physics's library 46 articles Export

	RNA biophysics has come of age [My Copy] Biopolymers, Vol. 91, No. 10. (2009), pp. 811-814. by Olke C. Uhlenbeck posted to rna biophysics by physics on 2009-08-11 20:32:44 as along with 1 person carlosjavierna
	A Probabilistic Model of RNA Conformational Space [My Copy] PLoS Comput Biol, Vol. 5, No. 6. (19 June 2009), e1000406. by Jes Frellsen, Ida Moltke, Martin Thiim, Kanti V. Mardia, Jesper Ferkinghoff-Borg, Thomas Hamelryck posted to structure prediction by physics on 2009-08-11 16:24:01 as along with 4 people and 1 group phoenixzxl kshameer ppgardne Diego_Prada Journal picks
	Architecture and secondary structure of an entire HIV-1 RNA genome. [My Copy] Nature, Vol. 460, No. 7256. (6 August 2009), pp. 711-716. by Joseph M. Watts, Kristen K. Dang, Robert J. Gorelick, et al.Christopher W. Leonard, Julian W. Bess, Ronald Swanstrom, Christina L. Burch, Kevin M. Weeks posted to experiment nmr rna by physics on 2009-08-11 04:23:09 as along with 7 people and 2 groups samgj jago operon wsjames memerman djkt jbhiatt Oxford Virology Journal picks
	Triplex structures in an RNA pseudoknot enhance mechanical stability and increase efficiency of -1 ribosomal frameshifting. [My Copy] Proceedings of the National Academy of Sciences of the United States of America (23 July 2009) by Gang Chen, Kung-Yao Y. Chang, Ming-Yuan Y. Chou, Carlos Bustamante, Ignacio Tinoco posted to frameshifting rna by physics on 2009-08-11 04:17:26 as along with 1 person alexknight
	Predicting structures and stabilities for H-type pseudoknots with interhelix loops [My Copy] RNA, Vol. 15, No. 4. (April 2009), pp. 696-706. by Song Cao, Shi-Jie Chen posted to prediction rna thermodynamics by physics on 2009-07-19 04:04:02 as
	A New Computational Approach for Mechanical Folding Kinetics of RNA Hairpins [My Copy] Biophysical Journal, Vol. 96, No. 10. (20 May 2009), pp. 4024-4034. by Song Cao, Shi-Jie Chen posted to kinetics by physics on 2009-07-19 03:59:42 as along with 1 person ellarond
	Incorporating structure to predict microRNA targets. [My Copy] Proc Natl Acad Sci U S A, Vol. 102, No. 11. (15 March 2005), pp. 4006-4009. by H. Robins, Y. Li, R. W. Padgett posted to mirna prediction by physics on 2009-07-19 03:49:37 as along with 5 people and 1 group sennoma jfr heliopais zibdum maralena microRNA
	The MC-Fold and MC-Sym pipeline infers RNA structure from sequence data [My Copy] Nature, Vol. 452, No. 7183. (06 March 2008), pp. 51-55. by Marc Parisien, Francois Major posted to rna structure by physics on 2009-07-19 01:32:18 as along with 7 people heliopais bmduggan puranjoy_b zwang austin elfar reyez
	Ab initio RNA folding by discrete molecular dynamics: from structure prediction to folding mechanisms. [My Copy] RNA (New York, N.Y.), Vol. 14, No. 6. (1 June 2008), pp. 1164-1173. by Feng Ding, Shantanu Sharma, Poornima Chalasani, Vadim V. Demidov, Natalia E. Broude, Nikolay V. Dokholyan posted to pseudoknot tertiary by physics on 2008-07-21 17:31:57 as along with 3 people balewis carmaus Hosna
	A Three-Stemmed mRNA Pseudoknot in the SARS Coronavirus Frameshift Signal [My Copy] PLoS Biology, Vol. 3, No. 6. (1 June 2005), e172. by Ewan P. Plant, Gabriela C. Pérez-Alvarado, Jonathan L. Jacobs, Bani Mukhopadhyay, Mirko Hennig, Jonathan D. Dinman posted to frameshifting pseudoknot by physics on 2008-03-29 06:04:36 as along with 1 person jonathanjacobs
	Tertiary Motifs in RNA Structure and Folding. [My Copy] Angew Chem Int Ed Engl, Vol. 38, No. 16. (August 1999), pp. 2326-2343. by R. T. Batey, R. P. Rambo, J. A. Doudna posted to rna tertiary by physics on 2008-03-24 05:23:22 as along with 3 people and 3 groups marcius condon jarasch beta BioinfoCIPF SGU-CIPF
