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  A new entropy model for RNA: part II. Persistence-related entropic contributions to RNA secondary structure free energy calculations

  Wayne Dawson, Kenji Yamamoto, Kentaro Shimizu, Gota Kawai

  15-03-2013

  https://doi.org/10.4081/jnai.2651

  4315

  PDF: 895

  APPENDIX: 345
• 

  A new entropy model for RNA: part I. A critique of the standard Jacobson-Stockmayer model applied to multiple cross links

  Wayne Dawson, Kenji Yamamoto, Gota Kawai

  24-07-2012

  https://doi.org/10.4081/jnai.2650

  4991

  PDF: 857

  APPENDICES: 141
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  A new entropy model for RNA: part III. Is the folding free energy landscape of RNA funnel shaped?

  Wayne Dawson, Toshikuni Takai, Nobuharu Ito, Kentaro Shimizu, Gota Kawai

  03-11-2014

  https://doi.org/10.4081/jnai.2652

  5363

  PDF: 1190
• 

  A new entropy model for RNA: part V, Incorporating the Flory-Huggins model in structure prediction and folding

  Wayne Dawson, Gota Kawai

  13-07-2015

  https://doi.org/10.4081/jnai.2657

  2058

  PDF: 1633
• 

  A new entropy model for RNA: part IV, The Minimum Free Energy (mFE) and the thermodynamically most-probable folding pathway (TMPFP)

  Wayne Dawson, Gota Kawai

  13-07-2015

  https://doi.org/10.4081/jnai.2653

  2034

  PDF: 994

  Supplement S2: Methods: the vsfold5 algorithm: 186

  Prediction of RNA Pseudoknots Using Heuristic Modeling with Mapping and Sequential Folding: 235