Register | Log in | FAQ      [?] 
Recent | Unread | Search | Authors | Tags | Export

marcius's secondary_structure [53 articles]

Recent papers added to marcius's library classified by the tag secondary_structure. You can also see everyone's secondary_structure.
  • RNAbor: a web server for RNA structural neighbors.
    Nucleic Acids Res (25 May 2007)
    by Eva Freyhult, Vincent Moulton, Peter Clote
    posted to rna secondary_structure sequence-structure server by marcius on 2007-06-04 10:14:23 as ** along with 2 people and 2 groups evaf sebastien_vigneau BioinfoCIPF SGU-CIPF
  • Multiple structural alignment and clustering of RNA sequences.
    Bioinformatics (25 February 2007)
    by Elfar Torarinsson, Jakob H H Havgaard, Jan Gorodkin
    posted to clustering rna secondary_structure structure_alignment by marcius on 2007-03-01 12:29:48 as ** along with 7 people and 2 groups eckart_bindewald eweaver ppgardne ilh zwang dunnp zhouyu BioinfoCIPF SGU-CIPF
  • The interaction networks of structured RNAs
    Nucleic Acids Research, Vol. 34, No. 22. (December 2006), pp. 6587-6604.
    by A Lescoute, E Westhof
    posted to interaction rna secondary_structure by marcius on 2007-01-03 13:00:44 as ** along with 6 people and 2 groups austin reyez jennifermbui jarasch debatebob ankur_iitg BioinfoCIPF SGU-CIPF
  • An RNA folding algorithm including pseudoknots based on dynamic weighted matching.
    Comput Biol Chem, Vol. 30, No. 1. (February 2006), pp. 72-76.
    by H Liu, D Xu, J Shao, Y Wang
    posted to algorithms rna secondary_structure by marcius on 2006-11-16 17:44:25 as ** along with 1 person and 2 groups eckart_bindewald BioinfoCIPF SGU-CIPF
  • Mining frequent stem patterns from unaligned RNA sequences.
    Bioinformatics (14 August 2006)
    by Michiaki Hamada, Koji Tsuda, Taku Kudo, Taishin Kin, Kiyoshi Asai
    posted to bioinformatics rna secondary_structure by marcius on 2006-11-01 14:13:15 as ** along with 5 people and 3 groups tardigrade andersbj samal dquest plofje microRNA BioinfoCIPF SGU-CIPF
  • The equilibrium partition function and base pair binding probabilities for RNA secondary structure.
    Biopolymers, Vol. 29, No. 6-7. (n 1990), pp. 1105-1119.
    by JS McCaskill
    posted to algorithms biophysics rna secondary_structure by marcius on 2006-10-20 14:24:37 as ** along with 5 people and 3 groups evaf arcticrasta condon Hosna Kiarostami beta BioinfoCIPF SGU-CIPF
  • Revolutions in RNA Secondary Structure Prediction
    Journal of Molecular Biology, Vol. 359, No. 3. (9 June 2006), pp. 526-532.
    by David H Mathews
    posted to review rna secondary_structure by marcius on 2006-09-06 10:37:25 as ** along with 9 people and 2 groups austin winterschlaefer arcticrasta penka Eonwe cthachuk emidio_capriotti physics maralena BioinfoCIPF SGU-CIPF
  • Secondary Structure Prediction of Interacting RNA Molecules
    Journal of Molecular Biology, Vol. 345, No. 5., pp. 987-1001.
    by Mirela Andronescu, Zhi C Zhang, Anne Condon
    posted to algorithms bioinformatics rna secondary_structure software by marcius on 2006-09-06 10:36:45 as ** along with 4 people and 2 groups eckart_bindewald Hosna cthachuk physics BioinfoCIPF SGU-CIPF
  • A new algorithm for RNA secondary structure design.
    J Mol Biol, Vol. 336, No. 3. (20 February 2004), pp. 607-624.
    by M Andronescu, AP Fejes, F Hutter, HH Hoos, A Condon
    posted to algorithms bioinformatics rna secondary_structure software by marcius on 2006-09-06 10:36:07 as ** along with 5 people and 4 groups eckart_bindewald gane5h cthachuk mgaldzic smallbadguy 18th-century_history_culture_and_society BioinfoCIPF SGU-CIPF CHIP
  • RNAsoft: A suite of RNA secondary structure prediction and design software tools.
