Single cell type - ABCA2 - 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.	ABCA2
Gene descriptionⁱ Full gene name according to HGNC.	ATP binding cassette subfamily A member 2
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Disease related genes Human disease related genes Plasma proteins Potential drug targets Transporters
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,Membrane
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	6

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	Oligodendrocytes - Myelin sheath organization (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 enriched (Oligodendrocytes)
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	Not detected in immune cells
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	Not detected
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	Cell line enhanced (T-47d)
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 enriched (Oligodendrocytes)

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

ABCA2 is part of cluster 42 Oligodendrocytes - Myelin sheath organization with confidenceⁱ 1
385 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
ERMN	Ermin	0.8818	42
ST18	ST18 C2H2C-type zinc finger transcription factor	0.8624	42
OPALIN	Oligodendrocytic myelin paranodal and inner loop protein	0.8556	42
TMEM235	Transmembrane protein 235	0.8554	42
MOG	Myelin oligodendrocyte glycoprotein	0.8542	42
RNF220	Ring finger protein 220	0.8444	42
PLP1	Proteolipid protein 1	0.8432	42
CARNS1	Carnosine synthase 1	0.8367	42
OR9A2	Olfactory receptor family 9 subfamily A member 2	0.8352	42
SLC5A11	Solute carrier family 5 member 11	0.8331	42
MBP	Myelin basic protein	0.8183	42
TRIM59	Tripartite motif containing 59	0.8182	42
SLCO1A2	Solute carrier organic anion transporter family member 1A2	0.8154	42
TRPV5	Transient receptor potential cation channel subfamily V member 5	0.8122	42
MOBP	Myelin associated oligodendrocyte basic protein	0.8064	42

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	7.2 nTPM
Breast	7.4 nTPM
Adipose tissue	6.8 nTPM

Alveolar cells type 1	0.0 nTPM
Lung	0.0 nTPM

Alveolar cells type 2	0.0 nTPM
Lung	0.0 nTPM

Astrocytes	26.1 nTPM
Brain	26.1 nTPM

B-cells	2.3 nTPM
PBMC	4.3 nTPM
Adipose tissue	3.5 nTPM
Lymph node	3.3 nTPM
Colon	3.2 nTPM
Spleen	2.4 nTPM
Stomach	2.2 nTPM
Bone marrow	1.7 nTPM
Breast	1.3 nTPM
Liver	0.9 nTPM
Kidney	0.0 nTPM

Dendritic cells	24.0 nTPM
Breast	28.4 nTPM
Adipose tissue	27.5 nTPM
PBMC	16.0 nTPM

Endothelial cells	4.7 nTPM
Esophagus	8.8 nTPM
Endometrium	7.5 nTPM
Breast	7.2 nTPM
Placenta	6.2 nTPM
Ovary	5.7 nTPM
Testis	5.4 nTPM
Skeletal muscle	5.0 nTPM
Liver	4.6 nTPM
Eye	4.1 nTPM
Heart muscle	4.0 nTPM
Prostate	4.0 nTPM
Skin	3.9 nTPM
Lung	0.0 nTPM
Pancreas	0.0 nTPM

Fibroblasts	6.4 nTPM
Breast	10.9 nTPM
Skeletal muscle	9.4 nTPM
Adipose tissue	8.0 nTPM
Placenta	7.6 nTPM
Skin	7.6 nTPM
Ovary	7.5 nTPM
Esophagus	7.0 nTPM
Prostate	4.6 nTPM
Stomach	4.4 nTPM
Lung	2.2 nTPM
Heart muscle	1.5 nTPM

Intestinal goblet cells	7.0 nTPM
Colon	7.8 nTPM
Small intestine	7.3 nTPM
Rectum	5.9 nTPM

Macrophages	2.7 nTPM
Breast	6.7 nTPM
Bone marrow	6.2 nTPM
Esophagus	4.8 nTPM
Adipose tissue	3.7 nTPM
Ovary	3.5 nTPM
Endometrium	3.4 nTPM
Skeletal muscle	3.4 nTPM
Testis	2.9 nTPM
Stomach	2.9 nTPM
Spleen	2.1 nTPM
Lung	0.9 nTPM
Kidney	0.8 nTPM
Prostate	0.0 nTPM
PBMC	0.0 nTPM
Pancreas	0.0 nTPM

Paneth cells	7.1 nTPM
Colon	9.9 nTPM
Rectum	7.6 nTPM
Small intestine	3.7 nTPM

Plasma cells	6.7 nTPM
Adipose tissue	32.2 nTPM
Spleen	0.6 nTPM
Stomach	0.5 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM

Respiratory ciliated cells	4.9 nTPM
Bronchus	9.9 nTPM
Lung	0.0 nTPM

Smooth muscle cells	4.7 nTPM
Adipose tissue	8.1 nTPM
Breast	8.0 nTPM
Skeletal muscle	6.4 nTPM
Endometrium	5.3 nTPM
Skin	4.9 nTPM
Esophagus	4.6 nTPM
Heart muscle	4.3 nTPM
Ovary	3.0 nTPM
Bronchus	2.9 nTPM
Prostate	1.9 nTPM
Pancreas	1.8 nTPM

T-cells	13.2 nTPM
Ovary	26.7 nTPM
Breast	19.6 nTPM
Colon	19.0 nTPM
Endometrium	17.9 nTPM
Skeletal muscle	17.7 nTPM
Stomach	17.0 nTPM
Liver	16.8 nTPM
Bone marrow	15.4 nTPM
Kidney	15.1 nTPM
Spleen	12.1 nTPM
Adipose tissue	12.0 nTPM
PBMC	9.4 nTPM
Skin	8.3 nTPM
Esophagus	6.6 nTPM
Lymph node	5.0 nTPM
Prostate	4.7 nTPM
Lung	1.5 nTPM

Cholangiocytes	17.2 nTPM
Liver	17.2 nTPM

Cone photoreceptor cells	14.6 nTPM
Eye	14.6 nTPM

Cytotrophoblasts	1.0 nTPM
Placenta	1.0 nTPM

Early spermatids	1.0 nTPM
Testis	1.0 nTPM

Undifferentiated cells	11.0 nTPM
Rectum	13.7 nTPM
Colon	12.1 nTPM
Small intestine	7.3 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