Cell type atlas - LGALS9 - The Human Protein Atlas

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LGALS9

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.	LGALS9
Gene descriptionⁱ Full gene name according to HGNC.	Galectin 9
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,Secreted
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	7

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	Cell type enhanced (Hofbauer cells, Kupffer cells, Paneth cells)
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.	Cell line enhanced (BJ hTERT+ SV40 Large T+ RasG12V, HMC-1, MOLT-4, REH, THP-1, U-937)
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 some
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
Extracellular locationⁱ A possible secretion of the protein was predicted based on N-terminal signal sequence (signal peptide) predictions and transmembrane region predictions, and subsequently annotated for its local or systemic secretion based on literature, function, and protein and RNA expression data. Read more	Protein predicted to be secreted

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: Cell type enhanced (Hofbauer cells, Kupffer cells, Paneth cells)

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	9 NX
Lung	9 NX

Alveolar cells type 2	8 NX
Lung	8 NX

B-cells	29 NX
Colon	78 NX
Kidney	45 NX
Liver	10 NX

Basal glandular cells	6 NX
Prostate	6 NX

Basal keratinocytes	3 NX
Skin	3 NX

Bipolar cells	0 NX
Eye	0 NX

Cardiomyocytes	1 NX
Heart muscle	1 NX

Cholangiocytes	26 NX
Liver	26 NX

Ciliated cells	11 NX
Lung	11 NX

Club cells	13 NX
Lung	13 NX

Collecting duct cells	7 NX
Kidney	7 NX

Cone photoreceptor cells	0 NX
Eye	0 NX

Cytotrophoblasts	2 NX
Placenta	2 NX

Distal tubular cells	3 NX
Kidney	3 NX

Ductal cells	100 NX
Pancreas	100 NX

Early spermatids	1 NX
Testis	1 NX

Endothelial cells	23 NX
Pancreas	104 NX
Placenta	50 NX
Eye	47 NX
Testis	31 NX
Skin	28 NX
Lung	23 NX
Prostate	22 NX
Liver	16 NX
Heart muscle	14 NX

Enterocytes	125 NX
Colon	215 NX
Rectum	110 NX
Small intestine	19 NX

Erythroid cells	0 NX
Liver	0 NX

Exocrine glandular cells	112 NX
Pancreas	112 NX

Extravillous trophoblasts	3 NX
Placenta	3 NX

Fibroblasts	7 NX
Skin	9 NX
Placenta	7 NX
Lung	2 NX
Prostate	2 NX
Heart muscle	1 NX

Glandular cells	3 NX
Prostate	3 NX

Granulocytes	31 NX
Colon	46 NX
Lung	16 NX

Hepatocytes	1 NX
Liver	1 NX

Hofbauer cells	274 NX
Placenta	273 NX

Horizontal cells	0 NX
Eye	0 NX

Intestinal endocrine cells	39 NX
Colon	61 NX
Rectum	16 NX

Ito cells	18 NX
Liver	18 NX

Kupffer cells	190 NX
Liver	190 NX

Late spermatids	2 NX
Testis	1 NX

Leydig cells	4 NX
Testis	4 NX

Macrophages	134 NX
Pancreas	192 NX
Kidney	175 NX
Prostate	136 NX
Testis	131 NX
Lung	131 NX
Skin	76 NX

Melanocytes	2 NX
Skin	2 NX

Mixed cell types	NX
Pancreas	NX

Mixed immune cells	NX
Heart muscle	NX

Monocytes	127 NX
Pancreas	127 NX

Mucus-secreting cells	146 NX
Colon	225 NX
Rectum	152 NX
Small intestine	104 NX

Muller glia cells	0 NX
Eye	0 NX

Pancreatic endocrine cells	119 NX
Pancreas	119 NX

Paneth cells	182 NX
Colon	222 NX
Rectum	182 NX
Small intestine	84 NX

Peritubular cells	3 NX
Testis	3 NX

Proximal tubular cells	0 NX
Kidney	0 NX

Rod photoreceptor cells	1 NX
Eye	1 NX

Sertoli cells	19 NX
Testis	19 NX

Smooth muscle cells	3 NX
Pancreas	18 NX
Heart muscle	4 NX
Skin	3 NX
Prostate	2 NX

Spermatocytes	0 NX
Testis	0 NX

Spermatogonia	1 NX
Testis	1 NX

Suprabasal keratinocytes	2 NX
Skin	2 NX

Syncytiotrophoblasts	3 NX
Placenta	3 NX

T-cells	25 NX
Liver	44 NX
Lung	26 NX
Colon	25 NX
Kidney	14 NX
Prostate	13 NX
Skin	13 NX

Undifferentiated cells	106 NX
Colon	167 NX
Rectum	106 NX
Small intestine	66 NX

Urothelial cells	26 NX
Prostate	26 NX

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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