1. JMB Special Issues on Computational Biology

   Letter from the Editors 14 November 2007 Pages: 1 - 1

2. Introduction to special issue on RNA

   • Peter Clote

   OriginalPaper 16 October 2007 Pages: 3 - 13

3. Computational methods in noncoding RNA research

   • Ariane Machado-Lima
   • Hernando A. del Portillo
   • Alan Mitchell Durham

   OriginalPaper 04 September 2007 Pages: 15 - 49

4. Multiple pattern matching: a Markov chain approach

   • Manuel E. Lladser
   • M. D. Betterton
   • Rob Knight

   OriginalPaper 01 August 2007 Pages: 51 - 92

5. Boltzmann ensemble features of RNA secondary structures: a comparative analysis of biological RNA sequences and random shuffles

   • Chi Yu Chan
   • Ye Ding

   OriginalPaper 02 October 2007 Pages: 93 - 105

6. Efficient sampling of RNA secondary structures from the Boltzmann ensemble of low-energy

   • Yann Ponty

   OriginalPaper 12 October 2007 Pages: 107 - 127

7. Variations on RNA folding and alignment: lessons from Benasque

   • Athanasius F. Bompfünewerer
   • Rolf Backofen
   • Sebastian Will

   OriginalPaper 05 July 2007 Pages: 129 - 144

8. Rapid ab initio prediction of RNA pseudoknots via graph tree decomposition

   • Jizhen Zhao
   • Russell L. Malmberg
   • Liming Cai

   OriginalPaper 29 September 2007 Pages: 145 - 159

9. Predicting RNA secondary structures with pseudoknots by MCMC sampling

   • Dirk Metzler
   • Markus E. Nebel

   OriginalPaper 23 June 2007 Pages: 161 - 181

10. Prediction of small, noncoding RNAs in bacteria using heterogeneous data

    • Brian Tjaden

    OriginalPaper 13 March 2007 Pages: 183 - 200

11. PSSMTS: position specific scoring matrices on tree structures

    • Kengo Sato
    • Kensuke Morita
    • Yasubumi Sakakibara

    OriginalPaper 07 July 2007 Pages: 201 - 214

12. FR3D: finding local and composite recurrent structural motifs in RNA 3D structures

    • Michael Sarver
    • Craig L. Zirbel
    • Neocles B. Leontis

    OriginalPaper 11 August 2007 Pages: 215 - 252

13. RNABC: forward kinematics to reduce all-atom steric clashes in RNA backbone

    • Xueyi Wang
    • Gary Kapral
    • Jack Snoeyink

    OriginalPaper 31 March 2007 Pages: 253 - 278