Single cell type - DNMT1 - 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.	DNMT1
Gene descriptionⁱ Full gene name according to HGNC.	DNA methyltransferase 1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Disease related genes Enzymes FDA approved drug targets Human disease related genes Metabolic proteins Plasma proteins Transcription factors
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.	13

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	Cytotrophoblasts - 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 (Cytotrophoblasts, Syncytiotrophoblasts, Spermatocytes)
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 (Cytotrophoblasts, Syncytiotrophoblasts, Spermatocytes)

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

DNMT1 is part of cluster 47 Cytotrophoblasts - Unknown function with confidenceⁱ 1
226 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
MBNL3	Muscleblind like splicing regulator 3	0.8145	47
PAGE4	PAGE family member 4	0.7947	47
LRATD1	LRAT domain containing 1	0.7758	47
VGLL1	Vestigial like family member 1	0.7753	47
MAGEA8	MAGE family member A8	0.7743	47
MTARC1	Mitochondrial amidoxime reducing component 1	0.7721	47
FOXO4	Forkhead box O4	0.7698	47
SMIM43	Small integral membrane protein 43	0.7669	47
FBN2	Fibrillin 2	0.7667	47
SOX14	SRY-box transcription factor 14	0.7648	47
PISD	Phosphatidylserine decarboxylase	0.7623	47
IL36RN	Interleukin 36 receptor antagonist	0.7598	47
MSX2	Msh homeobox 2	0.7595	47
GSDME	Gasdermin E	0.7583	47
SMAGP	Small cell adhesion glycoprotein	0.7578	47

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	36.4 nTPM
Breast	40.5 nTPM
Adipose tissue	32.2 nTPM

Alveolar cells type 1	6.4 nTPM
Lung	6.4 nTPM

Alveolar cells type 2	26.5 nTPM
Lung	26.5 nTPM

Astrocytes	12.7 nTPM
Brain	12.7 nTPM

B-cells	38.0 nTPM
Liver	87.0 nTPM
Colon	49.5 nTPM
Spleen	37.1 nTPM
Stomach	34.1 nTPM
Kidney	33.4 nTPM
Lymph node	33.0 nTPM
PBMC	32.9 nTPM
Breast	26.8 nTPM
Bone marrow	26.2 nTPM
Adipose tissue	20.1 nTPM

Dendritic cells	54.4 nTPM
Adipose tissue	70.4 nTPM
Breast	60.9 nTPM
PBMC	31.8 nTPM

Endothelial cells	38.9 nTPM
Ovary	74.2 nTPM
Endometrium	55.1 nTPM
Heart muscle	44.9 nTPM
Placenta	44.4 nTPM
Esophagus	42.8 nTPM
Pancreas	38.6 nTPM
Skeletal muscle	37.4 nTPM
Testis	35.9 nTPM
Eye	33.2 nTPM
Liver	31.2 nTPM
Breast	30.8 nTPM
Lung	28.1 nTPM
Prostate	26.5 nTPM
Skin	21.2 nTPM

Erythroid cells	109.6 nTPM
Liver	112.4 nTPM
Bone marrow	106.8 nTPM

Fibroblasts	33.6 nTPM
Ovary	69.7 nTPM
Placenta	41.8 nTPM
Heart muscle	36.4 nTPM
Esophagus	32.7 nTPM
Adipose tissue	31.6 nTPM
Skeletal muscle	28.3 nTPM
Lung	27.9 nTPM
Stomach	26.7 nTPM
Prostate	25.6 nTPM
Skin	25.2 nTPM
Breast	23.7 nTPM

Intestinal goblet cells	25.5 nTPM
Small intestine	30.3 nTPM
Colon	29.3 nTPM
Rectum	16.7 nTPM

Macrophages	57.9 nTPM
Pancreas	130.2 nTPM
Endometrium	113.8 nTPM
Breast	67.1 nTPM
Lung	63.6 nTPM
Esophagus	62.9 nTPM
Bone marrow	56.3 nTPM
Kidney	56.0 nTPM
Testis	55.8 nTPM
Ovary	54.8 nTPM
Prostate	44.7 nTPM
Spleen	42.5 nTPM
Adipose tissue	36.9 nTPM
Skeletal muscle	33.4 nTPM
PBMC	27.3 nTPM
Stomach	23.5 nTPM

Paneth cells	11.3 nTPM
Colon	13.2 nTPM
Rectum	13.2 nTPM
Small intestine	7.5 nTPM

Plasma cells	73.4 nTPM
Bone marrow	118.6 nTPM
Spleen	109.9 nTPM
Adipose tissue	59.4 nTPM
Esophagus	49.4 nTPM
Stomach	29.8 nTPM

Respiratory ciliated cells	42.8 nTPM
Lung	52.5 nTPM
Bronchus	33.0 nTPM

Smooth muscle cells	32.8 nTPM
Pancreas	64.8 nTPM
Endometrium	64.3 nTPM
Ovary	44.6 nTPM
Heart muscle	39.0 nTPM
Prostate	24.7 nTPM
Breast	24.4 nTPM
Adipose tissue	24.2 nTPM
Skeletal muscle	23.6 nTPM
Esophagus	21.7 nTPM
Skin	17.8 nTPM
Bronchus	12.1 nTPM

Basal keratinocytes	29.6 nTPM
Skin	29.6 nTPM

Basal prostatic cells	20.7 nTPM
Prostate	20.7 nTPM

Basal squamous epithelial cells	21.1 nTPM
Esophagus	21.1 nTPM

Cholangiocytes	7.2 nTPM
Liver	7.2 nTPM

T-cells	70.4 nTPM
Lung	118.5 nTPM
PBMC	100.5 nTPM
Endometrium	93.0 nTPM
Bone marrow	83.1 nTPM
Spleen	77.1 nTPM
Colon	77.0 nTPM
Breast	73.4 nTPM
Lymph node	73.3 nTPM
Stomach	64.5 nTPM
Skeletal muscle	62.7 nTPM
Ovary	62.3 nTPM
Adipose tissue	62.0 nTPM
Liver	61.8 nTPM
Esophagus	58.9 nTPM
Kidney	58.2 nTPM
Skin	41.9 nTPM
Prostate	28.4 nTPM

Undifferentiated cells	43.1 nTPM
Colon	58.5 nTPM
Small intestine	45.5 nTPM
Rectum	25.2 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