Cell line - PTCHD1 - The Human Protein Atlas

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PTCHD1

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TISSUE

BRAIN

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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.	PTCHD1
Gene descriptionⁱ Full gene name according to HGNC.	Patched domain containing 1
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,Membrane
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	2

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	WM-115 - Nervous system development (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 (HEK93, RT4, WM-115)
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 transcript level

CELL LINESⁱ

Organ

Expression

Alphabetical

EXPRESSION CLUSTERING & CORRELATIONⁱ

PTCHD1 is part of cluster 17 WM-115 - Nervous system development with confidenceⁱ 1
223 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
TMTC2	Transmembrane O-mannosyltransferase targeting cadherins 2	0.8706	17
EXTL1	Exostosin like glycosyltransferase 1	0.8652	17
ST8SIA5	ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 5	0.8561	17
SCRG1	Stimulator of chondrogenesis 1	0.8559	17
REM1	RRAD and GEM like GTPase 1	0.8559	17
SULT6B1	Sulfotransferase family 6B member 1	0.8549	17
ITIH5	Inter-alpha-trypsin inhibitor heavy chain 5	0.8518	17
LGI4	Leucine rich repeat LGI family member 4	0.8484	17
HCN1	Hyperpolarization activated cyclic nucleotide gated potassium channel 1	0.8482	17
ITIH6	Inter-alpha-trypsin inhibitor heavy chain family member 6	0.8480	17
MAG	Myelin associated glycoprotein	0.8464	17
MMP8	Matrix metallopeptidase 8	0.8451	17
ATP10B	ATPase phospholipid transporting 10B (putative)	0.8425	17
CADM4	Cell adhesion molecule 4	0.8381	17
ACAN	Aggrecan	0.8271	17

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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