	Novel and efficient RNA secondary structure prediction using hierarchical folding. [My Copy] J Comput Biol, Vol. 15, No. 2. (March 2008), pp. 139-163. by H. Jabbari, A. Condon, S. Zhao posted to prediction pseudoknot rna by physics on 2008-03-24 05:21:05 as along with 2 people eskay Hosna
	Automated de novo prediction of native-like RNA tertiary structures [My Copy] Proceedings of the National Academy of Sciences, Vol. 104, No. 37. (11 September 2007), pp. 14664-14669. by Rhiju Das, David Baker posted to prediction rna tertiary by physics on 2008-03-24 05:17:59 as along with 8 people and 2 groups fisherp rsaito jwm marcius eckart_bindewald zwang Ema reyez BioinfoCIPF SGU-CIPF
	Bridging the gap in RNA structure prediction. [My Copy] Current opinion in structural biology, Vol. 17, No. 2. (April 2007), pp. 157-165. by B. A. Shapiro, Y. G. Yingling, W. Kasprzak, E. Bindewald posted to prediction rna by physics on 2008-03-24 05:15:20 as along with 4 people rb_india puranjoy_b gpalidwor debatebob
	KnotSeeker: Heuristic pseudoknot detection in long RNA sequences [My Copy] RNA, Vol. 14, No. 4. (1 April 2008), pp. 630-640. by Jana Sperschneider, Amitava Datta posted to prediction pseudoknot by physics on 2008-03-23 16:06:01 as along with 2 people condon Hosna
	Predicting ribosomal frameshifting efficiency [My Copy] Phys. Biol., Vol. 5, No. 1. (March 2008), 016002. by Song Cao, Shi-Jie Chen posted to force frameshifting pseudoknot by physics on 2008-03-23 15:57:54 as
	Evolution of small nuclear RNAs in S. cerevisiae, C. albicans, and other hemiascomycetous yeasts [My Copy] RNA, Vol. 13, No. 12. (1 December 2007), pp. 2066-2080. by Quinn M. Mitrovich, Christine Guthrie posted to rna spliceosome by physics on 2008-02-26 00:09:26 as
	Predicting helical coaxial stacking in RNA multibranch loops [My Copy] RNA, Vol. 13, No. 7. (1 July 2007), pp. 939-951. by Rahul Tyagi, David H. Mathews posted to prediction rna by physics on 2008-02-25 23:56:16 as along with 2 people ellarond biologistyao
	Potent effect of target structure on microRNA function. [My Copy] Nat Struct Mol Biol (1 April 2007) by Dang Long, Rosalind Lee, Peter Williams, Chi Yu Y. Chan, Victor Ambros, Ye Ding posted to mirna by physics on 2007-10-03 22:13:24 as along with 8 people and 3 groups thegoose2 tharris tardigrade andersbj cdawson Garamonfok lp2 cabbagezs C. elegans / WormBase microRNA GIG
	microRNA target predictions in animals [My Copy] Nature Genetics, Vol. 38 Suppl 1, No. 6s. (30 May 2006), pp. S8-S13. by Nikolaus Rajewsky posted to mirna by physics on 2007-10-03 22:11:41 as along with 12 people and 5 groups danaiancu thegoose Stew jfr marcius balicea andersbj mtagaya chenlc03 Garamonfok heliopais maralena Bioinformatics - CRUK Bioinformatics microRNA BioinfoCIPF SGU-CIPF
	The role of site accessibility in microRNA target recognition [My Copy] Nature Genetics, Vol. 39, No. 10. (23 September 2007), pp. 1278-1284. by Michael Kertesz, Nicola Iovino, Ulrich Unnerstall, Ulrike Gaul, Eran Segal posted to mirna by physics on 2007-10-03 17:24:12 as along with 17 people and 1 group frohike daforerog alessandroparini jfr mtagaya rdiaz Hosna djkt Garamonfok bootsy epigenetics lp2 cabbagezs heliopais uwe yavanna maralena microRNA
	Inter-DNA Attraction Mediated by Divalent Counterions [My Copy] Physical Review Letters, Vol. 99 (2007) by X. Qiu, K. Andresen, L. W. Kwok, J. S. Lamb, H. Y. Park, L. Pollack posted to electrostatics ion by physics on 2007-08-22 17:08:38 as along with 1 person and 1 group sobolevnrm baker-group
	Kinetics of an RNA conformational switch. [My Copy] Proc Natl Acad Sci U S A, Vol. 91, No. 8. (12 April 1994), pp. 3373-3377. by K. A. Lecuyer, D. M. Crothers posted to kinetics rna by physics on 2007-05-29 16:25:18 as along with 1 person arcticrasta
