CRNDE Gene

HGNC Family Non-coding RNAs
Name colorectal neoplasia differentially expressed (non-protein coding)
Description This gene is transcribed into multiple transcript variants, some of which may function as non-coding RNAs. One of the transcript variants encodes a putative short protein that is localized to the nucleus (PMID:25978564). Expression of this locus is increased in proliferating tissues, including certain tumors such as colorectal adenomas and adenocarcinomas. Transcription from this gene is negatively regulated by insulin and insulin-like growth factors, and may regulate the expression of genes involved in metabolism. [provided by RefSeq, May 2015]
Summary
{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\n In diverse malignancies, the long non‐coding RNA CRNDE has emerged as a multifaceted oncogenic regulator that modulates key cellular processes via several mechanisms. In uveal melanoma, for example, aberrant alternative splicing of CRNDE transcripts is linked to SF3B1 mutations, suggesting a contribution to splicing deregulation."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "1"}]}, {"type": "t", "text": " In glioma, CRNDE is upregulated and promotes cell proliferation, migration, and tumor growth through mTOR‐dependent pathways."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "2"}]}, {"type": "t", "text": " In colorectal cancer, nuclear CRNDE transcripts are regulated by insulin/IGF signaling, thereby influencing metabolic reprogramming toward the Warburg effect."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "3"}]}, {"type": "t", "text": ""}]}, {"type": "t", "text": "\n \n "}, {"type": "p", "children": [{"type": "t", "text": "\n CRNDE frequently acts as a competing endogenous RNA (ceRNA) to sequester microRNAs and de‐repress oncogenic targets. For instance, in multiple myeloma CRNDE functions as a molecular sponge for miR‑451 to enhance proliferation and anti‑apoptotic capacity"}, {"type": "fg", "children": [{"type": "fg_f", "ref": "4"}]}, {"type": "t", "text": ", while in gastric cancer its interaction with splicing regulatory proteins (e.g., SRSF6) modulates alternative splicing events and autophagy, thereby impacting chemoresistance."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "5"}]}, {"type": "t", "text": " In colorectal cancer, CRNDE binds miR‑217 to upregulate TCF7L2 and activate Wnt/β‑catenin signaling, fostering cell proliferation, migration, and invasion."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "6"}]}, {"type": "t", "text": ""}]}, {"type": "t", "text": "\n \n "}, {"type": "p", "children": [{"type": "t", "text": "\n Similar ceRNA‐driven regulation is observed in other cancers; in osteosarcoma, CRNDE promotes proliferation, invasion, and epithelial–mesenchymal transition via activation of the Wnt/β‑catenin pathway"}, {"type": "fg", "children": [{"type": "fg_f", "ref": "7"}]}, {"type": "t", "text": "and"}, {"type": "fg", "children": [{"type": "fg_f", "ref": "8"}]}, {"type": "t", "text": ", while in non‐small cell lung cancer it sponges miR‑641 to elevate CDK6 expression, thereby promoting proliferation and suppressing apoptosis."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "9"}]}, {"type": "t", "text": " In inflammatory settings, CRNDE contributes to disease progression by enhancing colonic epithelial apoptosis through a miR‑495/SOCS1 axis in inflammatory bowel disease"}, {"type": "fg", "children": [{"type": "fg_f", "ref": "10"}]}, {"type": "t", "text": "and by aggravating sepsis‑induced acute kidney injury via activation of the TLR3/NF‑κB pathway."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "11"}]}, {"type": "t", "text": "\n "}]}, {"type": "t", "text": "\n \n "}, {"type": "p", "children": [{"type": "t", "text": "\n In hepatocellular carcinoma, CRNDE sequesters miR‑337‑3p to elevate SIX1 expression"}, {"type": "fg", "children": [{"type": "fg_f", "ref": "12"}]}, {"type": "t", "text": ", and in cervical cancer its function as a ceRNA is further exemplified by interactions with miR‑183 to upregulate CCNB1"}, {"type": "fg", "children": [{"type": "fg_f", "ref": "13"}]}, {"type": "t", "text": "as well as by binding with PUMA to promote cell growth."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "14"}]}, {"type": "t", "text": " Collectively, these studies underscore that CRNDE exerts its oncogenic role by modulating alternative splicing and functioning as a ceRNA in a context‐dependent manner, thereby promoting tumor cell proliferation, migration, metabolic reprogramming, and resistance to apoptosis. Its multifaceted functions position CRNDE as a promising diagnostic biomarker and therapeutic target across a range of cancers and related diseases.\n "}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Simon J Furney, Malin Pedersen, David Gentien, et al. "}, {"type": "b", "children": [{"type": "t", "text": "SF3B1 mutations are associated with alternative splicing in uveal melanoma."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Cancer Discov (2013)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1158/2159-8290.CD-13-0330"}], "href": "https://doi.org/10.1158/2159-8290.CD-13-0330"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "23861464"}], "href": "https://pubmed.ncbi.nlm.nih.gov/23861464"}]}, {"type": "r", "ref": 2, "children": [{"type": "t", "text": "Yunliang Wang, Yutong Wang, Jinfeng Li, et al. "}, {"type": "b", "children": [{"type": "t", "text": "CRNDE, a long-noncoding RNA, promotes glioma cell growth and invasion through mTOR signaling."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Cancer Lett (2015)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.canlet.2015.03.027"}], "href": "https://doi.org/10.1016/j.canlet.2015.03.027"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "25813405"}], "href": "https://pubmed.ncbi.nlm.nih.gov/25813405"}]}, {"type": "r", "ref": 3, "children": [{"type": "t", "text": "Blake C Ellis, Lloyd D Graham, Peter L Molloy "}, {"type": "b", "children": [{"type": "t", "text": "CRNDE, a long non-coding RNA responsive to insulin/IGF signaling, regulates genes involved in central metabolism."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Biochim Biophys Acta (2014)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.bbamcr.2013.10.016"}], "href": "https://doi.org/10.1016/j.bbamcr.2013.10.016"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "24184209"}], "href": "https://pubmed.ncbi.nlm.nih.gov/24184209"}]}, {"type": "r", "ref": 4, "children": [{"type": "t", "text": "Yi-Bin Meng, Xin He, Yun-Fei Huang, et al. 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Synonyms NCRNA00180, PNAS-108, CRNDEP, LINC00180, LINCIRX5
NCBI Gene ID 643911
API
Download Associations
Predicted Functions View CRNDE's ARCHS4 Predicted Functions.
Co-expressed Genes View CRNDE's ARCHS4 Predicted Functions.
Expression in Tissues and Cell Lines View CRNDE's ARCHS4 Predicted Functions.