    Nucleic Acids Res, Vol. 31, No. 13. (1 July 2003), pp. 3416-3422.
    by M Andronescu, R Aguirre-Hernández, A Condon, HH Hoos
    posted to bioinformatics rna secondary_structure software by marcius on 2006-09-06 10:35:54 as ** along with 6 people and 4 groups eckart_bindewald stsaft Hosna cthachuk mgaldzic stajich BioinfoCIPF SGU-CIPF CHIP Berkeley Mycology
  • Analysis of internal loops within the RNA secondary structure in almost quadratic time
    Bioinformatics, Vol. 22, No. 11. (1 June 2006), pp. 1317-1324.
    by Ogurtsov, Y Aleksey, Shabalina, A Svetlana, Kondrashov, S Alexey, Roytberg, A Mikhail
    posted to algorithms rna secondary_structure by marcius on 2006-09-06 10:35:26 as ** along with 1 person and 2 groups cthachuk BioinfoCIPF SGU-CIPF
  • CONTRAfold: RNA secondary structure prediction without physics-based models.
    Bioinformatics, Vol. 22, No. 14. (15 July 2006)
    by CB Do, DA Woods, S Batzoglou
    posted to algorithms bioinformatics rna secondary_structure statistics by marcius on 2006-08-23 13:19:28 as ** along with 6 people and 3 groups austin balajis tardigrade penka condon acarbo beta BioinfoCIPF SGU-CIPF
  • A bayesian statistical algorithm for RNA secondary structure prediction.
    Comput Chem, Vol. 23, No. 3-4. (15 June 1999), pp. 387-400.
    by Y Ding, CE Lawrence
    posted to bioinformatics rna secondary_structure statistics by marcius on 2006-08-23 13:17:05 as ** along with 3 people and 3 groups eckart_bindewald arcticrasta condon beta BioinfoCIPF SGU-CIPF
  • Combinatorics of RNA secondary structures
    Discrete Appl. Math., Vol. 88, No. 1-3. (1998), pp. 207-237.
    by Ivo L Hofacker, Peter Schuster, Peter F Stadler
    posted to bioinformatics rna secondary_structure by marcius on 2006-07-28 12:38:52 as ** along with 2 people and 2 groups ilh mtw BioinfoCIPF SGU-CIPF
  • From sequences to shapes and back: a case study in RNA secondary structures.
    Proc R Soc Lond B Biol Sci, Vol. 255, No. 1344. (22 March 1994), pp. 279-284.
    by P Schuster, W Fontana, PF Stadler, IL Hofacker
    posted to bioinformatics biophysics rna secondary_structure by marcius on 2006-07-28 12:38:26 as ** along with 3 people and 2 groups evaf ilh mtw BioinfoCIPF SGU-CIPF
  • Overlaps between RNA secondary structures.
    PHYSICAL REVIEW LETTERS, Vol. 76, No. 4. (22 January 1996), pp. 704-707.
    by PG Higgs
    posted to alignment rna secondary_structure by marcius on 2006-07-18 12:24:17 as ** along with 1 person and 3 groups condon beta BioinfoCIPF SGU-CIPF
  • Algorithm independent properties of RNA secondary structure predictions
    European Biophysics Journal, Vol. 25, No. 2. (December 1996), pp. 115-130.
    by Manfred Tacker, Peter F Stadler, Erich G Bornberg-Bauer, Ivo L Hofacker, P Schuster
    posted to bioinformatics rna secondary_structure by marcius on 2006-07-18 10:35:20 as ** along with 2 people and 2 groups ilh mtw BioinfoCIPF SGU-CIPF
  • HotKnots: heuristic prediction of RNA secondary structures including pseudoknots.
    RNA, Vol. 11, No. 10. (October 2005), pp. 1494-1504.
    by J Ren, B Rastegari, A Condon, HH Hoos
    posted to bioinformatics rna secondary_structure by marcius on 2006-07-14 10:38:59 as ** along with 6 people and 3 groups eckart_bindewald arcticrasta condon Hosna jarasch guxiyou beta BioinfoCIPF SGU-CIPF
  • Native secondary structure formation in RNA may be a slave to tertiary folding
    PNAS, Vol. 95, No. 20. (29 September 1998), pp. 11506-11508.
    by D Thirumalai
    posted to rna secondary_structure structure by marcius on 2006-07-13 10:29:29 as ** along with 1 person and 3 groups condon beta BioinfoCIPF SGU-CIPF
  • Predicting RNA secondary structure by free energy minimization
    Theoretical Chemistry Accounts: Theory, Computation, and Modeling (Theoretica Chimica Acta) (May 2006), pp. 1-9.
    by David Mathews
    posted to biophysics review rna secondary_structure by marcius on 2006-05-19 22:16:43 as ** along with 5 people and 3 groups condon Hosna hesam cthachuk apop beta BioinfoCIPF SGU-CIPF
  • Fast evaluation of internal loops in RNA secondary structure prediction
    Bioinformatics, Vol. 15, No. 6. (1 June 1999), pp. 440-445.
    by Rb Lyngso, M Zuker, Cn Pedersen
    posted to biophysics rna secondary_structure by marcius on 2006-05-19 18:29:34 as ** along with 2 people and 3 groups arcticrasta condon beta BioinfoCIPF SGU-CIPF
  • Design, implementation and evaluation of a practical pseudoknot folding algorithm based on thermodynamics.
