{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Genna V"],"funding":["European Molecular Biology Organization","Juan De La Cierva Fellowship","European Research Council","H2020 BioExcel Center of Excellence","MINECO Severo Ochoa Award of Excellence","Biomolecular and Bioinformatics Resources Platform","Spanish Ministry of Science"],"pagination":["gkaf170"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC11897885"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["53(5)"],"pubmed_abstract":["By combining in silico, biophysical, and in vitro experiments, we decipher the topology, physical, and potential biological properties of hybrid-parallel nucleic acids triplexes, an elusive structure at the basis of life. We found that hybrid triplex topology follows a stability order: r(Py)-d(Pu)·r(Py) > r(Py)-d(Pu)·d(Py) > d(Py)-d(Pu)·d(Py) > d(Py)-d(Pu)·r(Py). The r(Py)-d(Pu)·d(Py) triplex is expected to be preferred in the cell as it avoids the need to open the duplex reducing the torsional stress required for triplex formation in the r(Py)-d(Pu)·r(Py) topology. Upon a massive collection of melting data, we have created the first predictor for hybrid triplex stability. Leveraging this predictor, we conducted a comprehensive scan to assess the likelihood of the human genome and transcri"],"journal":["Nucleic acids research"],"pubmed_title":["Systematic study of hybrid triplex topology and stability suggests a general triplex-mediated regulatory mechanism."],"pmcid":["PMC11897885"],"funding_grant_id":["ALTF 103-2018","RTI2018-096704-B-100","IJC2019-040468-I/25A04100"],"pubmed_authors":["Castellazzi C","Villegas N","Brun-Heath I","Labrador M","Gandioso A","Hospital A","Genna V","Mateo L","Sala A","Portella G","Aloy P","Orozco M","Gonzalez J","Terrazas M","Eritja R","Avino A","Serrano-Chacon I","Gonzalez C"],"additional_accession":[]},"is_claimable":false,"name":"Systematic study of hybrid triplex topology and stability suggests a general triplex-mediated regulatory mechanism.","description":"By combining in silico, biophysical, and in vitro experiments, we decipher the topology, physical, and potential biological properties of hybrid-parallel nucleic acids triplexes, an elusive structure at the basis of life. We found that hybrid triplex topology follows a stability order: r(Py)-d(Pu)·r(Py) > r(Py)-d(Pu)·d(Py) > d(Py)-d(Pu)·d(Py) > d(Py)-d(Pu)·r(Py). The r(Py)-d(Pu)·d(Py) triplex is expected to be preferred in the cell as it avoids the need to open the duplex reducing the torsional stress required for triplex formation in the r(Py)-d(Pu)·r(Py) topology. Upon a massive collection of melting data, we have created the first predictor for hybrid triplex stability. Leveraging this predictor, we conducted a comprehensive scan to assess the likelihood of the human genome and transcri","dates":{"release":"2025-01-01T00:00:00Z","publication":"2025 Feb","modification":"2026-04-18T03:20:02.157Z","creation":"2025-04-04T01:29:16.694Z"},"accession":"S-EPMC11897885","cross_references":{"pubmed":["40071936"],"doi":["10.1093/nar/gkaf170"]}}