Single cell type - MSH6 - 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.	MSH6
Gene descriptionⁱ Full gene name according to HGNC.	MutS homolog 6
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-related genes Disease related genes Human disease related genes 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.	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	Granulosa 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 (Granulosa cells, Theca 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	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 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. Read more	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. Read more	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 (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 (Granulosa cells, Theca 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

MSH6 is part of cluster 40 Granulosa cells - Unknown function with confidenceⁱ 1
316 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
FOXL2	Forkhead box L2	0.7235	40
ELK1	ETS transcription factor ELK1	0.7138	40
FNDC10	Fibronectin type III domain containing 10	0.7035	40
PNMA8A	PNMA family member 8A	0.6983	40
RBP1	Retinol binding protein 1	0.6798	40
PIMREG	PICALM interacting mitotic regulator	0.6624	40
AMH	Anti-Mullerian hormone	0.6501	40
SIGLEC11	Sialic acid binding Ig like lectin 11	0.6490	40
NECTIN1	Nectin cell adhesion molecule 1	0.6429	40
CRYGD	Crystallin gamma D	0.6417	40
FDXR	Ferredoxin reductase	0.6411	52
OR8D4	Olfactory receptor family 8 subfamily D member 4	0.6378	40
GATA4	GATA binding protein 4	0.6346	40
NDP	Norrin cystine knot growth factor NDP	0.6313	40
ZNF275	Zinc finger protein 275	0.6284	40

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	19.8 nTPM
Adipose tissue	20.7 nTPM
Breast	19.0 nTPM

Alveolar cells type 1	28.9 nTPM
Lung	28.9 nTPM

Alveolar cells type 2	21.4 nTPM
Lung	21.4 nTPM

Astrocytes	5.9 nTPM
Brain	5.9 nTPM

B-cells	19.2 nTPM
Adipose tissue	54.2 nTPM
Lymph node	27.3 nTPM
Breast	24.1 nTPM
Liver	18.0 nTPM
Colon	16.0 nTPM
Spleen	16.0 nTPM
Bone marrow	13.1 nTPM
PBMC	9.9 nTPM
Stomach	9.1 nTPM
Kidney	4.8 nTPM

Dendritic cells	20.7 nTPM
Adipose tissue	34.5 nTPM
Breast	15.7 nTPM
PBMC	12.0 nTPM

Endothelial cells	18.4 nTPM
Endometrium	28.2 nTPM
Lung	28.1 nTPM
Skeletal muscle	27.8 nTPM
Eye	21.0 nTPM
Prostate	19.8 nTPM
Esophagus	19.7 nTPM
Ovary	17.7 nTPM
Skin	17.2 nTPM
Testis	16.9 nTPM
Placenta	16.5 nTPM
Breast	14.2 nTPM
Heart muscle	12.6 nTPM
Liver	10.1 nTPM
Pancreas	7.7 nTPM

Fibroblasts	24.0 nTPM
Ovary	56.8 nTPM
Lung	52.5 nTPM
Placenta	25.1 nTPM
Stomach	22.3 nTPM
Skeletal muscle	20.5 nTPM
Breast	20.2 nTPM
Prostate	18.2 nTPM
Esophagus	16.2 nTPM
Skin	15.5 nTPM
Adipose tissue	13.8 nTPM
Heart muscle	2.8 nTPM

Intestinal goblet cells	9.7 nTPM
Small intestine	11.8 nTPM
Colon	10.7 nTPM
Rectum	6.7 nTPM

Macrophages	16.8 nTPM
Adipose tissue	36.7 nTPM
Breast	27.2 nTPM
Endometrium	24.3 nTPM
Esophagus	20.4 nTPM
Skeletal muscle	18.5 nTPM
Lung	18.0 nTPM
Bone marrow	17.5 nTPM
Prostate	17.2 nTPM
Kidney	13.7 nTPM
Ovary	13.0 nTPM
Pancreas	12.8 nTPM
Stomach	11.7 nTPM
Spleen	11.4 nTPM
Testis	9.8 nTPM
PBMC	0.0 nTPM

Paneth cells	3.7 nTPM
Rectum	7.3 nTPM
Small intestine	3.7 nTPM
Colon	0.0 nTPM

Plasma cells	31.1 nTPM
Bone marrow	54.4 nTPM
Spleen	35.5 nTPM
Adipose tissue	31.0 nTPM
Esophagus	18.4 nTPM
Stomach	16.2 nTPM

Respiratory ciliated cells	22.1 nTPM
Lung	30.6 nTPM
Bronchus	13.6 nTPM

Smooth muscle cells	33.0 nTPM
Ovary	80.5 nTPM
Bronchus	41.7 nTPM
Endometrium	38.2 nTPM
Skeletal muscle	33.0 nTPM
Adipose tissue	32.1 nTPM
Esophagus	31.0 nTPM
Prostate	25.4 nTPM
Breast	24.4 nTPM
Skin	20.6 nTPM
Pancreas	19.9 nTPM
Heart muscle	16.2 nTPM

T-cells	19.8 nTPM
Adipose tissue	42.1 nTPM
Endometrium	40.1 nTPM
Esophagus	39.3 nTPM
Skeletal muscle	28.8 nTPM
Lymph node	27.6 nTPM
Breast	25.5 nTPM
Lung	21.3 nTPM
Colon	19.0 nTPM
PBMC	17.5 nTPM
Skin	14.7 nTPM
Spleen	12.4 nTPM
Liver	10.4 nTPM
Prostate	9.5 nTPM
Bone marrow	9.5 nTPM
Stomach	7.8 nTPM
Kidney	7.5 nTPM
Ovary	4.5 nTPM

Basal keratinocytes	25.2 nTPM
Skin	25.2 nTPM

Basal prostatic cells	22.0 nTPM
Prostate	22.0 nTPM

Basal respiratory cells	12.3 nTPM
Bronchus	12.3 nTPM

Basal squamous epithelial cells	31.9 nTPM
Esophagus	31.9 nTPM

Undifferentiated cells	12.1 nTPM
Small intestine	14.5 nTPM
Colon	12.0 nTPM
Rectum	9.7 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