Single cell type - APOC1 - 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.	APOC1
Gene descriptionⁱ Full gene name according to HGNC.	Apolipoprotein C1
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Cancer-related genes Candidate cardiovascular disease genes Metabolic proteins 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	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 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	Hepatocytes - Metabolism (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 (Hepatocytes)
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 enriched (myeloid DC)
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 single
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 (Hep G2, HSkMC, K-562, SK-MEL-30)
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
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 (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 (Hepatocytes)

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

APOC1 is part of cluster 2 Hepatocytes - Metabolism with confidenceⁱ 1
205 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
HAMP	Hepcidin antimicrobial peptide	0.9402	2
CYP8B1	Cytochrome P450 family 8 subfamily B member 1	0.9293	2
CYP2E1	Cytochrome P450 family 2 subfamily E member 1	0.9291	2
SERPINC1	Serpin family C member 1	0.9270	2
SLC22A1	Solute carrier family 22 member 1	0.9266	2
F13B	Coagulation factor XIII B chain	0.9256	2
APCS	Amyloid P component, serum	0.9238	2
PON1	Paraoxonase 1	0.9236	2
CPS1	Carbamoyl-phosphate synthase 1	0.9231	2
CPB2	Carboxypeptidase B2	0.9224	2
RDH16	Retinol dehydrogenase 16	0.9220	2
UGT2B4	UDP glucuronosyltransferase family 2 member B4	0.9214	2
APOH	Apolipoprotein H	0.9207	2
TAT	Tyrosine aminotransferase	0.9200	2
HAO1	Hydroxyacid oxidase 1	0.9179	2

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	22.9 nTPM
Breast	39.4 nTPM
Adipose tissue	6.4 nTPM

Alveolar cells type 1	115.4 nTPM
Lung	115.4 nTPM

Alveolar cells type 2	214.4 nTPM
Lung	214.4 nTPM

Astrocytes	2.3 nTPM
Brain	2.3 nTPM

B-cells	40.6 nTPM
Liver	361.8 nTPM
Colon	36.7 nTPM
Breast	4.0 nTPM
Lymph node	2.0 nTPM
Stomach	0.9 nTPM
Spleen	0.3 nTPM
Kidney	0.0 nTPM
PBMC	0.0 nTPM
Adipose tissue	0.0 nTPM
Bone marrow	0.0 nTPM

Dendritic cells	1.6 nTPM
Breast	4.7 nTPM
Adipose tissue	0.1 nTPM
PBMC	0.0 nTPM

Endothelial cells	68.9 nTPM
Liver	362.3 nTPM
Eye	339.8 nTPM
Lung	146.6 nTPM
Placenta	34.1 nTPM
Breast	30.4 nTPM
Skeletal muscle	22.1 nTPM
Skin	9.4 nTPM
Endometrium	7.6 nTPM
Ovary	5.0 nTPM
Testis	4.1 nTPM
Heart muscle	1.8 nTPM
Esophagus	1.0 nTPM
Prostate	0.7 nTPM
Pancreas	0.0 nTPM

Erythroid cells	768.8 nTPM
Liver	1139.1 nTPM
Bone marrow	398.4 nTPM

Fibroblasts	93.0 nTPM
Placenta	214.3 nTPM
Ovary	209.3 nTPM
Breast	177.6 nTPM
Lung	107.2 nTPM
Adipose tissue	98.6 nTPM
Skin	71.0 nTPM
Stomach	43.0 nTPM
Esophagus	34.0 nTPM
Prostate	30.4 nTPM
Skeletal muscle	28.4 nTPM
Heart muscle	8.8 nTPM

Intestinal goblet cells	3.2 nTPM
Colon	4.3 nTPM
Small intestine	3.5 nTPM
Rectum	2.0 nTPM

Macrophages	620.5 nTPM
Lung	3419.7 nTPM
Ovary	1746.3 nTPM
Kidney	1069.3 nTPM
Breast	999.7 nTPM
Prostate	647.7 nTPM
Endometrium	527.9 nTPM
Pancreas	283.3 nTPM
Spleen	262.3 nTPM
Esophagus	102.2 nTPM
Skeletal muscle	98.4 nTPM
Bone marrow	72.4 nTPM
Stomach	32.2 nTPM
Adipose tissue	31.0 nTPM
Testis	14.5 nTPM
PBMC	0.0 nTPM

Paneth cells	0.3 nTPM
Rectum	0.9 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Plasma cells	1.3 nTPM
Adipose tissue	2.7 nTPM
Bone marrow	1.7 nTPM
Spleen	1.3 nTPM
Stomach	0.9 nTPM
Esophagus	0.0 nTPM

Respiratory ciliated cells	24.4 nTPM
Lung	48.1 nTPM
Bronchus	0.7 nTPM

Smooth muscle cells	24.4 nTPM
Adipose tissue	112.2 nTPM
Ovary	38.6 nTPM
Breast	35.9 nTPM
Endometrium	26.6 nTPM
Skin	15.4 nTPM
Skeletal muscle	14.7 nTPM
Esophagus	12.4 nTPM
Prostate	6.5 nTPM
Pancreas	3.4 nTPM
Heart muscle	2.6 nTPM
Bronchus	0.0 nTPM

Basal keratinocytes	17.0 nTPM
Skin	17.0 nTPM

Basal respiratory cells	5.8 nTPM
Bronchus	5.8 nTPM

Basal squamous epithelial cells	6.2 nTPM
Esophagus	6.2 nTPM

Cholangiocytes	453.2 nTPM
Liver	453.2 nTPM

T-cells	46.7 nTPM
Liver	496.3 nTPM
Lung	249.1 nTPM
Endometrium	13.9 nTPM
Kidney	8.2 nTPM
Skeletal muscle	7.0 nTPM
Skin	5.0 nTPM
Breast	4.9 nTPM
Prostate	4.7 nTPM
Colon	1.4 nTPM
Spleen	1.4 nTPM
Lymph node	1.1 nTPM
PBMC	0.6 nTPM
Adipose tissue	0.3 nTPM
Stomach	0.2 nTPM
Bone marrow	0.1 nTPM
Ovary	0.0 nTPM
Esophagus	0.0 nTPM

Undifferentiated cells	2.1 nTPM
Small intestine	2.7 nTPM
Rectum	2.2 nTPM
Colon	1.5 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