MeltR software provides facile determination of nucleic acid thermodynamics
Thermodenaturation (melting) curves of macromolecules are used to determine folding thermodynamic parameters. Notably, this insight into RNA and DNA stability underlies nearest neighbor theory and diverse structure prediction tools. Analysis of UV-detected absorbance melting curves is complex and mu...
| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
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Elsevier
2023-06-01
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| Series: | Biophysical Reports |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2667074723000022 |
| _version_ | 1797862085482250240 |
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| author | Jacob P. Sieg Sebastian J. Arteaga Brent M. Znosko Philip C. Bevilacqua |
| author_facet | Jacob P. Sieg Sebastian J. Arteaga Brent M. Znosko Philip C. Bevilacqua |
| author_sort | Jacob P. Sieg |
| collection | DOAJ |
| description | Thermodenaturation (melting) curves of macromolecules are used to determine folding thermodynamic parameters. Notably, this insight into RNA and DNA stability underlies nearest neighbor theory and diverse structure prediction tools. Analysis of UV-detected absorbance melting curves is complex and multivariate, requiring many data preprocessing, regression, and error analysis steps. The absorbance melting curve-fitting software MeltWin, introduced in 1996, provided a consistent and facile melting curve analysis platform used in a generation of folding parameters. Unfortunately, MeltWin software is not maintained and relies on idiosyncratic choices of baselines by the user. Herein, we provide MeltR, an open-source, curve-fitting package for analysis of macromolecular thermodynamic data. The MeltR package provides the facile conversion of melting curve data to parameters provided by MeltWin while offering additional features including global fitting of data, auto-baseline generation, and two-state melting analysis. MeltR should be a useful tool for analyzing the next generation of DNA, RNA, and nonnucleic acid macromolecular melting data. |
| first_indexed | 2024-04-09T22:14:45Z |
| format | Article |
| id | doaj.art-211497c95cf4427fadc72108e47e447e |
| institution | Directory Open Access Journal |
| issn | 2667-0747 |
| language | English |
| last_indexed | 2024-04-09T22:14:45Z |
| publishDate | 2023-06-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Biophysical Reports |
| spelling | doaj.art-211497c95cf4427fadc72108e47e447e2023-03-23T04:37:21ZengElsevierBiophysical Reports2667-07472023-06-0132100101MeltR software provides facile determination of nucleic acid thermodynamicsJacob P. Sieg0Sebastian J. Arteaga1Brent M. Znosko2Philip C. Bevilacqua3Department of Chemistry, Pennsylvania State University, University Park, Pennsylvania; Center for RNA Molecular Biology, Pennsylvania State University, University Park, Pennsylvania; Corresponding authorDepartment of Chemistry, Saint Louis University, Saint Louis, MissouriDepartment of Chemistry, Saint Louis University, Saint Louis, MissouriDepartment of Chemistry, Pennsylvania State University, University Park, Pennsylvania; Center for RNA Molecular Biology, Pennsylvania State University, University Park, Pennsylvania; Department of Biochemistry and Molecular Biology, Pennsylvania State University, University Park, Pennsylvania; Corresponding authorThermodenaturation (melting) curves of macromolecules are used to determine folding thermodynamic parameters. Notably, this insight into RNA and DNA stability underlies nearest neighbor theory and diverse structure prediction tools. Analysis of UV-detected absorbance melting curves is complex and multivariate, requiring many data preprocessing, regression, and error analysis steps. The absorbance melting curve-fitting software MeltWin, introduced in 1996, provided a consistent and facile melting curve analysis platform used in a generation of folding parameters. Unfortunately, MeltWin software is not maintained and relies on idiosyncratic choices of baselines by the user. Herein, we provide MeltR, an open-source, curve-fitting package for analysis of macromolecular thermodynamic data. The MeltR package provides the facile conversion of melting curve data to parameters provided by MeltWin while offering additional features including global fitting of data, auto-baseline generation, and two-state melting analysis. MeltR should be a useful tool for analyzing the next generation of DNA, RNA, and nonnucleic acid macromolecular melting data.http://www.sciencedirect.com/science/article/pii/S2667074723000022 |
| spellingShingle | Jacob P. Sieg Sebastian J. Arteaga Brent M. Znosko Philip C. Bevilacqua MeltR software provides facile determination of nucleic acid thermodynamics Biophysical Reports |
| title | MeltR software provides facile determination of nucleic acid thermodynamics |
| title_full | MeltR software provides facile determination of nucleic acid thermodynamics |
| title_fullStr | MeltR software provides facile determination of nucleic acid thermodynamics |
| title_full_unstemmed | MeltR software provides facile determination of nucleic acid thermodynamics |
| title_short | MeltR software provides facile determination of nucleic acid thermodynamics |
| title_sort | meltr software provides facile determination of nucleic acid thermodynamics |
| url | http://www.sciencedirect.com/science/article/pii/S2667074723000022 |
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