Cell line - LIN54 - The Human Protein Atlas

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LIN54

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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.	LIN54
Gene descriptionⁱ Full gene name according to HGNC.	Lin-54 DREAM MuvB core complex component
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.	6

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	HMC-1 - Innate immune response (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 (HMC-1)
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

LIN54 is part of cluster 3 HMC-1 - Innate immune response with confidenceⁱ 1
506 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
ITGAL	Integrin subunit alpha L	0.8395	3
AP000781.2	Novel protein	0.8358	3
CLC	Charcot-Leyden crystal galectin	0.8344	3
IL3	Interleukin 3	0.8265	3
P2RY14	Purinergic receptor P2Y14	0.8265	3
TPSAB1	Tryptase alpha/beta 1	0.8223	3
SLC28A3	Solute carrier family 28 member 3	0.8219	3
CGB1	Chorionic gonadotropin subunit beta 1	0.8206	3
CCL1	C-C motif chemokine ligand 1	0.8188	3
CT45A8	Cancer/testis antigen family 45 member A8	0.8186	3
PRG3	Proteoglycan 3, pro eosinophil major basic protein 2	0.8182	3
ADGRE3	Adhesion G protein-coupled receptor E3	0.8176	3
CYP2F1	Cytochrome P450 family 2 subfamily F member 1	0.8174	3
IL9R	Interleukin 9 receptor	0.8172	3
EGR4	Early growth response 4	0.8160	3

Contact

contact@proteinatlas.org

The Project

The Human Protein Atlas

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