Identification of long non-coding RNA using single nucleotide epimutation analysis: a novel gene discovery approach
Abstract Background Long non-coding RNAs (lncRNAs) are involved in a variety of mechanisms related to tumorigenesis by functioning as oncogenes or tumor-suppressors or even harboring oncogenic and tumor-suppressing effects; representing a new class of cancer biomarkers and therapeutic targets. It is...
| Main Authors: | , |
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| Format: | Article |
| Language: | English |
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BMC
2022-11-01
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| Series: | Cancer Cell International |
| Subjects: | |
| Online Access: | https://doi.org/10.1186/s12935-022-02752-2 |
| _version_ | 1811223475159826432 |
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| author | Mohammad Amin Kerachian Marjan Azghandi |
| author_facet | Mohammad Amin Kerachian Marjan Azghandi |
| author_sort | Mohammad Amin Kerachian |
| collection | DOAJ |
| description | Abstract Background Long non-coding RNAs (lncRNAs) are involved in a variety of mechanisms related to tumorigenesis by functioning as oncogenes or tumor-suppressors or even harboring oncogenic and tumor-suppressing effects; representing a new class of cancer biomarkers and therapeutic targets. It is predicted that more than 35,000 ncRNA especially lncRNA are positioned at the intergenic regions of the human genome. Emerging research indicates that one of the key pathways controlling lncRNA expression and tissue specificity is epigenetic regulation. Methods In the current article, a novel approach for lncRNA discovery based on the intergenic position of most lncRNAs and a single CpG site methylation level representing epigenetic characteristics has been suggested. Results Using this method, a novel antisense lncRNA named LINC02892 presenting three transcripts without the capacity of coding a protein was found exhibiting nuclear, cytoplasmic, and exosome distributions. Conclusion The current discovery strategy could be applied to identify novel non-coding RNAs influenced by methylation aberrations. |
| first_indexed | 2024-04-12T08:34:42Z |
| format | Article |
| id | doaj.art-e9273966d4734811bebb85b858b87272 |
| institution | Directory Open Access Journal |
| issn | 1475-2867 |
| language | English |
| last_indexed | 2024-04-12T08:34:42Z |
| publishDate | 2022-11-01 |
| publisher | BMC |
| record_format | Article |
| series | Cancer Cell International |
| spelling | doaj.art-e9273966d4734811bebb85b858b872722022-12-22T03:40:04ZengBMCCancer Cell International1475-28672022-11-012211910.1186/s12935-022-02752-2Identification of long non-coding RNA using single nucleotide epimutation analysis: a novel gene discovery approachMohammad Amin Kerachian0Marjan Azghandi1Medical Genetics Research Center, Mashhad University of Medical SciencesCancer Genetics Research Unit, Reza Radiotherapy and Oncology CenterAbstract Background Long non-coding RNAs (lncRNAs) are involved in a variety of mechanisms related to tumorigenesis by functioning as oncogenes or tumor-suppressors or even harboring oncogenic and tumor-suppressing effects; representing a new class of cancer biomarkers and therapeutic targets. It is predicted that more than 35,000 ncRNA especially lncRNA are positioned at the intergenic regions of the human genome. Emerging research indicates that one of the key pathways controlling lncRNA expression and tissue specificity is epigenetic regulation. Methods In the current article, a novel approach for lncRNA discovery based on the intergenic position of most lncRNAs and a single CpG site methylation level representing epigenetic characteristics has been suggested. Results Using this method, a novel antisense lncRNA named LINC02892 presenting three transcripts without the capacity of coding a protein was found exhibiting nuclear, cytoplasmic, and exosome distributions. Conclusion The current discovery strategy could be applied to identify novel non-coding RNAs influenced by methylation aberrations.https://doi.org/10.1186/s12935-022-02752-2Long non-coding RNAEpigeneticLINC02892ExosomeIntergenicDiscovery |
| spellingShingle | Mohammad Amin Kerachian Marjan Azghandi Identification of long non-coding RNA using single nucleotide epimutation analysis: a novel gene discovery approach Cancer Cell International Long non-coding RNA Epigenetic LINC02892 Exosome Intergenic Discovery |
| title | Identification of long non-coding RNA using single nucleotide epimutation analysis: a novel gene discovery approach |
| title_full | Identification of long non-coding RNA using single nucleotide epimutation analysis: a novel gene discovery approach |
| title_fullStr | Identification of long non-coding RNA using single nucleotide epimutation analysis: a novel gene discovery approach |
| title_full_unstemmed | Identification of long non-coding RNA using single nucleotide epimutation analysis: a novel gene discovery approach |
| title_short | Identification of long non-coding RNA using single nucleotide epimutation analysis: a novel gene discovery approach |
| title_sort | identification of long non coding rna using single nucleotide epimutation analysis a novel gene discovery approach |
| topic | Long non-coding RNA Epigenetic LINC02892 Exosome Intergenic Discovery |
| url | https://doi.org/10.1186/s12935-022-02752-2 |
| work_keys_str_mv | AT mohammadaminkerachian identificationoflongnoncodingrnausingsinglenucleotideepimutationanalysisanovelgenediscoveryapproach AT marjanazghandi identificationoflongnoncodingrnausingsinglenucleotideepimutationanalysisanovelgenediscoveryapproach |