	Beyond Mfold: recent advances in RNA bioinformatics. [My Copy] Journal of biotechnology, Vol. 124, No. 1. (25 June 2006), pp. 41-55. by Jens Reeder, Matthias Höchsmann, Marc Rehmsmeier, Björn Voss, Robert Giegerich posted to prediction rna by physics on 2007-05-09 03:47:49 as along with 20 people and 4 groups tonamswish heliopais daforerog danaiancu rb_india ellarond GustavoLacerda hrogers marcius eckart_bindewald tardigrade andersbj arcticrasta mtagaya condon Hosna Eonwe cthachuk stajich reyez microRNA beta BioinfoCIPF SGU-CIPF
	Revolutions in RNA Secondary Structure Prediction [My Copy] Journal of Molecular Biology, Vol. 359, No. 3. (9 June 2006), pp. 526-532. by David H. Mathews posted to prediction rna by physics on 2007-05-08 22:30:50 as along with 12 people and 2 groups rb_india bmduggan heliopais marcius arcticrasta penka Eonwe cthachuk emidio_capriotti maralena winterschlaefer austin BioinfoCIPF SGU-CIPF
	Statistical and Bayesian approaches to RNA secondary structure prediction. [My Copy] RNA (New York, N.Y.), Vol. 12, No. 3. (March 2006), pp. 323-331. by Y. Ding posted to prediction rna statistics by physics on 2007-05-08 16:17:49 as along with 8 people and 3 groups rb_india toerst marcius arcticrasta penka condon Hosna Kiarostami beta BioinfoCIPF SGU-CIPF
	Structure, stability and function of RNA pseudoknots involved in stimulating ribosomal frameshifting. [My Copy] J Mol Biol, Vol. 298, No. 2. (28 April 2000), pp. 167-185. by D. P. Giedroc, C. A. Theimer, P. L. Nixon posted to pseudoknot thermodynamics by physics on 2007-05-07 03:35:28 as along with 3 people and 1 group nikkiwithers condon Hosna beta
	Rearrangement of competing U2 RNA helices within the spliceosome promotes multiple steps in splicing. [My Copy] Genes Dev, Vol. 21, No. 7. (1 April 2007), pp. 811-820. by R. J. Perriman, M. Ares posted to spliceosome by physics on 2007-05-05 23:17:32 as along with 1 person DaisyMayhem
	U2 toggles iteratively between the stem IIa and stem IIc conformations to promote pre-mRNA splicing. [My Copy] Genes Dev, Vol. 21, No. 7. (1 April 2007), pp. 821-834. by A. K. Hilliker, M. A. Mefford, J. P. Staley posted to spliceosome by physics on 2007-05-05 23:16:57 as
	U2-U6 RNA folding reveals a group II intron-like domain and a four-helix junction. [My Copy] Nat Struct Mol Biol, Vol. 11, No. 12. (December 2004), pp. 1237-1242. by D. G. Sashital, G. Cornilescu, C. J. McManus, D. A. Brow, S. E. Butcher posted to nmr spliceosome structure by physics on 2007-05-05 23:07:56 as
	Structure and thermodynamics of a conserved U2 snRNA domain from yeast and human. [My Copy] RNA, Vol. 13, No. 3. (March 2007), pp. 328-338. by D. G. Sashital, V. Venditti, C. G. Angers, G. Cornilescu, S. E. Butcher posted to experiment spliceosome thermodynamics by physics on 2007-05-05 23:07:10 as
	A three-state mechanism for DNA hairpin folding characterized by multiparameter fluorescence fluctuation spectroscopy. [My Copy] J Am Chem Soc, Vol. 128, No. 4. (1 February 2006), pp. 1240-1249. by J. Jung, A. Van Orden posted to experiment kinetics rna by physics on 2007-05-05 23:03:09 as
	How RNA folds. [My Copy] J Mol Biol, Vol. 293, No. 2. (22 October 1999), pp. 271-281. by I. Tinoco, C. Bustamante posted to fold rna by physics on 2007-05-05 22:56:16 as along with 10 people and 3 groups rb_india eskay dayjm marcius eckart_bindewald perrywoo arcticrasta condon Hosna apop beta BioinfoCIPF SGU-CIPF
	The 9-A solution: how mRNA pseudoknots promote efficient programmed -1 ribosomal frameshifting. [My Copy] RNA, Vol. 9, No. 2. (February 2003), pp. 168-174. by E. P. Plant, K. L. Jacobs, J. W. Harger, et al.A. Meskauskas, J. L. Jacobs, J. L. Baxter, A. N. Petrov, J. D. Dinman posted to force frameshifting pseudoknot by physics on 2007-05-05 22:53:49 as along with 2 people jonathanjacobs KristiMuldoonJacobs
