Cell type atlas - LYRM4 - The Human Protein Atlas

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LYRM4

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.	LYRM4
Gene descriptionⁱ Full gene name according to HGNC.	LYR motif containing 4
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Disease related genes
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 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 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.	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	24 NX
Lung	24 NX

Alveolar cells type 2	15 NX
Lung	15 NX

B-cells	48 NX
Colon	58 NX
Kidney	45 NX
Liver	25 NX

Basal glandular cells	41 NX
Prostate	41 NX

Basal keratinocytes	65 NX
Skin	65 NX

Bipolar cells	15 NX
Eye	15 NX

Cardiomyocytes	25 NX
Heart muscle	25 NX

Cholangiocytes	20 NX
Liver	20 NX

Ciliated cells	17 NX
Lung	17 NX

Club cells	23 NX
Lung	23 NX

Collecting duct cells	17 NX
Kidney	17 NX

Cone photoreceptor cells	8 NX
Eye	8 NX

Cytotrophoblasts	44 NX
Placenta	44 NX

Distal tubular cells	27 NX
Kidney	27 NX

Ductal cells	39 NX
Pancreas	39 NX

Early spermatids	25 NX
Testis	25 NX

Endothelial cells	33 NX
Placenta	77 NX
Skin	65 NX
Prostate	61 NX
Liver	56 NX
Testis	33 NX
Heart muscle	26 NX
Pancreas	25 NX
Eye	21 NX
Lung	20 NX

Enterocytes	7 NX
Rectum	8 NX
Small intestine	6 NX
Colon	5 NX

Erythroid cells	0 NX
Liver	0 NX

Exocrine glandular cells	38 NX
Pancreas	38 NX

Extravillous trophoblasts	61 NX
Placenta	61 NX

Fibroblasts	51 NX
Prostate	82 NX
Placenta	53 NX
Skin	53 NX
Heart muscle	28 NX
Lung	16 NX

Glandular cells	45 NX
Prostate	45 NX

Granulocytes	41 NX
Colon	64 NX
Lung	19 NX

Hepatocytes	26 NX
Liver	26 NX

Hofbauer cells	54 NX
Placenta	54 NX

Horizontal cells	11 NX
Eye	11 NX

Intestinal endocrine cells	31 NX
Colon	34 NX
Rectum	28 NX

Ito cells	37 NX
Liver	37 NX

Kupffer cells	41 NX
Liver	41 NX

Late spermatids	74 NX
Testis	74 NX

Leydig cells	43 NX
Testis	43 NX

Macrophages	47 NX
Skin	68 NX
Prostate	63 NX
Kidney	50 NX
Pancreas	44 NX
Testis	44 NX
Lung	17 NX

Melanocytes	66 NX
Skin	66 NX

Mixed cell types	NX
Pancreas	NX

Mixed immune cells	NX
Heart muscle	NX

Monocytes	88 NX
Pancreas	88 NX

Mucus-secreting cells	22 NX
Rectum	33 NX
Colon	23 NX
Small intestine	16 NX

Muller glia cells	33 NX
Eye	33 NX

Pancreatic endocrine cells	37 NX
Pancreas	37 NX

Paneth cells	7 NX
Rectum	32 NX
Small intestine	7 NX
Colon	3 NX

Peritubular cells	33 NX
Testis	33 NX

Proximal tubular cells	64 NX
Kidney	64 NX

Rod photoreceptor cells	14 NX
Eye	14 NX

Sertoli cells	32 NX
Testis	32 NX

Smooth muscle cells	43 NX
Pancreas	48 NX
Skin	44 NX
Prostate	43 NX
Heart muscle	32 NX

Spermatocytes	81 NX
Testis	81 NX

Spermatogonia	81 NX
Testis	81 NX

Suprabasal keratinocytes	72 NX
Skin	72 NX

Syncytiotrophoblasts	40 NX
Placenta	40 NX

T-cells	34 NX
Skin	85 NX
Liver	37 NX
Kidney	34 NX
Colon	34 NX
Lung	25 NX
Prostate	18 NX

Undifferentiated cells	40 NX
Rectum	42 NX
Small intestine	40 NX
Colon	27 NX

Urothelial cells	46 NX
Prostate	46 NX

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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