Cell line - PCDHA4 - The Human Protein Atlas

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PCDHA4

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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.	PCDHA4
Gene descriptionⁱ Full gene name according to HGNC.	Protocadherin alpha 4
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	Membrane
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	5

HUMAN PROTEIN ATLAS INFORMATIONⁱ Summary of RNA expression and protein localization based on data generated within the Human Protein Atlas project.
Cell line expression clusterⁱ The RNA data was used to cluster genes according to their expression across cell lines. 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	EFO-21 - Unknown function (mainly)
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 (A549, AF22, EFO-21, T-47d)
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 some
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

CELL LINESⁱ

Organ

Expression

Alphabetical

EXPRESSION CLUSTERING & CORRELATIONⁱ

PCDHA4 is part of cluster 38 EFO-21 - Unknown function with confidenceⁱ 1
146 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on cell line 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
PCDHA5	Protocadherin alpha 5	0.7769	6
PCDHA11	Protocadherin alpha 11	0.7180	23
ZSCAN1	Zinc finger and SCAN domain containing 1	0.6731	6
GNGT1	G protein subunit gamma transducin 1	0.6713	38
FSCN2	Fascin actin-bundling protein 2, retinal	0.6545	6
PCDHA10	Protocadherin alpha 10	0.6348	38
CDH6	Cadherin 6	0.6306	38
CLCNKB	Chloride voltage-gated channel Kb	0.6277	38
SIAH3	Siah E3 ubiquitin protein ligase family member 3	0.6198	38
GPR20	G protein-coupled receptor 20	0.6186	38
CUEDC1	CUE domain containing 1	0.6073	6
DCAF12L1	DDB1 and CUL4 associated factor 12 like 1	0.6065	38
PRSS51	Serine protease 51	0.6038	42
PCDHGA3	Protocadherin gamma subfamily A, 3	0.5996	12
LYNX1-SLURP2	LYNX1-SLURP2 readthrough	0.5982	38

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

The Human Protein Atlas project is funded
by the Knut & Alice Wallenberg Foundation.