	Predicting RNA folding thermodynamics with a reduced chain representation model. [My Copy] RNA, Vol. 11, No. 12. (December 2005), pp. 1884-1897. by S. Cao, S. J. Chen posted to prediction rna structure thermodynamics by physics on 2007-05-05 22:51:56 as along with 2 people ellarond mtagaya
	Biphasic folding kinetics of RNA pseudoknots and telomerase RNA activity. [My Copy] J Mol Biol, Vol. 367, No. 3. (30 March 2007), pp. 909-924. by S. Cao, S. J. Chen posted to kinetics pseudoknot rna telomerase by physics on 2007-05-05 22:48:13 as
	A dynamic programming algorithm for RNA structure prediction including pseudoknots1☆ [My Copy] Journal of Molecular Biology, Vol. 285, No. 5. (05 February 1999), pp. 2053-2068. by E. Rivas, S. R. Eddy posted to prediction pseudoknot rna by physics on 2007-05-05 22:46:48 as along with 13 people and 1 group rb_india NicholasErho gzm55 mjoach evaf balajis eckart_bindewald arcticrasta dquest condon Hosna jarasch guxiyou beta
	Torsional restraint: a new twist on frameshifting pseudoknots [My Copy] Nucleic Acids Research, Vol. 33, No. 6. (2005), pp. 1825-1833. by Ewan P. Plant, Jonathan D. Dinman posted to frameshifting pseudoknot rna by physics on 2007-05-05 22:43:52 as
	Structure of the human telomerase RNA pseudoknot reveals conserved tertiary interactions essential for function. [My Copy] Mol Cell, Vol. 17, No. 5. (4 March 2005), pp. 671-682. by C. A. Theimer, C. A. Blois, J. Feigon posted to telomerase tertiary thermodynamics by physics on 2007-05-05 22:41:16 as along with 2 people Hosna bpagano
	Secondary Structure Prediction of Interacting RNA Molecules [My Copy] Journal of Molecular Biology, Vol. 345, No. 5., pp. 987-1001. by Mirela Andronescu, Zhi C. Zhang, Anne Condon posted to complexes prediction rna by physics on 2007-05-05 22:38:18 as along with 5 people and 2 groups rb_india marcius eckart_bindewald Hosna cthachuk BioinfoCIPF SGU-CIPF
	A mechanical explanation of RNA pseudoknot function in programmed ribosomal frameshifting [My Copy] Nature, Vol. 441, No. 7090., pp. 244-247. by Olivier Namy, Stephen J. Moran, David I. Stuart, Robert J. C. Gilbert, Ian Brierley posted to force frameshifting pseudoknot by physics on 2007-05-05 22:34:13 as
	Predicting RNA pseudoknot folding thermodynamics [My Copy] Nucleic Acids Research, Vol. 34, No. 9. (2006), pp. 2634-2652. by Cao, Song, Chen, Shi-Jie posted to biophysics prediction pseudoknot rna thermodynamics by physics on 2007-05-05 22:31:50 as along with 5 people and 1 group gzm55 condon Hosna apop Kiarostami beta
	Thermodynamics of RNA-RNA Binding. [My Copy] Bioinformatics (29 January 2006) by Ulrike Mückstein, Hakim Tafer, Jörg Hackermüller, Stephan H H. Bernhart, Peter F F. Stadler, Ivo L L. Hofacker posted to complexes prediction rna by physics on 2007-05-05 22:30:38 as along with 7 people and 3 groups rb_india marcius eckart_bindewald andersbj arcticrasta ilh mtw microRNA BioinfoCIPF SGU-CIPF
	Free energy landscapes of RNA/RNA complexes: with applications to snRNA complexes in spliceosomes. [My Copy] J Mol Biol, Vol. 357, No. 1. (17 March 2006), pp. 292-312. by S. Cao, S. J. Chen posted to biophysics complexes prediction rna spliceosome by physics on 2007-05-05 22:25:06 as along with 1 person mtagaya
	Correlation between mechanical strength of messenger RNA pseudoknots and ribosomal frameshifting [My Copy] PNAS, Vol. 104, No. 14. (3 April 2007), pp. 5830-5835. by Thomas M. Hansen, Reihani, Lene B. Oddershede, Michael A. Sorensen posted to biophysics force frameshifting pseudoknot by physics on 2007-04-26 16:23:20 as along with 2 people lshaw jwagoner
	High sensitivity RNA pseudoknot prediction [My Copy] Nucleic Acids Research, Vol. 35, No. 2. (January 2007), pp. 656-663. by Huang, Xiaolu, Ali, Hesham posted to pseudoknot by physics on 2007-04-26 16:22:01 as

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force	4
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