTEIN ATLAS INFORMATIONⁱ Summary of RNA expression and protein localization based on data generated within the Human Protein Atlas project.
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
Blood 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 cell type specificity
Blood 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.	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.	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 (NX) 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 TISSUESⁱ Single cell RNA in cell types from tissue are shown separately for each analyzed tissue. For easier navigation across tissues, use the grey browser on the left side of the window. Barchart shows pTPM levels in each 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 Colon
Cluster Expression Alphabetical Eye
Cluster Expression Alphabetical Heart muscle
Cluster Expression Alphabetical Kidney
Cluster Expression Alphabetical Liver
Cluster Expression Alphabetical Lung
Cluster Expression Alphabetical Pancreas
Cluster Expression Alphabetical Placenta
Cluster Expression Alphabetical Prostate
Cluster Expression Alphabetical Rectum
Cluster Expression Alphabetical Skin
Cluster Expression Alphabetical Small intestine
Cluster Expression Alphabetical Testis

BLOODⁱ

Single cell data

Cluster

Expression

Alphabetical

PBMC

Flow sorted data

Lineage

Expression

Alphabetical

CELL LINESⁱ RNA expression data (NX) of tissue culture cell lines.The analyzed cell lines are divided into 16 color-coded groups according to the organ they were obtained from. Detailed information about a specific cell line is revealed by hovering over the corresponding bar in the chart. The chart is clickable and redirects to more Cell Atlas data. Read more
Organ Expression Alphabetical

Alveolar cells type 1	21 NX
Lung	21 NX

Alveolar cells type 2	23 NX
Lung	23 NX

B-cells	107 NX
Liver	128 NX
Kidney	116 NX
Colon	94 NX

Basal glandular cells	62 NX
Prostate	62 NX

Basal keratinocytes	52 NX
Skin	52 NX

Bipolar cells	31 NX
Eye	31 NX

Cardiomyocytes	12 NX
Heart muscle	12 NX

Cholangiocytes	41 NX
Liver	41 NX

Ciliated cells	19 NX
Lung	19 NX

Club cells	23 NX
Lung	23 NX

Collecting duct cells	52 NX
Kidney	52 NX

Cone photoreceptor cells	6 NX
Eye	6 NX

Cytotrophoblasts	114 NX
Placenta	114 NX

Distal tubular cells	96 NX
Kidney	96 NX

Ductal cells	90 NX
Pancreas	90 NX

Early spermatids	18 NX
Testis	18 NX

Endothelial cells	82 NX
Placenta	132 NX
Prostate	118 NX
Skin	112 NX
Testis	108 NX
Pancreas	82 NX
Liver	67 NX
Eye	38 NX
Heart muscle	25 NX
Lung	15 NX

Enterocytes	26 NX
Small intestine	36 NX
Rectum	31 NX
Colon	13 NX

Erythroid cells	70 NX
Liver	70 NX

Exocrine glandular cells	119 NX
Pancreas	119 NX

Extravillous trophoblasts	172 NX
Placenta	172 NX

Fibroblasts	69 NX
Placenta	86 NX
Skin	70 NX
Prostate	45 NX
Lung	22 NX
Heart muscle	19 NX

Glandular cells	55 NX
Prostate	55 NX

Granulocytes	83 NX
Colon	129 NX
Lung	37 NX

Hepatocytes	53 NX
Liver	53 NX

Hofbauer cells	123 NX
Placenta	123 NX

Horizontal cells	29 NX
Eye	29 NX

Intestinal endocrine cells	52 NX
Rectum	56 NX
Colon	48 NX

Ito cells	62 NX
Liver	62 NX

Kupffer cells	59 NX
Liver	59 NX

Late spermatids	20 NX
Testis	20 NX

Leydig cells	46 NX
Testis	46 NX

Macrophages	69 NX
Prostate	102 NX
Kidney	77 NX
Skin	72 NX
Pancreas	70 NX
Testis	63 NX
Lung	27 NX

Melanocytes	88 NX
Skin	88 NX

Mixed cell types	NX
Pancreas	NX

Mixed immune cells	NX
Heart muscle	NX

Monocytes	110 NX
Pancreas	110 NX

Mucus-secreting cells	90 NX
Colon	93 NX
Rectum	87 NX
Small intestine	66 NX

Muller glia cells	35 NX
Eye	35 NX

Pancreatic endocrine cells	82 NX
Pancreas	82 NX

Paneth cells	49 NX
Rectum	86 NX
Small intestine	49 NX
Colon	17 NX

Peritubular cells	46 NX
Testis	46 NX

Proximal tubular cells	86 NX
Kidney	86 NX

Rod photoreceptor cells	26 NX
Eye	26 NX

Sertoli cells	45 NX
Testis	45 NX

Smooth muscle cells	58 NX
Pancreas	99 NX
Skin	76 NX
Prostate	50 NX
Heart muscle	32 NX

Spermatocytes	50 NX
Testis	50 NX

Spermatogonia	178 NX
Testis	178 NX

Suprabasal keratinocytes	56 NX
Skin	56 NX

Syncytiotrophoblasts	58 NX
Placenta	58 NX

T-cells	108 NX
Prostate	140 NX
Liver	116 NX
Colon	108 NX
Kidney	87 NX
Skin	82 NX
Lung	27 NX

Undifferentiated cells	104 NX
Small intestine	132 NX
Rectum	98 NX
Colon	81 NX

Urothelial cells	40 NX
Prostate	40 NX

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

The Human Protein Atlas project is funded
by the Knut & Alice Wallenberg Foundation.