Single cell type - UBE2D1 - 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.	UBE2D1
Gene descriptionⁱ Full gene name according to HGNC.	Ubiquitin conjugating enzyme E2 D1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Enzymes Metabolic 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.	2

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	Monocytes & Neutrophils - Innate immune response (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 (Basal keratinocytes, Suprabasal keratinocytes)
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	Immune cell enhanced (neutrophil)
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 many
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 (Basal keratinocytes, Suprabasal keratinocytes)

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

UBE2D1 is part of cluster 19 Monocytes & Neutrophils - Innate immune response with confidenceⁱ 1
175 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
TREML4	Triggering receptor expressed on myeloid cells like 4	0.6323	41
PILRA	Paired immunoglobin like type 2 receptor alpha	0.6273	19
SPI1	Spi-1 proto-oncogene	0.6020	4
FFAR3	Free fatty acid receptor 3	0.5972	19
LRRC25	Leucine rich repeat containing 25	0.5970	19
SLC36A4	Solute carrier family 36 member 4	0.5919	19
SPIC	Spi-C transcription factor	0.5788	19
FCAR	Fc fragment of IgA receptor	0.5766	19
CEACAM4	CEA cell adhesion molecule 4	0.5743	19
HK3	Hexokinase 3	0.5736	19
CLEC4A	C-type lectin domain family 4 member A	0.5732	19
NFAM1	NFAT activating protein with ITAM motif 1	0.5691	19
LILRA6	Leukocyte immunoglobulin like receptor A6	0.5574	19
CCL24	C-C motif chemokine ligand 24	0.5556	19
CD300C	CD300c molecule	0.5542	19

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	41.6 nTPM
Breast	45.1 nTPM
Adipose tissue	38.0 nTPM

Alveolar cells type 1	12.8 nTPM
Lung	12.8 nTPM

Alveolar cells type 2	11.2 nTPM
Lung	11.2 nTPM

Astrocytes	5.5 nTPM
Brain	5.5 nTPM

B-cells	54.3 nTPM
Colon	83.1 nTPM
Spleen	79.6 nTPM
Stomach	77.2 nTPM
Lymph node	60.1 nTPM
Breast	54.9 nTPM
PBMC	48.5 nTPM
Adipose tissue	44.1 nTPM
Bone marrow	38.5 nTPM
Kidney	33.4 nTPM
Liver	24.3 nTPM

Dendritic cells	41.7 nTPM
Breast	56.2 nTPM
Adipose tissue	41.1 nTPM
PBMC	27.9 nTPM

Endothelial cells	42.5 nTPM
Prostate	93.7 nTPM
Skin	86.4 nTPM
Pancreas	65.6 nTPM
Breast	49.6 nTPM
Esophagus	48.1 nTPM
Endometrium	34.4 nTPM
Placenta	33.5 nTPM
Skeletal muscle	33.2 nTPM
Eye	28.3 nTPM
Liver	27.5 nTPM
Lung	24.9 nTPM
Ovary	24.6 nTPM
Heart muscle	23.4 nTPM
Testis	22.0 nTPM

Fibroblasts	51.9 nTPM
Skin	125.1 nTPM
Prostate	112.9 nTPM
Stomach	71.3 nTPM
Breast	41.9 nTPM
Heart muscle	37.8 nTPM
Placenta	37.5 nTPM
Adipose tissue	37.1 nTPM
Esophagus	34.9 nTPM
Skeletal muscle	29.7 nTPM
Ovary	22.6 nTPM
Lung	20.1 nTPM

Intestinal goblet cells	40.1 nTPM
Colon	55.0 nTPM
Rectum	48.3 nTPM
Small intestine	17.1 nTPM

Macrophages	147.7 nTPM
Pancreas	326.7 nTPM
Stomach	278.3 nTPM
Spleen	246.8 nTPM
Prostate	236.1 nTPM
Kidney	192.0 nTPM
Bone marrow	173.7 nTPM
Skeletal muscle	134.4 nTPM
Adipose tissue	128.2 nTPM
Esophagus	108.6 nTPM
Endometrium	101.2 nTPM
Breast	92.4 nTPM
Ovary	78.6 nTPM
Testis	54.6 nTPM
Lung	49.7 nTPM
PBMC	13.6 nTPM

Paneth cells	52.7 nTPM
Colon	125.1 nTPM
Rectum	18.0 nTPM
Small intestine	15.0 nTPM

Plasma cells	26.4 nTPM
Esophagus	36.9 nTPM
Stomach	33.1 nTPM
Spleen	24.8 nTPM
Adipose tissue	22.5 nTPM
Bone marrow	14.8 nTPM

Respiratory ciliated cells	33.6 nTPM
Bronchus	54.1 nTPM
Lung	13.1 nTPM

Smooth muscle cells	59.1 nTPM
Skin	124.9 nTPM
Bronchus	92.8 nTPM
Prostate	84.7 nTPM
Ovary	66.4 nTPM
Breast	45.5 nTPM
Adipose tissue	44.0 nTPM
Esophagus	43.4 nTPM
Pancreas	43.1 nTPM
Endometrium	40.5 nTPM
Skeletal muscle	38.0 nTPM
Heart muscle	26.8 nTPM

T-cells	42.8 nTPM
Breast	76.8 nTPM
Prostate	66.3 nTPM
Spleen	62.4 nTPM
Colon	59.9 nTPM
Stomach	59.4 nTPM
Adipose tissue	56.8 nTPM
Skin	50.2 nTPM
Lymph node	49.1 nTPM
Bone marrow	33.9 nTPM
Ovary	33.3 nTPM
PBMC	31.2 nTPM
Kidney	30.7 nTPM
Endometrium	28.9 nTPM
Liver	26.3 nTPM
Esophagus	26.2 nTPM
Skeletal muscle	19.6 nTPM
Lung	16.7 nTPM

Basal keratinocytes	194.4 nTPM
Skin	194.4 nTPM

Basal prostatic cells	94.1 nTPM
Prostate	94.1 nTPM

Basal respiratory cells	60.6 nTPM
Bronchus	60.6 nTPM

Basal squamous epithelial cells	46.1 nTPM
Esophagus	46.1 nTPM

Undifferentiated cells	28.5 nTPM
Colon	35.5 nTPM
Small intestine	25.6 nTPM
Rectum	24.6 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