Single cell type - CIDEB - 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.	CIDEB
Gene descriptionⁱ Full gene name according to HGNC.	Cell death inducing DFFA like effector b
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.	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.	Non-specific - Mixed 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.	Cell type enhanced (Ependymal cells, Enterocytes, Microglia, Hepatocytes, Innate lymphoid cells, Papillary tip epithelial cells, Breast myoepithelial cells, NK-cells)
Tau specificity scoreⁱ Tau specificity score is a numerical indicator of the specificity of the gene expression across cells or tissues. The value ranges from 0 and 1, where 0 indicates identical expression across all cells/tissue types, while 1 indicates expression in a single cell/tissue type.	0.85
Brain cluster specificityⁱ The RNA specificity category is based on mRNA expression levels in the analyzed cell cluster types based on snRNA-seq data from brain samples. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected. "cell type" refer to one of the 34 cluster names used to summarize the 2.5 million cells included in the brain cell representation.	Cell type enhanced (Leukocyte, Ependymal cell)
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.	Low immune cell specificity
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); neXtProt protein existence (neXtProt evidence);and a Human Protein Atlas antibody- or RNA based score (HPA evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable.	Evidence at protein level

ASSAYSⁱ

Single cell type

Single nuclei - Brain

Immune cells

Expression clustering

SINGLE CELL TYPESⁱ A summary of normalized single cell RNA (nCPM) from all single cell types. Color-coding is based on cell type groups, each consisting of cell types with functional features in common. * Single nuclei Read more
Single cell type groups RNA single cell type group specificity: Cell type enhanced (Ciliated cells, Enterocytes, Glial cells)

SINGLE NUCLEI BRAINⁱ

Single nuclei cluster types

RNA brain cluster specificity: Cell type enhanced (Leukocyte, Ependymal cell)

IMMUNE CELL TYPE EXPRESSION (RNA)ⁱ Blood cell type expression overview shows RNA-seq data from three different sources: Internally generated Human Protein Atlas HPA data, as well as data generated by Monaco et al and Schmiedel et al). Color-coding is based on blood cell type lineages, including B-cells, T-cells, NK-cells, monocytes, granulocytes and dendritic cells as well as total PBMC. To access sample data, click on tissue name or bar.
HPA datasetⁱ The resulting transcript expression values calculated as nTPM, resulting from the internal normalization pipeline for 18 immune cell types and total peripheral blood mononuclear cells (PBMC). Lineage Expression Alphabetical Immune cell type specificity: Low immune cell specificity
Monaco datasetⁱ The transcript expression values (nTPM) resulting from the internal normalization pipeline are visualized for 29 blood cell types and total peripheral blood mononuclear cells (PBMC) from Monaco et al. Lineage Expression Alphabetical
Schmiedel datasetⁱ Transcript Per Million (TPM) values are visualized for 15 blood cell types from the Schmiedel et al. dataset. Lineage Expression Alphabetical

EXPRESSION CLUSTERING & CORRELATIONⁱ

SINGLE CELL TYPE

CIDEB is part of cluster 102 Non-specific - Mixed function with confidenceⁱ 1
284 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell 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.	Clusterⁱ ID of the expression cluster of the neighboring gene.
LTB4R	Leukotriene B4 receptor	0.5719	102
MICB	MHC class I polypeptide-related sequence B	0.5638	102
TAPBP	TAP binding protein	0.5633	102
IL27RA	Interleukin 27 receptor subunit alpha	0.5594	102
ENSG00000268083	Novel protein	0.5275	102
RASA3	RAS p21 protein activator 3	0.5226	102
HSPA6	Heat shock protein family A (Hsp70) member 6	0.5108	102
TNF	Tumor necrosis factor	0.5055	102
GPSM3	G protein signaling modulator 3	0.5010	102
TAP1	Transporter 1, ATP binding cassette subfamily B member	0.4916	102
PPP1R18	Protein phosphatase 1 regulatory subunit 18	0.4905	102
SYNCRIP	Synaptotagmin binding cytoplasmic RNA interacting protein	0.4899	102
PTPRCAP	Protein tyrosine phosphatase receptor type C associated protein	0.4876	102
WDFY1	WD repeat and FYVE domain containing 1	0.4852	102
RHOA	Ras homolog family member A	0.4848	102

IMMUNE CELLS

CIDEB is part of cluster 45 Eosinophils - Unknown function with confidenceⁱ 0.98
257 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell 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.	Clusterⁱ ID of the expression cluster of the neighboring gene.
ARMC10	Armadillo repeat containing 10	1.0000	45
TM7SF3	Transmembrane 7 superfamily member 3	1.0000	45
CPNE2	Copine 2	1.0000	45
EPS8L1	EPS8 like 1	0.9762	45
PCBP1	Poly(rC) binding protein 1	0.9762	45
PPP4R2	Protein phosphatase 4 regulatory subunit 2	0.9762	45
TMEM183A	Transmembrane protein 183A	0.9762	45
PABIR2	PABIR family member 2	0.9762	45
VPS26B	VPS26 retromer complex component B	0.9762	45
GUK1	Guanylate kinase 1	0.9762	45
AKT1	AKT serine/threonine kinase 1	0.9762	45
ADIPOR2	Adiponectin receptor 2	0.9762	45
FBXL12	F-box and leucine rich repeat protein 12	0.9762	45
RNF11	Ring finger protein 11	0.9762	45
TRIM62	Tripartite motif containing 62	0.9762	45