Single cell type - ZCCHC2 - 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.	ZCCHC2
Gene descriptionⁱ Full gene name according to HGNC.	Zinc finger CCHC-type containing 2
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.	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	Spermatids - Unknown function (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, 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	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 single
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

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, 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

ZCCHC2 is part of cluster 34 Spermatids - Unknown function with confidenceⁱ 1
366 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
FBXO34	F-box protein 34	0.5800	24
CDC14A	Cell division cycle 14A	0.5376	34
SPATA7	Spermatogenesis associated 7	0.5141	34
CTDSPL2	CTD small phosphatase like 2	0.5056	34
RGPD2	RANBP2 like and GRIP domain containing 2	0.4950	24
CSNK2A2	Casein kinase 2 alpha 2	0.4922	34
C6orf163	Chromosome 6 open reading frame 163	0.4872	31
ZBED4	Zinc finger BED-type containing 4	0.4768	24
RAB21	RAB21, member RAS oncogene family	0.4662	34
SOCS7	Suppressor of cytokine signaling 7	0.4549	34
PCDHGB1	Protocadherin gamma subfamily B, 1	0.4548	34
STAT4	Signal transducer and activator of transcription 4	0.4543	24
UBL3	Ubiquitin like 3	0.4491	34
SPDYE1	Speedy/RINGO cell cycle regulator family member E1	0.4487	29
HIPK1	Homeodomain interacting protein kinase 1	0.4474	24

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	23.1 nTPM
Adipose tissue	24.9 nTPM
Breast	21.3 nTPM

Alveolar cells type 1	25.6 nTPM
Lung	25.6 nTPM

Alveolar cells type 2	18.8 nTPM
Lung	18.8 nTPM

Astrocytes	28.1 nTPM
Brain	28.1 nTPM

B-cells	10.8 nTPM
Adipose tissue	34.1 nTPM
Lymph node	15.5 nTPM
Spleen	13.2 nTPM
Breast	10.7 nTPM
Colon	9.6 nTPM
Bone marrow	7.4 nTPM
Stomach	5.9 nTPM
Kidney	4.8 nTPM
PBMC	4.3 nTPM
Liver	2.9 nTPM

Dendritic cells	33.6 nTPM
Adipose tissue	72.2 nTPM
Breast	24.5 nTPM
PBMC	4.0 nTPM

Endothelial cells	28.8 nTPM
Heart muscle	94.9 nTPM
Endometrium	52.9 nTPM
Prostate	33.9 nTPM
Skeletal muscle	30.4 nTPM
Ovary	29.4 nTPM
Eye	29.1 nTPM
Pancreas	23.1 nTPM
Skin	22.7 nTPM
Breast	16.7 nTPM
Esophagus	16.5 nTPM
Lung	15.6 nTPM
Liver	14.7 nTPM
Placenta	13.7 nTPM
Testis	8.9 nTPM

Fibroblasts	9.7 nTPM
Skeletal muscle	14.9 nTPM
Skin	13.8 nTPM
Lung	13.4 nTPM
Heart muscle	11.9 nTPM
Stomach	11.9 nTPM
Adipose tissue	10.8 nTPM
Prostate	8.6 nTPM
Esophagus	7.7 nTPM
Breast	7.5 nTPM
Ovary	3.9 nTPM
Placenta	2.8 nTPM

Intestinal goblet cells	15.5 nTPM
Rectum	20.0 nTPM
Colon	15.7 nTPM
Small intestine	10.8 nTPM

Macrophages	30.6 nTPM
Ovary	83.3 nTPM
Adipose tissue	51.9 nTPM
Lung	48.0 nTPM
Stomach	41.0 nTPM
Skeletal muscle	39.6 nTPM
Spleen	35.3 nTPM
Endometrium	29.0 nTPM
Prostate	25.3 nTPM
Testis	22.6 nTPM
Bone marrow	22.5 nTPM
Breast	20.1 nTPM
PBMC	13.6 nTPM
Esophagus	12.6 nTPM
Pancreas	7.7 nTPM
Kidney	6.8 nTPM

Paneth cells	9.1 nTPM
Rectum	12.8 nTPM
Small intestine	11.3 nTPM
Colon	3.3 nTPM

Plasma cells	10.7 nTPM
Adipose tissue	47.1 nTPM
Stomach	3.8 nTPM
Bone marrow	1.7 nTPM
Spleen	1.0 nTPM
Esophagus	0.0 nTPM

Respiratory ciliated cells	10.8 nTPM
Bronchus	11.3 nTPM
Lung	10.2 nTPM

Smooth muscle cells	15.0 nTPM
Heart muscle	28.7 nTPM
Skeletal muscle	22.9 nTPM
Skin	20.6 nTPM
Adipose tissue	17.6 nTPM
Prostate	17.2 nTPM
Breast	14.5 nTPM
Endometrium	14.0 nTPM
Bronchus	9.5 nTPM
Esophagus	9.3 nTPM
Ovary	7.6 nTPM
Pancreas	2.5 nTPM

T-cells	22.6 nTPM
Adipose tissue	73.9 nTPM
Endometrium	57.1 nTPM
Colon	33.2 nTPM
Skeletal muscle	33.1 nTPM
Breast	25.4 nTPM
Ovary	22.3 nTPM
Esophagus	19.7 nTPM
Skin	19.3 nTPM
Stomach	17.7 nTPM
Spleen	16.3 nTPM
Lymph node	15.2 nTPM
Lung	10.6 nTPM
Prostate	9.5 nTPM
Liver	9.2 nTPM
PBMC	9.2 nTPM
Bone marrow	8.4 nTPM
Kidney	4.2 nTPM

Basal keratinocytes	26.6 nTPM
Skin	26.6 nTPM

Basal prostatic cells	16.9 nTPM
Prostate	16.9 nTPM

Cone photoreceptor cells	54.2 nTPM
Eye	54.2 nTPM

Endometrial stromal cells	12.3 nTPM
Endometrium	12.3 nTPM

Undifferentiated cells	11.5 nTPM
Rectum	13.1 nTPM
Small intestine	10.9 nTPM
Colon	10.6 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