    BMC Bioinformatics, Vol. 5 (4 August 2004)
    by J Reeder, R Giegerich
    posted to biophysics folding rna secondary_structure by marcius on 2006-05-18 09:02:38 as ** along with 4 people and 3 groups eckart_bindewald arcticrasta condon Hosna beta BioinfoCIPF SGU-CIPF
  • Facilitating RNA structure prediction with microarrays.
    Biochemistry, Vol. 45, No. 2. (17 January 2006), pp. 581-593.
    by E Kierzek, R Kierzek, DH Turner, IE Catrina
    posted to microarray rna secondary_structure structure_prediction by marcius on 2006-05-18 00:58:23 as ** along with 1 person and 3 groups condon beta BioinfoCIPF SGU-CIPF
  • Detection of non-coding RNAs on the basis of predicted secondary structure formation free energy change.
    BMC Bioinformatics, Vol. 7, No. 1. (27 March 2006)
    by Andrew V Uzilov, Joshua M Keegan, David H Mathews
    posted to biophysics ncrna secondary_structure by marcius on 2006-05-18 00:17:28 as ** along with 2 people and 2 groups alexg eckart_bindewald BioinfoCIPF SGU-CIPF
  • RNA secondary structure: physical and computational aspects.
    Q Rev Biophys, Vol. 33, No. 3. (August 2000), pp. 199-253.
    by PG Higgs
    posted to bioinformatics biophysics review rna secondary_structure by marcius on 2006-05-15 22:40:41 as ** along with 2 people and 2 groups arcticrasta penka BioinfoCIPF SGU-CIPF
  • RNA folding causes secondary structure rearrangement.
    Proc Natl Acad Sci U S A, Vol. 95, No. 20. (29 September 1998), pp. 11555-11560.
    by M Wu, I Tinoco
    posted to rna secondary_structure structure by marcius on 2006-05-12 17:51:40 as ** along with 4 people and 3 groups austin condon Hosna apop beta BioinfoCIPF SGU-CIPF
  • RDfolder: a web server for prediction of RNA secondary structure.
    Nucleic Acids Res, Vol. 32, No. Web Server issue. (1 July 2004)
    by X Ying, H Luo, J Luo, W Li
    posted to bioinformatics folding rna secondary_structure servers by marcius on 2006-05-09 19:20:02 as ** along with 1 person and 2 groups arcticrasta BioinfoCIPF SGU-CIPF
  • Memory efficient folding algorithms for circular RNA secondary structures
    Bioinformatics, Vol. 22, No. 10. (15 May 2006), pp. 1172-1176.
    by Ivo L Hofacker, Peter F Stadler
    posted to algorithms bioinformatics folding programming rna secondary_structure by marcius on 2006-05-09 03:57:20 as ** along with 1 person and 2 groups ilh BioinfoCIPF SGU-CIPF
  • RNALOSS: a web server for RNA locally optimal secondary structures.
    Nucleic Acids Res, Vol. 33, No. Web Server issue. (1 July 2005)
    by P Clote
    posted to bioinformatics biophysics databases secondary_structure servers by marcius on 2006-05-05 23:27:04 as ** along with 2 people and 3 groups arcticrasta condon beta BioinfoCIPF SGU-CIPF
  • Statistical and Bayesian approaches to RNA secondary structure prediction.
    RNA, Vol. 12, No. 3. (March 2006), pp. 323-331.
    by Y Ding
    posted to bioinformatics rna secondary_structure statistics by marcius on 2006-05-03 23:28:27 as ** along with 6 people and 3 groups arcticrasta penka condon Hosna physics Kiarostami beta BioinfoCIPF SGU-CIPF
  • Complete suboptimal folding of RNA and the stability of secondary structures.