Functional Associations

CRNDE has 1,743 functional associations with biological entities spanning 7 categories (molecular profile, organism, functional term, phrase or reference, chemical, disease, phenotype or trait, cell line, cell type or tissue, gene, protein or microRNA) extracted from 28 datasets.

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

If available, associations are ranked by standardized value

Dataset Summary
Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles tissues with high or low expression of CRNDE gene relative to other tissues from the Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles dataset.
Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles tissues with high or low expression of CRNDE gene relative to other tissues from the Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles dataset.
CCLE Cell Line Gene CNV Profiles cell lines with high or low copy number of CRNDE 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 CRNDE gene relative to other cell lines from the CCLE Cell Line Gene Expression Profiles dataset.
CellMarker Gene-Cell Type Associations cell types associated with CRNDE gene from the CellMarker Gene-Cell Type Associations dataset.
COSMIC Cell Line Gene CNV Profiles cell lines with high or low copy number of CRNDE 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 CRNDE 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 CRNDE gene from the ENCODE Transcription Factor Binding Site Profiles dataset.
ENCODE Transcription Factor Targets transcription factors binding the promoter of CRNDE gene in ChIP-seq datasets from the ENCODE Transcription Factor Targets dataset.
GeneRIF Biological Term Annotations biological terms co-occuring with CRNDE gene in literature-supported statements describing functions of genes from the GeneRIF Biological Term Annotations dataset.
GeneSigDB Published Gene Signatures PubMedIDs of publications reporting gene signatures containing CRNDE from the GeneSigDB Published Gene Signatures dataset.
GEO Signatures of Differentially Expressed Genes for Gene Perturbations gene perturbations changing expression of CRNDE 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 CRNDE gene from the GEO Signatures of Differentially Expressed Genes for Kinase Perturbations dataset.
GEO Signatures of Differentially Expressed Genes for Small Molecules small molecule perturbations changing expression of CRNDE gene from the GEO Signatures of Differentially Expressed Genes for Small Molecules dataset.
GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations transcription factor perturbations changing expression of CRNDE gene from the GEO Signatures of Differentially Expressed Genes for Transcription Factor Perturbations dataset.
GEO Signatures of Differentially Expressed Genes for Viral Infections virus perturbations changing expression of CRNDE gene from the GEO Signatures of Differentially Expressed Genes for Viral Infections dataset.
GTEx Tissue Gene Expression Profiles tissues with high or low expression of CRNDE 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 CRNDE gene relative to other tissue samples from the GTEx Tissue Sample Gene Expression Profiles dataset.
GTEx Tissue-Specific Aging Signatures tissue samples with high or low expression of CRNDE gene relative to other tissue samples from the GTEx Tissue-Specific Aging Signatures dataset.
JASPAR Predicted Transcription Factor Targets transcription factors regulating expression of CRNDE 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 CRNDE gene relative to other cell lines from the Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene CNV Profiles dataset.
Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles cell lines with high or low expression of CRNDE gene relative to other cell lines from the Klijn et al., Nat. Biotechnol., 2015 Cell Line Gene Expression Profiles dataset.
KnockTF Gene Expression Profiles with Transcription Factor Perturbations transcription factor perturbations changing expression of CRNDE gene from the KnockTF Gene Expression Profiles with Transcription Factor Perturbations dataset.
LOCATE Predicted Protein Localization Annotations cellular components predicted to contain CRNDE protein from the LOCATE Predicted Protein Localization Annotations dataset.
MotifMap Predicted Transcription Factor Targets transcription factors regulating expression of CRNDE gene predicted using known transcription factor binding site motifs from the MotifMap Predicted Transcription Factor Targets dataset.
MPO Gene-Phenotype Associations phenotypes of transgenic mice caused by CRNDE gene mutations from the MPO Gene-Phenotype Associations dataset.
Roadmap Epigenomics Cell and Tissue DNA Methylation Profiles cell types and tissues with high or low DNA methylation of CRNDE 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 CRNDE gene from the Roadmap Epigenomics Histone Modification Site Profiles dataset.