Single cell type - CCDC80 - 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.	CCDC80
Gene descriptionⁱ Full gene name according to HGNC.	Coiled-coil domain containing 80
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,Secreted
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	4

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	Fibroblasts - ECM 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 (Fibroblasts, Early spermatids, Late 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 (ASC diff, fHDF/TERT166, hTERT-RPE1)
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 (Fibroblasts, Early spermatids, Late 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

CCDC80 is part of cluster 50 Fibroblasts - ECM organization with confidenceⁱ 1
441 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
CFD	Complement factor D	0.9410	50
XG	Xg glycoprotein (Xg blood group)	0.9244	50
OMD	Osteomodulin	0.9180	50
GSN	Gelsolin	0.9150	50
ACKR3	Atypical chemokine receptor 3	0.9090	50
FSTL1	Follistatin like 1	0.9054	50
TNXB	Tenascin XB	0.9029	50
H3Y1	H3.Y histone 1	0.8952	50
CLEC3B	C-type lectin domain family 3 member B	0.8917	50
PDGFRL	Platelet derived growth factor receptor like	0.8892	50
PCOLCE2	Procollagen C-endopeptidase enhancer 2	0.8887	50
IGFBP6	Insulin like growth factor binding protein 6	0.8842	50
PI16	Peptidase inhibitor 16	0.8820	50
COL6A6	Collagen type VI alpha 6 chain	0.8727	50
MRC2	Mannose receptor C type 2	0.8659	50

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	104.5 nTPM
Adipose tissue	129.5 nTPM
Breast	79.5 nTPM

Alveolar cells type 1	6.4 nTPM
Lung	6.4 nTPM

Alveolar cells type 2	15.9 nTPM
Lung	15.9 nTPM

Astrocytes	13.1 nTPM
Brain	13.1 nTPM

B-cells	1.5 nTPM
Breast	12.1 nTPM
Stomach	1.8 nTPM
Liver	1.3 nTPM
Lymph node	0.1 nTPM
Colon	0.0 nTPM
Kidney	0.0 nTPM
PBMC	0.0 nTPM
Adipose tissue	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM

Dendritic cells	1.0 nTPM
Breast	2.2 nTPM
Adipose tissue	0.8 nTPM
PBMC	0.0 nTPM

Endothelial cells	43.9 nTPM
Lung	268.2 nTPM
Skin	95.8 nTPM
Skeletal muscle	60.2 nTPM
Breast	59.7 nTPM
Heart muscle	42.3 nTPM
Endometrium	20.0 nTPM
Esophagus	16.5 nTPM
Eye	13.7 nTPM
Placenta	11.9 nTPM
Prostate	10.9 nTPM
Testis	6.2 nTPM
Ovary	6.1 nTPM
Liver	2.7 nTPM
Pancreas	0.0 nTPM

Fibroblasts	921.6 nTPM
Adipose tissue	3054.0 nTPM
Skeletal muscle	1228.4 nTPM
Breast	1069.9 nTPM
Esophagus	1056.7 nTPM
Skin	1049.6 nTPM
Heart muscle	827.4 nTPM
Stomach	822.7 nTPM
Lung	569.7 nTPM
Prostate	234.9 nTPM
Placenta	189.5 nTPM
Ovary	34.7 nTPM

Intestinal goblet cells	0.8 nTPM
Colon	1.4 nTPM
Rectum	1.0 nTPM
Small intestine	0.0 nTPM

Macrophages	9.7 nTPM
Skeletal muscle	78.3 nTPM
Endometrium	14.0 nTPM
Pancreas	12.8 nTPM
Breast	11.2 nTPM
Esophagus	11.0 nTPM
Adipose tissue	6.3 nTPM
Lung	5.7 nTPM
Testis	3.5 nTPM
Ovary	1.9 nTPM
Prostate	1.2 nTPM
Kidney	0.0 nTPM
PBMC	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM
Stomach	0.0 nTPM

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

Plasma cells	5.8 nTPM
Adipose tissue	10.9 nTPM
Stomach	10.2 nTPM
Esophagus	6.1 nTPM
Spleen	1.6 nTPM
Bone marrow	0.0 nTPM

Respiratory ciliated cells	112.4 nTPM
Bronchus	188.4 nTPM
Lung	36.5 nTPM

Smooth muscle cells	198.4 nTPM
Pancreas	849.8 nTPM
Adipose tissue	333.3 nTPM
Breast	165.8 nTPM
Bronchus	156.6 nTPM
Skeletal muscle	155.1 nTPM
Skin	141.9 nTPM
Endometrium	136.1 nTPM
Esophagus	97.7 nTPM
Prostate	71.5 nTPM
Heart muscle	46.9 nTPM
Ovary	27.5 nTPM

T-cells	9.0 nTPM
Skin	86.1 nTPM
Skeletal muscle	40.6 nTPM
Endometrium	11.2 nTPM
Esophagus	6.6 nTPM
Breast	3.5 nTPM
Lung	1.5 nTPM
Colon	1.0 nTPM
Stomach	0.8 nTPM
Kidney	0.7 nTPM
Adipose tissue	0.6 nTPM
Liver	0.2 nTPM
Lymph node	0.2 nTPM
PBMC	0.1 nTPM
Prostate	0.0 nTPM
Ovary	0.0 nTPM
Bone marrow	0.0 nTPM
Spleen	0.0 nTPM

Basal keratinocytes	60.9 nTPM
Skin	60.9 nTPM

Basal prostatic cells	4.2 nTPM
Prostate	4.2 nTPM

Basal respiratory cells	44.7 nTPM
Bronchus	44.7 nTPM

Basal squamous epithelial cells	26.7 nTPM
Esophagus	26.7 nTPM

Undifferentiated cells	0.1 nTPM
Rectum	0.2 nTPM
Colon	0.0 nTPM
Small intestine	0.0 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