Single cell type - APIP - 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.	APIP
Gene descriptionⁱ Full gene name according to HGNC.	APAF1 interacting protein
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.	1

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	Mammary glandular cells - Lactation (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 (Distal tubular 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 (Distal tubular 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

APIP is part of cluster 30 Mammary glandular cells - Lactation with confidenceⁱ 1
85 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
TNFRSF11B	TNF receptor superfamily member 11b	0.7534	30
LTF	Lactotransferrin	0.7334	30
FAM240A	Family with sequence similarity 240 member A	0.7277	30
CA6	Carbonic anhydrase 6	0.7229	30
BTN1A1	Butyrophilin subfamily 1 member A1	0.7206	30
CSN1S1	Casein alpha s1	0.7194	30
CSN2	Casein beta	0.7192	30
LALBA	Lactalbumin alpha	0.7192	30
CIDEA	Cell death inducing DFFA like effector a	0.7186	30
CSN3	Casein kappa	0.7185	30
SOSTDC1	Sclerostin domain containing 1	0.7166	30
C6orf15	Chromosome 6 open reading frame 15	0.7113	30
XDH	Xanthine dehydrogenase	0.7094	30
SHISAL2B	Shisa like 2B	0.7028	30
ELF5	E74 like ETS transcription factor 5	0.7003	30

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	24.7 nTPM
Breast	28.6 nTPM
Adipose tissue	20.7 nTPM

Alveolar cells type 1	35.3 nTPM
Lung	35.3 nTPM

Alveolar cells type 2	30.1 nTPM
Lung	30.1 nTPM

Astrocytes	42.4 nTPM
Brain	42.4 nTPM

B-cells	27.9 nTPM
Colon	38.3 nTPM
Liver	33.6 nTPM
Stomach	33.2 nTPM
Spleen	32.5 nTPM
Lymph node	30.2 nTPM
Breast	28.1 nTPM
PBMC	27.1 nTPM
Bone marrow	23.7 nTPM
Kidney	19.0 nTPM
Adipose tissue	13.5 nTPM

Dendritic cells	25.5 nTPM
PBMC	31.8 nTPM
Breast	28.4 nTPM
Adipose tissue	16.1 nTPM

Endothelial cells	22.8 nTPM
Testis	32.3 nTPM
Pancreas	30.9 nTPM
Breast	27.8 nTPM
Heart muscle	25.7 nTPM
Endometrium	24.2 nTPM
Skeletal muscle	23.8 nTPM
Esophagus	22.8 nTPM
Eye	21.8 nTPM
Lung	21.8 nTPM
Skin	21.7 nTPM
Prostate	20.5 nTPM
Placenta	18.2 nTPM
Ovary	15.4 nTPM
Liver	12.8 nTPM

Fibroblasts	24.4 nTPM
Placenta	34.7 nTPM
Ovary	29.0 nTPM
Prostate	26.1 nTPM
Esophagus	25.3 nTPM
Adipose tissue	24.9 nTPM
Skeletal muscle	24.8 nTPM
Breast	24.8 nTPM
Stomach	20.8 nTPM
Skin	20.5 nTPM
Heart muscle	19.8 nTPM
Lung	17.9 nTPM

Intestinal goblet cells	41.3 nTPM
Colon	53.6 nTPM
Rectum	38.7 nTPM
Small intestine	31.7 nTPM

Macrophages	47.6 nTPM
Lung	108.8 nTPM
Pancreas	76.5 nTPM
Spleen	72.5 nTPM
Esophagus	53.5 nTPM
Kidney	43.8 nTPM
Prostate	43.5 nTPM
Testis	43.0 nTPM
Ovary	42.7 nTPM
Breast	41.3 nTPM
Bone marrow	41.2 nTPM
Stomach	35.1 nTPM
Skeletal muscle	33.1 nTPM
Endometrium	32.8 nTPM
Adipose tissue	31.7 nTPM
PBMC	13.6 nTPM

Paneth cells	28.4 nTPM
Colon	32.9 nTPM
Small intestine	26.3 nTPM
Rectum	26.0 nTPM

Plasma cells	44.2 nTPM
Spleen	57.3 nTPM
Esophagus	55.5 nTPM
Bone marrow	54.4 nTPM
Stomach	37.7 nTPM
Adipose tissue	16.1 nTPM

Respiratory ciliated cells	56.8 nTPM
Bronchus	61.1 nTPM
Lung	52.5 nTPM

Smooth muscle cells	30.1 nTPM
Bronchus	52.7 nTPM
Prostate	33.4 nTPM
Ovary	32.8 nTPM
Breast	32.3 nTPM
Esophagus	31.0 nTPM
Pancreas	30.0 nTPM
Skeletal muscle	29.9 nTPM
Endometrium	26.0 nTPM
Skin	24.0 nTPM
Adipose tissue	23.1 nTPM
Heart muscle	15.5 nTPM

T-cells	25.8 nTPM
Kidney	36.9 nTPM
PBMC	35.7 nTPM
Lymph node	34.3 nTPM
Ovary	33.3 nTPM
Esophagus	32.8 nTPM
Spleen	32.5 nTPM
Breast	28.1 nTPM
Skin	26.7 nTPM
Bone marrow	26.4 nTPM
Colon	24.7 nTPM
Liver	24.4 nTPM
Stomach	21.0 nTPM
Adipose tissue	19.0 nTPM
Skeletal muscle	17.7 nTPM
Endometrium	17.4 nTPM
Prostate	14.2 nTPM
Lung	13.6 nTPM

Basal keratinocytes	25.0 nTPM
Skin	25.0 nTPM

Basal prostatic cells	37.5 nTPM
Prostate	37.5 nTPM

Basal respiratory cells	62.7 nTPM
Bronchus	62.7 nTPM

Basal squamous epithelial cells	19.4 nTPM
Esophagus	19.4 nTPM

Undifferentiated cells	50.1 nTPM
Colon	82.4 nTPM
Rectum	34.2 nTPM
Small intestine	33.7 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