Single cell type - CCDC93 - 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.	CCDC93
Gene descriptionⁱ Full gene name according to HGNC.	Coiled-coil domain containing 93
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	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
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	2

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	Non-specific - Transcription (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	Low cell type specificity
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 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 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: Low cell type specificity

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

CCDC93 is part of cluster 52 Non-specific - Transcription with confidenceⁱ 1
611 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
ZMYM6	Zinc finger MYM-type containing 6	0.5498	52
YTHDC2	YTH domain containing 2	0.5350	40
SUPV3L1	Suv3 like RNA helicase	0.5243	24
ARIH2	Ariadne RBR E3 ubiquitin protein ligase 2	0.5028	13
ARFGEF1	ADP ribosylation factor guanine nucleotide exchange factor 1	0.4744	52
DYNC1H1	Dynein cytoplasmic 1 heavy chain 1	0.4668	52
SETD2	SET domain containing 2, histone lysine methyltransferase	0.4610	52
ZNF250	Zinc finger protein 250	0.4564	7
GTF3C3	General transcription factor IIIC subunit 3	0.4508	52
CAPRIN2	Caprin family member 2	0.4403	21
ZNF195	Zinc finger protein 195	0.4362	52
PTCD3	Pentatricopeptide repeat domain 3	0.4334	52
GOLGA1	Golgin A1	0.4206	9
KANSL2	KAT8 regulatory NSL complex subunit 2	0.4194	7
RALGAPA1	Ral GTPase activating protein catalytic subunit alpha 1	0.4175	9

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	17.4 nTPM
Breast	19.0 nTPM
Adipose tissue	15.8 nTPM

Alveolar cells type 1	19.2 nTPM
Lung	19.2 nTPM

Alveolar cells type 2	28.2 nTPM
Lung	28.2 nTPM

Astrocytes	61.0 nTPM
Brain	61.0 nTPM

B-cells	28.6 nTPM
Adipose tissue	58.1 nTPM
Breast	44.1 nTPM
Stomach	44.0 nTPM
Spleen	30.8 nTPM
Lymph node	30.2 nTPM
Bone marrow	22.9 nTPM
PBMC	22.8 nTPM
Colon	22.3 nTPM
Liver	5.9 nTPM
Kidney	4.8 nTPM

Dendritic cells	31.9 nTPM
Adipose tissue	65.6 nTPM
Breast	30.3 nTPM
PBMC	0.0 nTPM

Endothelial cells	16.5 nTPM
Lung	31.2 nTPM
Heart muscle	24.0 nTPM
Skeletal muscle	21.5 nTPM
Endometrium	18.9 nTPM
Ovary	18.7 nTPM
Eye	17.0 nTPM
Breast	14.9 nTPM
Liver	14.7 nTPM
Placenta	13.7 nTPM
Prostate	13.0 nTPM
Testis	12.2 nTPM
Pancreas	11.6 nTPM
Esophagus	11.2 nTPM
Skin	8.7 nTPM

Fibroblasts	14.7 nTPM
Lung	27.9 nTPM
Skeletal muscle	22.6 nTPM
Skin	19.3 nTPM
Prostate	17.5 nTPM
Breast	15.7 nTPM
Adipose tissue	14.0 nTPM
Esophagus	13.5 nTPM
Ovary	10.7 nTPM
Placenta	9.2 nTPM
Stomach	6.0 nTPM
Heart muscle	5.6 nTPM

Intestinal goblet cells	11.4 nTPM
Colon	12.1 nTPM
Small intestine	11.0 nTPM
Rectum	11.0 nTPM

Macrophages	19.9 nTPM
Lung	35.2 nTPM
Adipose tissue	33.4 nTPM
Skeletal muscle	32.5 nTPM
Stomach	23.5 nTPM
Ovary	23.2 nTPM
Endometrium	22.2 nTPM
Breast	21.6 nTPM
Esophagus	18.9 nTPM
Bone marrow	16.3 nTPM
Kidney	15.8 nTPM
Spleen	15.6 nTPM
Pancreas	15.3 nTPM
Prostate	13.8 nTPM
Testis	11.1 nTPM
PBMC	0.0 nTPM

Paneth cells	11.9 nTPM
Colon	16.5 nTPM
Rectum	11.6 nTPM
Small intestine	7.5 nTPM

Plasma cells	19.4 nTPM
Adipose tissue	44.6 nTPM
Stomach	18.5 nTPM
Bone marrow	14.8 nTPM
Spleen	12.7 nTPM
Esophagus	6.1 nTPM

Respiratory ciliated cells	16.3 nTPM
Lung	20.4 nTPM
Bronchus	12.1 nTPM

Smooth muscle cells	15.0 nTPM
Endometrium	19.7 nTPM
Pancreas	19.2 nTPM
Esophagus	18.6 nTPM
Heart muscle	18.5 nTPM
Ovary	17.8 nTPM
Skeletal muscle	16.8 nTPM
Breast	16.4 nTPM
Adipose tissue	13.1 nTPM
Skin	12.2 nTPM
Prostate	10.3 nTPM
Bronchus	2.9 nTPM

T-cells	24.3 nTPM
Adipose tissue	47.1 nTPM
Lung	42.6 nTPM
Endometrium	39.0 nTPM
Colon	34.7 nTPM
Skeletal muscle	33.9 nTPM
Breast	31.1 nTPM
Stomach	28.4 nTPM
Lymph node	25.8 nTPM
Spleen	24.1 nTPM
Bone marrow	21.7 nTPM
PBMC	20.5 nTPM
Skin	19.8 nTPM
Ovary	13.4 nTPM
Kidney	12.3 nTPM
Liver	11.9 nTPM
Esophagus	6.6 nTPM
Prostate	0.0 nTPM

Basal keratinocytes	17.6 nTPM
Skin	17.6 nTPM

Basal prostatic cells	14.6 nTPM
Prostate	14.6 nTPM

Basal squamous epithelial cells	9.6 nTPM
Esophagus	9.6 nTPM

Cholangiocytes	7.2 nTPM
Liver	7.2 nTPM

Undifferentiated cells	14.0 nTPM
Rectum	14.8 nTPM
Colon	13.6 nTPM
Small intestine	13.5 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