Cell line - VIPAS39 - The Human Protein Atlas

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VIPAS39

SUMMARY

TISSUE

BRAIN

SINGLE CELL

TISSUE CELL

PATHOLOGY

IMMUNE

BLOOD

SUBCELL

CELL LINE

METABOLIC

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.	VIPAS39
Gene descriptionⁱ Full gene name according to HGNC.	VPS33B interacting protein, apical-basolateral polarity regulator, spe-39 homolog
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Disease related genes 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. Read more	Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	7

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	T47d - Mammary gland (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	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 all
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

VIPAS39 is part of cluster 6 T47d - Mammary gland with confidenceⁱ 1
293 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
ALDH6A1	Aldehyde dehydrogenase 6 family member A1	0.7275	6
TP53I3	Tumor protein p53 inducible protein 3	0.6935	6
LRSAM1	Leucine rich repeat and sterile alpha motif containing 1	0.6808	6
TMC4	Transmembrane channel like 4	0.6603	6
GHR	Growth hormone receptor	0.6583	6
C11orf52	Chromosome 11 open reading frame 52	0.6484	6
EAPP	E2F associated phosphoprotein	0.6468	37
TMEM141	Transmembrane protein 141	0.6464	21
AGR3	Anterior gradient 3, protein disulphide isomerase family member	0.6403	6
PDZK1	PDZ domain containing 1	0.6364	6
DEGS2	Delta 4-desaturase, sphingolipid 2	0.6241	6
ACE	Angiotensin I converting enzyme	0.6235	41
ACER1	Alkaline ceramidase 1	0.6219	6
PIAS3	Protein inhibitor of activated STAT 3	0.6215	21
LRTOMT	Leucine rich transmembrane and O-methyltransferase domain containing	0.6051	6

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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