    Biopolymers, Vol. 49, No. 2. (February 1999), pp. 145-165.
    by S Wuchty, W Fontana, IL Hofacker, P Schuster
    posted to biophysics folding rna secondary_structure by marcius on 2006-04-30 01:11:30 as ** along with 3 people and 2 groups eckart_bindewald arcticrasta ilh BioinfoCIPF SGU-CIPF
  • PseudoBase: a database with RNA pseudoknots
    Nucl. Acids Res., Vol. 28, No. 1. (1 January 2000), pp. 201-204.
    by FHD van Batenburg, AP Gultyaev, CWA Pleij, J Ng, J Oliehoek
    posted to databases rna secondary_structure by marcius on 2006-04-26 19:18:52 as ** along with 3 people and 3 groups arcticrasta condon Hosna beta BioinfoCIPF SGU-CIPF
  • Calculating nucleic acid secondary structure.
    Curr Opin Struct Biol, Vol. 10, No. 3. (June 2000), pp. 303-310.
    by M Zuker
    posted to bioinformatics dna rna secondary_structure by marcius on 2006-04-26 19:17:58 as ** along with 2 people and 2 groups arcticrasta penka BioinfoCIPF SGU-CIPF
  • Identification and Classification of Conserved RNA Secondary Structures in the Human Genome.
    PLoS Comput Biol, Vol. 2, No. 4. (21 April 2006)
    by Jakob Skou S Pedersen, Gill Bejerano, Adam Siepel, Kate Rosenbloom, Kerstin Lindblad-Toh, Eric S S Lander, Jim Kent, Webb Miller, David Haussler
    posted to bioinformatics genome rna secondary_structure by marcius on 2006-04-24 19:45:10 as ** along with 11 people and 2 groups hpaces eckart_bindewald tardigrade arcticrasta tabu mtagaya Eonwe ilh djkt raylim tale BioinfoCIPF SGU-CIPF
  • Prediction and statistics of pseudoknots in RNA structures using exactly clustered stochastic simulations.
    Proc Natl Acad Sci U S A, Vol. 100, No. 26. (23 December 2003), pp. 15310-15315.
    by A Xayaphoummine, T Bucher, F Thalmann, H Isambert
    posted to bioinformatics rna secondary_structure structure by marcius on 2006-04-21 22:12:59 as ** along with 6 people and 3 groups evaf austin arcticrasta condon Hosna Kiarostami beta BioinfoCIPF SGU-CIPF
  • Consensus shapes: an alternative to the Sankoff algorithm for RNA consensus structure prediction.
    Bioinformatics, Vol. 21, No. 17. (1 September 2005), pp. 3516-3523.
    by J Reeder, R Giegerich
    posted to bioinformatics biophysics rna secondary_structure by marcius on 2006-04-19 10:55:07 as ** along with 2 people and 3 groups andersbj arcticrasta microRNA BioinfoCIPF SGU-CIPF
  • Comparison of P-RnaPredict and mfoldalgorithms for RNA secondary structure prediction
    Bioinformatics, Vol. 22, No. 8. (15 April 2006), pp. 934-942.
    by Kay C Wiese, Andrew Hendriks
    posted to bioinformatics biophysics rna secondary_structure by marcius on 2006-04-08 00:08:21 as ** along with 2 groups BioinfoCIPF SGU-CIPF
  • Secondary structure alone is generally not statistically significant for the detection of noncoding RNAs.
    Bioinformatics, Vol. 16, No. 7. (July 2000), pp. 583-605.
    by E Rivas, SR Eddy
    posted to bioinformatics rna secondary_structure by marcius on 2006-04-03 19:50:24 as ** along with 9 people and 3 groups evaf eckart_bindewald eweaver andersbj arcticrasta mtagaya dquest Eonwe ilh microRNA BioinfoCIPF SGU-CIPF
  • RNAshapes: an integrated RNA analysis package based on abstract shapes
    Bioinformatics, Vol. 22, No. 4. (15 February 2006), pp. 500-503.
    by Peter Steffen, Bjorn Vosharp, Marc Rehmsmeier, Jens Reeder, Robert Giegerich
    posted to bioinformatics computational_biology rna secondary_structure by marcius on 2006-02-16 18:13:15 as ** along with 2 people and 2 groups penka Hosna BioinfoCIPF SGU-CIPF
  • Comparison of P-RnaPredict and mfold - algorithms for RNA secondary structure prediction.
    Bioinformatics (10 February 2006)
    by Kay C C Wiese, Andrew Hendriks
    posted to bioinformatics rna secondary_structure by marcius on 2006-02-15 23:51:55 as ** along with 1 person and 2 groups eckart_bindewald BioinfoCIPF SGU-CIPF
  • Prediction in 1D: secondary structure, membrane helices, and accessibility.
