Single cell type - C9orf24 - 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.	C9orf24
Gene descriptionⁱ Full gene name according to HGNC.	Chromosome 9 open reading frame 24
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.	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	Ciliated cells - Cilium 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 enhanced (Late spermatids, Respiratory ciliated cells, Endometrial ciliated cells, Early spermatids)
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 (Hep G2)
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 single
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 (Late spermatids, Respiratory ciliated cells, Endometrial ciliated cells, Early spermatids)

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

C9orf24 is part of cluster 49 Ciliated cells - Cilium organization with confidenceⁱ 1
457 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
RIBC1	RIB43A domain with coiled-coils 1	0.8629	31
AKAP14	A-kinase anchoring protein 14	0.8406	31
MORN5	MORN repeat containing 5	0.8133	49
WDR38	WD repeat domain 38	0.7929	49
SPA17	Sperm autoantigenic protein 17	0.7768	31
ZNF487	Zinc finger protein 487	0.7650	49
DRC1	Dynein regulatory complex subunit 1	0.7595	49
FAM183A	Family with sequence similarity 183 member A	0.7582	49
LRRC43	Leucine rich repeat containing 43	0.7537	49
POLR2I	RNA polymerase II subunit I	0.7361	31
CFAP100	Cilia and flagella associated protein 100	0.7324	31
LRRC71	Leucine rich repeat containing 71	0.7255	31
CCDC180	Coiled-coil domain containing 180	0.7232	31
TCTE1	T-complex-associated-testis-expressed 1	0.7167	31
CCDC33	Coiled-coil domain containing 33	0.7166	49

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	0.4 nTPM
Adipose tissue	0.7 nTPM
Breast	0.3 nTPM

Alveolar cells type 1	6.4 nTPM
Lung	6.4 nTPM

Alveolar cells type 2	15.1 nTPM
Lung	15.1 nTPM

Astrocytes	11.4 nTPM
Brain	11.4 nTPM

B-cells	0.3 nTPM
PBMC	1.4 nTPM
Stomach	0.9 nTPM
Spleen	0.7 nTPM
Colon	0.0 nTPM
Kidney	0.0 nTPM
Liver	0.0 nTPM
Adipose tissue	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM
Breast	0.0 nTPM

Dendritic cells	0.1 nTPM
Adipose tissue	0.2 nTPM
PBMC	0.0 nTPM
Breast	0.0 nTPM

Endothelial cells	2.1 nTPM
Heart muscle	9.1 nTPM
Testis	8.0 nTPM
Lung	6.2 nTPM
Liver	1.8 nTPM
Endometrium	1.7 nTPM
Prostate	1.1 nTPM
Esophagus	0.6 nTPM
Skeletal muscle	0.5 nTPM
Breast	0.4 nTPM
Skin	0.2 nTPM
Ovary	0.2 nTPM
Eye	0.0 nTPM
Placenta	0.0 nTPM
Pancreas	0.0 nTPM

Fibroblasts	3.5 nTPM
Lung	25.7 nTPM
Heart muscle	7.5 nTPM
Breast	1.2 nTPM
Skin	1.0 nTPM
Adipose tissue	0.9 nTPM
Esophagus	0.6 nTPM
Skeletal muscle	0.5 nTPM
Ovary	0.5 nTPM
Prostate	0.4 nTPM
Placenta	0.3 nTPM
Stomach	0.0 nTPM

Intestinal goblet cells	13.4 nTPM
Small intestine	23.1 nTPM
Rectum	9.4 nTPM
Colon	7.8 nTPM

Macrophages	2.7 nTPM
Lung	17.1 nTPM
Testis	13.4 nTPM
Kidney	3.8 nTPM
Endometrium	3.8 nTPM
Spleen	1.0 nTPM
Breast	0.6 nTPM
Adipose tissue	0.3 nTPM
Skeletal muscle	0.2 nTPM
Prostate	0.0 nTPM
PBMC	0.0 nTPM
Pancreas	0.0 nTPM
Ovary	0.0 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Stomach	0.0 nTPM

Paneth cells	7.3 nTPM
Small intestine	15.0 nTPM
Rectum	7.0 nTPM
Colon	0.0 nTPM

Plasma cells	0.5 nTPM
Adipose tissue	1.9 nTPM
Stomach	0.4 nTPM
Esophagus	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM

Respiratory ciliated cells	1312.6 nTPM
Bronchus	1320.7 nTPM
Lung	1304.5 nTPM

Smooth muscle cells	25.5 nTPM
Bronchus	268.4 nTPM
Heart muscle	5.4 nTPM
Endometrium	3.4 nTPM
Skeletal muscle	1.0 nTPM
Adipose tissue	0.7 nTPM
Pancreas	0.6 nTPM
Prostate	0.4 nTPM
Ovary	0.3 nTPM
Breast	0.2 nTPM
Skin	0.0 nTPM
Esophagus	0.0 nTPM

T-cells	1.6 nTPM
Endometrium	11.0 nTPM
Lung	9.1 nTPM
Skin	3.3 nTPM
Liver	1.2 nTPM
PBMC	0.9 nTPM
Spleen	0.4 nTPM
Stomach	0.4 nTPM
Skeletal muscle	0.3 nTPM
Adipose tissue	0.3 nTPM
Breast	0.3 nTPM
Colon	0.0 nTPM
Kidney	0.0 nTPM
Prostate	0.0 nTPM
Ovary	0.0 nTPM
Esophagus	0.0 nTPM
Lymph node	0.0 nTPM
Bone marrow	0.0 nTPM

Basal keratinocytes	2.2 nTPM
Skin	2.2 nTPM

Basal respiratory cells	67.3 nTPM
Bronchus	67.3 nTPM

Basal squamous epithelial cells	2.2 nTPM
Esophagus	2.2 nTPM

Cholangiocytes	1.5 nTPM
Liver	1.5 nTPM

Undifferentiated cells	20.5 nTPM
Small intestine	36.7 nTPM
Rectum	17.0 nTPM
Colon	7.8 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