LINC00486 Gene

Name long intergenic non-protein coding RNA 486
Summary
{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\n LINC00486 is a long noncoding RNA that has been identified as one of several genes recurrently targeted by hepatitis B virus (HBV) integration events in intrahepatic cholangiocarcinoma (ICC). In the study of HBV-related ICC, integration of HBV‐DNA into the genome was frequently observed in several genes, including LINC00486, suggesting that disruption of this lncRNA may contribute to the molecular events driving tumorigenesis."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "1"}]}, {"type": "t", "text": " Although the precise biological role of LINC00486 remains to be fully characterized, its recurrent targeting by HBV integration implies that it could be involved in regulatory pathways that, when perturbed, may promote cancer development. This finding is set against a backdrop of diverse genomic and epigenomic studies in other contexts – such as the delineation of specific mutational signatures in Chinese lung cancer patients"}, {"type": "fg", "children": [{"type": "fg_f", "ref": "2"}]}, {"type": "t", "text": ", the profiling of chromatin accessibility and lentiviral integration in CAR‐T cells"}, {"type": "fg", "children": [{"type": "fg_f", "ref": "3"}]}, {"type": "t", "text": ", and genome‐wide association studies of skin color in Korean women"}, {"type": "fg", "children": [{"type": "fg_f", "ref": "4"}]}, {"type": "t", "text": "– that collectively underscore the importance of genomic alterations in disease pathogenesis. Further studies are needed to elucidate the functional consequences of HBV integration at the LINC00486 locus and its potential contribution to ICC oncogenesis.\n "}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Mengge Li, Min Du, Hui Cong, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Characterization of hepatitis B virus DNA integration patterns in intrahepatic cholangiocarcinoma."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Hepatol Res (2021)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1111/hepr.13580"}], "href": "https://doi.org/10.1111/hepr.13580"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "33037855"}], "href": "https://pubmed.ncbi.nlm.nih.gov/33037855"}]}, {"type": "r", "ref": 2, "children": [{"type": "t", "text": "Cheng Wang, Rong Yin, Juncheng Dai, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Whole-genome sequencing reveals genomic signatures associated with the inflammatory microenvironments in Chinese NSCLC patients."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Nat Commun (2018)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1038/s41467-018-04492-2"}], "href": "https://doi.org/10.1038/s41467-018-04492-2"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "29799009"}], "href": "https://pubmed.ncbi.nlm.nih.gov/29799009"}]}, {"type": "r", "ref": 3, "children": [{"type": "t", "text": "Wenliang Wang, Maria Fasolino, Benjamin Cattau, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Joint profiling of chromatin accessibility and CAR-T integration site analysis at population and single-cell levels."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Proc Natl Acad Sci U S A (2020)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1073/pnas.1919259117"}], "href": "https://doi.org/10.1073/pnas.1919259117"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "32094195"}], "href": "https://pubmed.ncbi.nlm.nih.gov/32094195"}]}, {"type": "r", "ref": 4, "children": [{"type": "t", "text": "Jung Yeon Seo, Seung Won You, Joong-Gon Shin, et al. "}, {"type": "b", "children": [{"type": "t", "text": "GWAS Identifies Multiple Genetic Loci for Skin Color in Korean Women."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "J Invest Dermatol (2022)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.jid.2021.08.440"}], "href": "https://doi.org/10.1016/j.jid.2021.08.440"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "34648798"}], "href": "https://pubmed.ncbi.nlm.nih.gov/34648798"}]}]}]}
NCBI Gene ID 285045
API
Download Associations
Predicted Functions View LINC00486's ARCHS4 Predicted Functions.
Co-expressed Genes View LINC00486's ARCHS4 Predicted Functions.
Expression in Tissues and Cell Lines View LINC00486's ARCHS4 Predicted Functions.

Functional Associations

LINC00486 has 536 functional associations with biological entities spanning 4 categories (molecular profile, disease, phenotype or trait, cell line, cell type or tissue, gene, protein or microRNA) extracted from 19 datasets.

Click the + buttons to view associations for LINC00486 from the datasets below.

If available, associations are ranked by standardized value

Dataset Summary
CCLE Cell Line Gene CNV Profiles cell lines with high or low copy number of LINC00486 gene relative to other cell lines from the CCLE Cell Line Gene CNV Profiles dataset.
CCLE Cell Line Gene Expression Profiles cell lines with high or low expression of LINC00486 gene relative to other cell lines from the CCLE Cell Line Gene Expression Profiles dataset.
ChEA Transcription Factor Binding Site Profiles transcription factor binding site profiles with transcription factor binding evidence at the promoter of LINC00486 gene from the CHEA Transcription Factor Binding Site Profiles dataset.
ChEA Transcription Factor Targets transcription factors binding the promoter of LINC00486 gene in low- or high-throughput transcription factor functional studies from the CHEA Transcription Factor Targets dataset.
COSMIC Cell Line Gene CNV Profiles cell lines with high or low copy number of LINC00486 gene relative to other cell lines from the COSMIC Cell Line Gene CNV Profiles dataset.
ENCODE Histone Modification Site Profiles histone modification site profiles with high histone modification abundance at LINC00486 gene from the ENCODE Histone Modification Site Profiles dataset.
ENCODE Transcription Factor Binding Site Profiles transcription factor binding site profiles with transcription factor binding evidence at the promoter of LINC00486 gene from the ENCODE Transcription Factor Binding Site Profiles dataset.
ENCODE Transcription Factor Targets transcription factors binding the promoter of LINC00486 gene in ChIP-seq datasets from the ENCODE Transcription Factor Targets dataset.
GEO Signatures of Differentially Expressed Genes for Diseases disease perturbations changing expression of LINC00486 gene from the GEO Signatures of Differentially Expressed Genes for Diseases dataset.
GEO Signatures of Differentially Expressed Genes for Gene Perturbations gene perturbations changing expression of LINC00486 gene from the GEO Signatures of Differentially Expressed Genes for Gene Perturbations dataset.
GEO Signatures of Differentially Expressed Genes for Kinase Perturbations kinase perturbations changing expression of LINC00486 gene from the GEO Signatures of Differentially Expressed Genes for Kinase Perturbations dataset.
GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations transcription factor perturbations changing expression of LINC00486 gene from the GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations dataset.
GTEx Tissue Gene Expression Profiles tissues with high or low expression of LINC00486 gene relative to other tissues from the GTEx Tissue Gene Expression Profiles dataset.
GWAS Catalog SNP-Phenotype Associations phenotypes associated with LINC00486 gene in GWAS datasets from the GWAS Catalog SNP-Phenotype Associations dataset.
GWASdb SNP-Disease Associations diseases associated with LINC00486 gene in GWAS and other genetic association datasets from the GWASdb SNP-Disease Associations dataset.
GWASdb SNP-Phenotype Associations phenotypes associated with LINC00486 gene in GWAS datasets from the GWASdb SNP-Phenotype Associations dataset.
Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles cell lines with high or low copy number of LINC00486 gene relative to other cell lines from the Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles dataset.
MotifMap Predicted Transcription Factor Targets transcription factors regulating expression of LINC00486 gene predicted using known transcription factor binding site motifs from the MotifMap Predicted Transcription Factor Targets dataset.
Roadmap Epigenomics Histone Modification Site Profiles histone modification site profiles with high histone modification abundance at LINC00486 gene from the Roadmap Epigenomics Histone Modification Site Profiles dataset.