    Methods Biochem Anal, Vol. 44 (2003), pp. 559-587.
    by B Rost
    posted to bioinformatics review secondary_structure by marcius on 2006-01-13 23:56:38 as ** along with 1 person and 2 groups penka BioinfoCIPF SGU-CIPF
  • RNA structure comparison, motif search and discovery using a reduced representation of RNA conformational space.
    Nucleic Acids Res, Vol. 31, No. 16. (15 August 2003), pp. 4755-4761.
    by CM Duarte, LM Wadley, AM Pyle
    posted to rna secondary_structure sequence_alignment by marcius on 2005-12-28 11:43:12 as ** along with 3 people and 3 groups j3xucite condon emidio_capriotti beta BioinfoCIPF SGU-CIPF
  • The non-Watson-Crick base pairs and their associated isostericity matrices.
    Nucleic Acids Res, Vol. 30, No. 16. (15 August 2002), pp. 3497-3531.
    by NB Leontis, J Stombaugh, E Westhof
    posted to rna secondary_structure by marcius on 2005-12-28 11:40:57 as ** along with 3 people and 2 groups dquest jarasch rsandie BioinfoCIPF SGU-CIPF
  • The accuracy of ribosomal RNA comparative structure models.
    Curr Opin Struct Biol, Vol. 12, No. 3. (June 2002), pp. 301-310.
    by RR Gutell, JC Lee, JJ Cannone
    posted to ribosome rna secondary_structure structure by marcius on 2005-12-28 10:57:15 as ** along with 1 person and 2 groups arcticrasta BioinfoCIPF SGU-CIPF
  • Diversity of base-pair conformations and their occurrence in rRNA structure and RNA structural motifs.
    J Mol Biol, Vol. 344, No. 5. (10 December 2004), pp. 1225-1249.
    by JC Lee, RR Gutell
    posted to biophysics rna secondary_structure by marcius on 2005-12-28 10:55:07 as ** along with 2 groups BioinfoCIPF SGU-CIPF
  • Recurrent structural RNA motifs, Isostericity Matrices and sequence alignments.
    Nucleic Acids Res, Vol. 33, No. 8. (2005), pp. 2395-2409.
    by A Lescoute, NB Leontis, C Massire, E Westhof
    posted to rna secondary_structure sequence_alignment structure by marcius on 2005-12-22 22:54:59 as ** along with 3 people and 2 groups reyez jarasch debatebob BioinfoCIPF SGU-CIPF
  • Sequence to Structure (S2S): display, manipulate and interconnect RNA data from sequence to structure.
    Bioinformatics, Vol. 21, No. 15. (1 August 2005), pp. 3320-3321.
    by F Jossinet, E Westhof
    posted to rna secondary_structure sequence software structure by marcius on 2005-12-22 22:53:42 as ** along with 1 person and 2 groups eckart_bindewald BioinfoCIPF SGU-CIPF
  • RNAlign program: alignment of RNA sequences using both primary and secondary structures.
    Comput Appl Biosci, Vol. 10, No. 4. (July 1994), pp. 389-399.
    by F Corpet, B Michot
    posted to algorithms rna secondary_structure by marcius on 2005-12-21 19:29:25 as ** along with 1 person and 2 groups evaf BioinfoCIPF SGU-CIPF
  • RSEARCH: finding homologs of single structured RNA sequences.
    BMC Bioinformatics, Vol. 4 (22 September 2003)
    by RJ Klein, SR Eddy
    posted to bioinformatics rna secondary_structure structure by marcius on 2005-12-21 19:29:00 as ** along with 1 person and 2 groups arcticrasta BioinfoCIPF SGU-CIPF
  • A memory-efficient dynamic programming algorithm for optimal alignment of a sequence to an RNA secondary structure.
    BMC Bioinformatics, Vol. 3, No. 1. (2 July 2002)
    by SR Eddy
    posted to bioinformatics rna secondary_structure by marcius on 2005-12-21 19:15:20 as ** along with 3 people and 3 groups evaf mtagaya vwchan beta BioinfoCIPF SGU-CIPF
    • Note: You may cite this page as: http://www.citeulike.org/user/marcius/tag/secondary_structure

    Result page: 1 2 Next RIS BibTeX
    CiteULike organises scholarly (or academic) papers or literature and provides bibliographic (which means it makes bibliographies) for universities and higher education establishments. It helps undergraduates and postgraduates. People studying for PhDs or in postdoctoral (postdoc) positions. The service is similar in scope to EndNote or RefWorks or any other reference manager like BibTeX, but it is a social bookmarking service for scientists and humanities researchers.