Single cell type - APP - 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.	APP
Gene descriptionⁱ Full gene name according to HGNC.	Amyloid beta precursor protein
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Disease related genes FDA approved drug targets Human disease related genes Plasma proteins 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,Secreted
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	10

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	Adipocytes & Endothelial cells - Angiogenesis (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 (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	Immune cell enriched (plasmacytoid 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 many
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
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 enhanced (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

APP is part of cluster 14 Adipocytes & Endothelial cells - Angiogenesis with confidenceⁱ 1
354 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
SEMA6A	Semaphorin 6A	0.5798	18
ZDHHC17	Zinc finger DHHC-type palmitoyltransferase 17	0.5214	65
PPFIBP1	PPFIA binding protein 1	0.5176	14
THSD1	Thrombospondin type 1 domain containing 1	0.5174	14
EPHB4	EPH receptor B4	0.5167	18
NUAK1	NUAK family kinase 1	0.5146	21
ZFYVE21	Zinc finger FYVE-type containing 21	0.5014	26
PLSCR4	Phospholipid scramblase 4	0.4980	14
LEPROT	Leptin receptor overlapping transcript	0.4937	14
PDE2A	Phosphodiesterase 2A	0.4928	14
GJC2	Gap junction protein gamma 2	0.4712	14
A4GALT	Alpha 1,4-galactosyltransferase (P blood group)	0.4708	50
CRIM1	Cysteine rich transmembrane BMP regulator 1	0.4662	48
TCF4	Transcription factor 4	0.4655	14
IL33	Interleukin 33	0.4648	14

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

Alveolar cells type 1	109.0 nTPM
Lung	109.0 nTPM

Alveolar cells type 2	39.6 nTPM
Lung	39.6 nTPM

Astrocytes	70.5 nTPM
Brain	70.5 nTPM

B-cells	47.6 nTPM
Kidney	109.5 nTPM
Lymph node	53.8 nTPM
Stomach	53.6 nTPM
Bone marrow	48.3 nTPM
Spleen	41.2 nTPM
Breast	40.2 nTPM
PBMC	38.6 nTPM
Colon	33.5 nTPM
Adipose tissue	31.5 nTPM
Liver	26.1 nTPM

Basal keratinocytes	181.6 nTPM
Skin	181.6 nTPM

Adipocytes	330.2 nTPM
Adipose tissue	392.3 nTPM
Breast	268.2 nTPM

Basal squamous epithelial cells	306.7 nTPM
Esophagus	306.7 nTPM

Dendritic cells	180.7 nTPM
PBMC	506.1 nTPM
Adipose tissue	22.7 nTPM
Breast	13.1 nTPM

Endothelial cells	416.0 nTPM
Liver	766.8 nTPM
Prostate	574.8 nTPM
Pancreas	509.6 nTPM
Endometrium	491.1 nTPM
Esophagus	443.9 nTPM
Placenta	436.6 nTPM
Testis	404.4 nTPM
Skeletal muscle	399.5 nTPM
Ovary	396.7 nTPM
Lung	333.7 nTPM
Heart muscle	310.7 nTPM
Breast	298.9 nTPM
Skin	298.2 nTPM
Eye	159.4 nTPM

Enteroendocrine cells	162.6 nTPM
Rectum	172.3 nTPM
Colon	152.8 nTPM

Fibroblasts	309.5 nTPM
Stomach	611.8 nTPM
Esophagus	554.6 nTPM
Adipose tissue	444.3 nTPM
Skeletal muscle	403.8 nTPM
Skin	319.2 nTPM
Heart muscle	294.1 nTPM
Prostate	191.9 nTPM
Breast	166.7 nTPM
Lung	166.4 nTPM
Ovary	134.0 nTPM
Placenta	117.2 nTPM

Intestinal goblet cells	303.1 nTPM
Rectum	419.1 nTPM
Colon	338.1 nTPM
Small intestine	152.1 nTPM

Macrophages	69.9 nTPM
PBMC	136.4 nTPM
Pancreas	104.7 nTPM
Adipose tissue	102.8 nTPM
Prostate	81.4 nTPM
Esophagus	78.7 nTPM
Skeletal muscle	78.5 nTPM
Endometrium	76.5 nTPM
Stomach	73.3 nTPM
Kidney	61.3 nTPM
Spleen	60.2 nTPM
Ovary	48.4 nTPM
Bone marrow	47.5 nTPM
Lung	39.3 nTPM
Testis	34.3 nTPM
Breast	25.9 nTPM

Paneth cells	223.1 nTPM
Rectum	334.1 nTPM
Colon	207.5 nTPM
Small intestine	127.6 nTPM

Plasma cells	24.0 nTPM
Bone marrow	31.3 nTPM
Esophagus	30.7 nTPM
Spleen	24.5 nTPM
Stomach	19.5 nTPM
Adipose tissue	14.2 nTPM

Cholangiocytes	296.0 nTPM
Liver	296.0 nTPM

Collecting duct cells	502.1 nTPM
Kidney	502.1 nTPM

Cone photoreceptor cells	29.2 nTPM
Eye	29.2 nTPM

Cytotrophoblasts	472.6 nTPM
Placenta	472.6 nTPM

Respiratory ciliated cells	164.7 nTPM
Bronchus	198.1 nTPM
Lung	131.2 nTPM

Smooth muscle cells	198.5 nTPM
Esophagus	307.0 nTPM
Skeletal muscle	252.7 nTPM
Adipose tissue	235.0 nTPM
Prostate	206.3 nTPM
Ovary	194.9 nTPM
Skin	194.6 nTPM
Endometrium	188.5 nTPM
Bronchus	168.4 nTPM
Breast	152.6 nTPM
Heart muscle	147.1 nTPM
Pancreas	136.3 nTPM

T-cells	27.0 nTPM
Skin	55.8 nTPM
Esophagus	45.9 nTPM
Skeletal muscle	45.3 nTPM
Lymph node	38.7 nTPM
Prostate	37.9 nTPM
Kidney	32.9 nTPM
Endometrium	31.6 nTPM
Lung	28.8 nTPM
Adipose tissue	24.1 nTPM
Breast	24.1 nTPM
Spleen	20.2 nTPM
PBMC	18.4 nTPM
Colon	15.7 nTPM
Liver	14.4 nTPM
Bone marrow	13.4 nTPM
Stomach	9.5 nTPM
Ovary	2.2 nTPM

Undifferentiated cells	283.5 nTPM
Rectum	348.4 nTPM
Colon	342.2 nTPM
Small intestine	159.7 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