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A Dataset Curated for the Assessment of G4s in the LncRNAs Dysregulated in Various Human Cancers
Shubham Sharma1, Muhammad Yusuf Hassan2,3, Noman Hanif Barbhuiya4
1Department of Biological Sciences and Engineering, Indian Institute of Technology Gandhinagar, Gandhinagar, Gujarat, 382055, India.
Abstract:
Dysregulated expression of long non-coding RNAs (lncRNAs) in cancer contributes to various hallmarks of the disease, presenting novel opportunities for diagnosis and therapy. G-quadruplexes (G4s) within lncRNAs have gained attention recently; however, their systematic evaluation in cancer biology is yet to be performed. In this work, we have formulated a comprehensive dataset integrating experimentally-validated associations between lncRNAs and cancer, and detailed predictions of their G4-forming potential. The dataset categorizes predicted G4-motifs into anticipated G4 types (2 G, 3 G, and 4 G) and provides information about the subcellular localization of the corresponding lncRNAs. It describes lncRNA-RNA and lncRNA-protein interactions, together with the RNA G4-binding capabilities of these proteins. The dataset facilitates the investigation of G4-mediated lncRNA functions in diverse human cancers and provides distinctive leads about G4-mediated lncRNA-protein interactions.
Insights
This study introduces a dataset linking long non-coding RNAs (lncRNAs) and cancer, detailing their G-quadruplex (G4) forming potential. This resource aids research into G4-mediated lncRNA functions and interactions in cancer.
Area of Science:
- Oncology
- Molecular Biology
- Bioinformatics
Background:
- Long non-coding RNAs (lncRNAs) play a role in cancer development.
- G-quadruplexes (G4s) in lncRNAs are increasingly recognized for their biological significance.
- Systematic evaluation of G4s in cancer-associated lncRNAs is lacking.
Purpose of the Study:
- To create a comprehensive dataset of lncRNAs, their cancer associations, and predicted G4-forming potential.
- To facilitate the investigation of G4-mediated lncRNA functions in human cancers.
- To explore G4-mediated lncRNA-protein interactions.
Main Methods:
- Integration of experimentally-validated lncRNA-cancer associations.
- Computational prediction of G4-motifs within lncRNAs.
- Categorization of G4 types (2G, 3G, 4G) and assessment of subcellular localization.
- Inclusion of lncRNA-RNA and lncRNA-protein interaction data, and RNA G4-binding protein information.
Main Results:
- A curated dataset linking lncRNAs, cancer relevance, and G4 potential.
- Detailed classification of predicted G4 motifs and lncRNA localization.
- Information on lncRNA interactions and G4-binding protein capabilities.
Conclusions:
- The dataset serves as a valuable resource for studying G4-mediated lncRNA functions in cancer.
- Provides insights into lncRNA-protein interactions driven by G4 structures.
- Opens new avenues for cancer diagnosis and therapy targeting lncRNA G4s.
