Single cell type - CDIP1 - 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.	CDIP1
Gene descriptionⁱ Full gene name according to HGNC.	Cell death inducing p53 target 1
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
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	12

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	Bipolar cells - Visual perception (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 (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 all
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, RPMI-8226)
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 (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

CDIP1 is part of cluster 56 Bipolar cells - Visual perception with confidenceⁱ 1
199 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
SCRT1	Scratch family transcriptional repressor 1	0.5952	29
JPH3	Junctophilin 3	0.5615	62
MPP2	Membrane palmitoylated protein 2	0.5491	56
CLDN20	Claudin 20	0.5269	56
RNFT2	Ring finger protein, transmembrane 2	0.4966	29
HPCA	Hippocalcin	0.4880	56
AP5M1	Adaptor related protein complex 5 subunit mu 1	0.4863	29
DESI1	Desumoylating isopeptidase 1	0.4741	29
CXXC5	CXXC finger protein 5	0.4722	29
NAPB	NSF attachment protein beta	0.4599	56
ABCD2	ATP binding cassette subfamily D member 2	0.4497	56
MAPT	Microtubule associated protein tau	0.4462	62
FANCC	FA complementation group C	0.4443	29
NDUFAF5	NADH:ubiquinone oxidoreductase complex assembly factor 5	0.4419	29
ZNF382	Zinc finger protein 382	0.4418	62

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	27.1 nTPM
Adipose tissue	30.9 nTPM
Breast	23.2 nTPM

Alveolar cells type 1	16.0 nTPM
Lung	16.0 nTPM

Alveolar cells type 2	7.0 nTPM
Lung	7.0 nTPM

Astrocytes	28.7 nTPM
Brain	28.7 nTPM

B-cells	19.4 nTPM
Liver	31.4 nTPM
Stomach	27.7 nTPM
PBMC	21.4 nTPM
Colon	19.2 nTPM
Breast	18.7 nTPM
Spleen	18.3 nTPM
Adipose tissue	17.6 nTPM
Kidney	14.3 nTPM
Lymph node	14.2 nTPM
Bone marrow	11.5 nTPM

Dendritic cells	16.3 nTPM
Breast	23.6 nTPM
Adipose tissue	17.1 nTPM
PBMC	8.0 nTPM

Endothelial cells	20.3 nTPM
Pancreas	38.6 nTPM
Heart muscle	35.3 nTPM
Testis	32.3 nTPM
Breast	24.4 nTPM
Skin	23.4 nTPM
Liver	22.9 nTPM
Skeletal muscle	21.5 nTPM
Prostate	19.2 nTPM
Eye	16.2 nTPM
Placenta	15.9 nTPM
Esophagus	13.9 nTPM
Ovary	10.7 nTPM
Endometrium	9.3 nTPM
Lung	0.0 nTPM

Fibroblasts	15.4 nTPM
Placenta	27.8 nTPM
Breast	19.3 nTPM
Ovary	18.4 nTPM
Prostate	16.0 nTPM
Esophagus	14.9 nTPM
Stomach	14.9 nTPM
Heart muscle	14.1 nTPM
Skeletal muscle	13.6 nTPM
Adipose tissue	12.5 nTPM
Skin	12.3 nTPM
Lung	5.6 nTPM

Intestinal goblet cells	6.1 nTPM
Small intestine	13.1 nTPM
Colon	2.9 nTPM
Rectum	2.2 nTPM

Macrophages	17.5 nTPM
PBMC	54.6 nTPM
Prostate	25.3 nTPM
Breast	24.8 nTPM
Adipose tissue	21.2 nTPM
Kidney	18.1 nTPM
Esophagus	17.3 nTPM
Pancreas	15.3 nTPM
Spleen	14.5 nTPM
Ovary	13.1 nTPM
Testis	12.2 nTPM
Skeletal muscle	11.5 nTPM
Bone marrow	11.3 nTPM
Endometrium	10.9 nTPM
Lung	7.3 nTPM
Stomach	5.9 nTPM

Paneth cells	13.2 nTPM
Small intestine	18.8 nTPM
Colon	16.5 nTPM
Rectum	4.2 nTPM

Plasma cells	24.1 nTPM
Spleen	38.4 nTPM
Stomach	27.2 nTPM
Bone marrow	26.4 nTPM
Esophagus	18.4 nTPM
Adipose tissue	10.3 nTPM

Respiratory ciliated cells	0.9 nTPM
Bronchus	1.7 nTPM
Lung	0.0 nTPM

Smooth muscle cells	11.3 nTPM
Pancreas	24.9 nTPM
Prostate	21.9 nTPM
Skin	12.6 nTPM
Breast	11.5 nTPM
Ovary	10.9 nTPM
Skeletal muscle	10.6 nTPM
Adipose tissue	8.9 nTPM
Heart muscle	8.2 nTPM
Endometrium	7.4 nTPM
Bronchus	3.7 nTPM
Esophagus	3.1 nTPM

T-cells	22.9 nTPM
Colon	48.0 nTPM
Stomach	37.3 nTPM
Esophagus	32.8 nTPM
Breast	27.0 nTPM
Liver	26.2 nTPM
Kidney	24.7 nTPM
Lung	24.3 nTPM
PBMC	20.8 nTPM
Bone marrow	20.2 nTPM
Spleen	19.2 nTPM
Prostate	19.0 nTPM
Ovary	17.8 nTPM
Adipose tissue	17.2 nTPM
Endometrium	16.7 nTPM
Skin	14.7 nTPM
Lymph node	13.3 nTPM
Skeletal muscle	10.2 nTPM

Basal keratinocytes	29.6 nTPM
Skin	29.6 nTPM

Basal respiratory cells	25.4 nTPM
Bronchus	25.4 nTPM

Basal squamous epithelial cells	38.1 nTPM
Esophagus	38.1 nTPM

Cholangiocytes	7.2 nTPM
Liver	7.2 nTPM

Undifferentiated cells	6.7 nTPM
Small intestine	14.4 nTPM
Colon	2.9 nTPM
Rectum	2.8 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