LINC00299 Gene

Name long intergenic non-protein coding RNA 299
Summary
{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\n LINC00299 is a long intergenic noncoding RNA that has emerged as a multifunctional regulator in human biology and disease. Its disruption has been linked to neurodevelopmental abnormalities, with evidence suggesting that LINC00299 is abundantly expressed in the brain and required for proper neural development."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "1"}]}, {"type": "t", "text": " In addition, epigenome‐wide studies have identified hypermethylation at the LINC00299 locus in peripheral blood samples of triple‐negative breast cancer patients, indicating that alterations in its methylation status may serve as a circulating biomarker for the disease, particularly in younger women."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "3"}]}, {"type": "t", "text": " Moreover, functional studies in atherosclerosis models have demonstrated that LINC00299 can act as a molecular “sponge” for microRNAs—such as miR-490-3p and miR-135a-5p—to modulate key downstream targets (including AURKA and XBP1), thereby promoting vascular smooth muscle and endothelial cell proliferation and migration."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "5"}]}, {"type": "t", "text": " Finally, expression network analyses in hypertrophic scars suggest that LINC00299 is associated with metastasis-related genes (for example, INHBA, SMAD7, COL1A1, TGFβ3, and MYC), hinting at further roles in the regulation of cell proliferation and differentiation in pathological contexts."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "7"}]}, {"type": "t", "text": "\n "}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Michael E Talkowski, Gilles Maussion, Liam Crapper, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Disruption of a large intergenic noncoding RNA in subjects with neurodevelopmental disabilities."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Am J Hum Genet (2012)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.ajhg.2012.10.016"}], "href": "https://doi.org/10.1016/j.ajhg.2012.10.016"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "23217328"}], "href": "https://pubmed.ncbi.nlm.nih.gov/23217328"}]}, {"type": "r", "ref": 2, "children": [{"type": "t", "text": "Jonathon Blake, Andrew Riddell, Susanne Theiss, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Sequencing of a patient with balanced chromosome abnormalities and neurodevelopmental disease identifies disruption of multiple high risk loci by structural variation."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "PLoS One (2014)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1371/journal.pone.0090894"}], "href": "https://doi.org/10.1371/journal.pone.0090894"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "24625750"}], "href": "https://pubmed.ncbi.nlm.nih.gov/24625750"}]}, {"type": "r", "ref": 3, "children": [{"type": "t", "text": "Justo L Bermejo, Guanmengqian Huang, Mehdi Manoochehri, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Long intergenic noncoding RNA 299 methylation in peripheral blood is a biomarker for triple-negative breast cancer."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Epigenomics (2019)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.2217/epi-2018-0121"}], "href": "https://doi.org/10.2217/epi-2018-0121"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "30208740"}], "href": "https://pubmed.ncbi.nlm.nih.gov/30208740"}]}, {"type": "r", "ref": 4, "children": [{"type": "t", "text": "Mehdi Manoochehri, Michael Jones, Katarzyna Tomczyk, et al. "}, {"type": "b", "children": [{"type": "t", "text": "DNA methylation of the long intergenic noncoding RNA 299 gene in triple-negative breast cancer: results from a prospective study."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Sci Rep (2020)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1038/s41598-020-68506-0"}], "href": "https://doi.org/10.1038/s41598-020-68506-0"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "32678138"}], "href": "https://pubmed.ncbi.nlm.nih.gov/32678138"}]}, {"type": "r", "ref": 5, "children": [{"type": "t", "text": "Yong Liu, Yaqing Chen, Lili Tan, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Linc00299/miR-490-3p/AURKA axis regulates cell growth and migration in atherosclerosis."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Heart Vessels (2019)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1007/s00380-019-01356-7"}], "href": "https://doi.org/10.1007/s00380-019-01356-7"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "30734057"}], "href": "https://pubmed.ncbi.nlm.nih.gov/30734057"}]}, {"type": "r", "ref": 6, "children": [{"type": "t", "text": "Ming Chang, Guiqing Liu, Yeqin Wang, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Long non-coding RNA LINC00299 knockdown inhibits ox-LDL-induced T/G HA-VSMC injury by regulating miR-135a-5p/XBP1 axis in atherosclerosis."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Panminerva Med (2022)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.23736/S0031-0808.20.03942-7"}], "href": "https://doi.org/10.23736/S0031-0808.20.03942-7"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "32700888"}], "href": "https://pubmed.ncbi.nlm.nih.gov/32700888"}]}, {"type": "r", "ref": 7, "children": [{"type": "t", "text": "Min Li, Jian Wang, Dewu Liu, et al. "}, {"type": "b", "children": [{"type": "t", "text": "High‑throughput sequencing reveals differentially expressed lncRNAs and circRNAs, and their associated functional network, in human hypertrophic scars."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Mol Med Rep (2018)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.3892/mmr.2018.9557"}], "href": "https://doi.org/10.3892/mmr.2018.9557"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "30320389"}], "href": "https://pubmed.ncbi.nlm.nih.gov/30320389"}]}]}]}
Synonyms C2ORF46, NCRNA00299
Proteins CB046_HUMAN
NCBI Gene ID 339789
API
Download Associations
Predicted Functions View LINC00299's ARCHS4 Predicted Functions.
Co-expressed Genes View LINC00299's ARCHS4 Predicted Functions.
Expression in Tissues and Cell Lines View LINC00299's ARCHS4 Predicted Functions.

