A sequential folding model predicts length-independent secondary structure properties of long ssRNA

Journal of Physical Chemistry B

Volumn 115, Issue 12, 2011, Pages 3193-3199

  Fang, Li Tai ^a   Yoffe, Aron M ^b   Gelbart, William M ^b   Ben Shaul, Avinoam ^a  

^a HEBREW UNIVERSITY OF JERUSALEM   (Israel)

^b UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

NUCLEIC ACIDS; RNA;

APPROXIMATE ANALYTICAL SOLUTIONS; LOOP SIZE; NUMERICAL SOLUTION; POWER LAW; RNA MOLECULES; RNA SECONDARY STRUCTURES; SECONDARY STRUCTURES; SEQUENCE LENGTHS;

MOLECULES;

EID: 79953054636     PISSN: 15206106     EISSN: 15205207     Source Type: Journal    
DOI: 10.1021/jp110680e     Document Type: Article

References (22)

1. Capriotti, E.; Marti-Renom, M. A. Curr. Bioinf. 2008, 3, 32
2. Onoa, B.; Tinoco, I. Curr. Opin. Struct. Biol. 2004, 14, 374
3. Deigan, K. E.; Li, T. W.; Mathews, D. H.; Weeks, K. M. Proc. Natl. Acad. Sci. U.S.A. 2009, 106, 97
4. Lilley, D. M. J. Biopolymers 1998, 48, 101
5. Bundschuh, R.; Hwa, T. Phys. Rev. E 2002, 65, 031903
6. Holbrook, S. R. Ann. Rev. Biophys. 2008, 37, 445
7. Thirumalai, D; C. Hyeon, C. Biochemistry 2005, 44, 4957
8. Mathews, D. H. RNA 2004, 10, 1178
9. Zuker, M. Nucleic Acids Res. 2003, 31, 3406
10. Hofacker, I. L.; Fontana, W.; Stadler, P. F.; Bonhoeffer, L. S.; Tacker, M.; Schuster, P. Monatsh. Chem. 1994, 125, 167
11. Hofacker, I. L.; Schuster, P.; Stadler, P. F. Discr. Appl. Math. 1998, 88, 207
12. Nussinov, R.; Jacobson, A. B. Proc. Natl. Acad. Sci. U.S.A. 1980, 77, 6309
13. Müller, M. Phys. Rev. E 2003, 67, 021914
14. de Gennes, P. G. Biopolymers 1968, 6, 715
15. Clote, P.; Kranakis, E.; Krizanc, D.; Stacho, L. Discr. Appl. Math. 2007, 155, 759
16. Nussinov, R.; G. Pieczenik, J. R.; Griggs, R.; Kleitman, D. J. SIAM J. Appl. Math. 1978, 35, 68
17. Yoffe, A. M.; Prinsen, P.; Gopal, A.; Knobler, C. M.; Gelbart, W. M.; Ben-Shaul, A. Proc. Natl. Acad. Sci. U.S.A. 2008, 105, 16153
18. David, F.; Hagendorf, C.; Wiese, K. J. J. Stat. Mech. 2008, P04008
19. Mathews, D. H.; Sabina, J.; Zuker, M.; Turner, D. H. J. Mol. Biol. 1999, 288, 911
20. Yoffe, A. M.; Prinsen, P.; Gelbart, W. M.; Ben-Shaul, A. Nucleic Acids Res. 2011, 39, 292.
21. Klopper, A. V.; Bois, J. S.; Grill, S. W. Phys. Rev. E 2010, 81, 030904(R).
22. Wuchty, S.; Fontana, W.; Hofacker, I. L.; Schuster, P. Biopolymers 1999, 49, 145