Single cell type - RCC1L - 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.	RCC1L
Gene descriptionⁱ Full gene name according to HGNC.	RCC1 like
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s).	Disease related genes Essential proteins Housekeeping proteins Human disease related genes
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.	Cytotrophoblasts - Basic cellular functions (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.	Low cell type specificity
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.	0.28
Brain cell type 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.	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.	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

Cell type summary (DVP)

Cell type enrichment

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
Single cell type groups RNA single cell type group specificity: Low cell type specificity

DVP - RNA AND PROTEIN ABUNDANCE COMPARISON

RNA cell type specificity:	Low cell type specificity	Agreement detection:	Yes (0.87)
Protein cell type specificity:	Cell type enhanced (Proximal tubules)	Agreement expression:	Yes (0.75)
RNA tau score:	0.25	Overlap:	Elevated in one - Highest in different
Protein tau score:	0.24

BULK RNA DECONVOLUTIONⁱ The tissue cell type section provides a cell type specificity prediction for all protein coding genes. More information on the data available can be found here and a description of the analysis here.
	Core cell typesⁱ The core cell type table displays data for a panel of eight cell types that are found in many tissues. Colored dots indicate that the selected gene has core cell type specificity in the indicated tissue. Grey dots indicate that cell type is present within that tissue, but the selected gene is not predicted to be enriched there. Category Alphabetical Enrichment Tissue specific cell typesⁱ This plot shows the enrichment score of the selected gene in all non-core cell types found within the profiled tissues, allowing comparisons between different cell types within different tissues. An enlarged symbol indicates classification of the gene as cell type enriched in the corresponding cell type.

EXPRESSION CLUSTERING & CORRELATIONⁱ

RCC1L is part of cluster 75 Cytotrophoblasts - Basic cellular functions with confidenceⁱ 1
171 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.
LRRC47	Leucine rich repeat containing 47	0.4473	37
MRPL4	Mitochondrial ribosomal protein L4	0.4309	37
PSMB2	Proteasome 20S subunit beta 2	0.4243	37
FN3KRP	Fructosamine 3 kinase related protein	0.4220	75
FKBP3	FKBP prolyl isomerase 3	0.4212	75
DNMT1	DNA methyltransferase 1	0.4177	75
DDX54	DEAD-box helicase 54	0.4097	37
PAGE4	PAGE family member 4	0.4051	75
COMT	Catechol-O-methyltransferase	0.3991	75
PDAP1	PDGFA associated protein 1	0.3936	37
VGLL1	Vestigial like family member 1	0.3928	75
LARGE2	LARGE xylosyl- and glucuronyltransferase 2	0.3904	75
SRP68	Signal recognition particle 68	0.3901	51
GGCT	Gamma-glutamylcyclotransferase	0.3881	75
MORC4	MORC family CW-type zinc finger 4	0.3874	75