Functional Associations

LINC00299 has 657 functional associations with biological entities spanning 5 categories (molecular profile, functional term, phrase or reference, disease, phenotype or trait, cell line, cell type or tissue, gene, protein or microRNA) extracted from 25 datasets.

Click the + buttons to view associations for LINC00299 from the datasets below.

If available, associations are ranked by standardized value

Dataset Summary
Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray tissue samples with high or low expression of LINC00299 gene relative to other tissue samples from the Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray dataset.
CCLE Cell Line Gene CNV Profiles cell lines with high or low copy number of LINC00299 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 LINC00299 gene relative to other cell lines from the CCLE Cell Line Gene Expression Profiles dataset.
CellMarker Gene-Cell Type Associations cell types associated with LINC00299 gene from the CellMarker Gene-Cell Type Associations dataset.
ChEA Transcription Factor Binding Site Profiles transcription factor binding site profiles with transcription factor binding evidence at the promoter of LINC00299 gene from the CHEA Transcription Factor Binding Site Profiles dataset.
ChEA Transcription Factor Targets transcription factors binding the promoter of LINC00299 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 LINC00299 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 LINC00299 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 LINC00299 gene from the ENCODE Transcription Factor Binding Site Profiles dataset.
ENCODE Transcription Factor Targets transcription factors binding the promoter of LINC00299 gene in ChIP-seq datasets from the ENCODE Transcription Factor Targets dataset.
GeneRIF Biological Term Annotations biological terms co-occuring with LINC00299 gene in literature-supported statements describing functions of genes from the GeneRIF Biological Term Annotations dataset.
GEO Signatures of Differentially Expressed Genes for Diseases disease perturbations changing expression of LINC00299 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 LINC00299 gene from the GEO Signatures of Differentially Expressed Genes for Gene Perturbations dataset.
GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations transcription factor perturbations changing expression of LINC00299 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 LINC00299 gene relative to other tissues from the GTEx Tissue Gene Expression Profiles dataset.
GTEx Tissue Sample Gene Expression Profiles tissue samples with high or low expression of LINC00299 gene relative to other tissue samples from the GTEx Tissue Sample Gene Expression Profiles dataset.
GWAS Catalog SNP-Phenotype Associations phenotypes associated with LINC00299 gene in GWAS datasets from the GWAS Catalog SNP-Phenotype Associations dataset.
GWASdb SNP-Disease Associations diseases associated with LINC00299 gene in GWAS and other genetic association datasets from the GWASdb SNP-Disease Associations dataset.
GWASdb SNP-Phenotype Associations phenotypes associated with LINC00299 gene in GWAS datasets from the GWASdb SNP-Phenotype Associations dataset.
HuBMAP Azimuth Cell Type Annotations cell types associated with LINC00299 gene from the HuBMAP Azimuth Cell Type Annotations dataset.
JASPAR Predicted Transcription Factor Targets transcription factors regulating expression of LINC00299 gene predicted using known transcription factor binding site motifs from the JASPAR Predicted Transcription Factor Targets dataset.
Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles cell lines with high or low copy number of LINC00299 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 LINC00299 gene predicted using known transcription factor binding site motifs from the MotifMap Predicted Transcription Factor Targets dataset.
Roadmap Epigenomics Cell and Tissue DNA Methylation Profiles cell types and tissues with high or low DNA methylation of LINC00299 gene relative to other cell types and tissues from the Roadmap Epigenomics Cell and Tissue DNA Methylation Profiles dataset.
Roadmap Epigenomics Histone Modification Site Profiles histone modification site profiles with high histone modification abundance at LINC00299 gene from the Roadmap Epigenomics Histone Modification Site Profiles dataset.