J W Brown. Nucleic Acids Res 1999
Times Cited: 238
Times Cited: 238
Times Cited
Times Co-cited
Similarity
Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure.
D H Mathews, J Sabina, M Zuker, D H Turner. J Mol Biol 1999
D H Mathews, J Sabina, M Zuker, D H Turner. J Mol Biol 1999
28
The RNA moiety of ribonuclease P is the catalytic subunit of the enzyme.
C Guerrier-Takada, K Gardiner, T Marsh, N Pace, S Altman. Cell 1983
C Guerrier-Takada, K Gardiner, T Marsh, N Pace, S Altman. Cell 1983
23
The comparative RNA web (CRW) site: an online database of comparative sequence and structure information for ribosomal, intron, and other RNAs.
Jamie J Cannone, Sankar Subramanian, Murray N Schnare, James R Collett, Lisa M D'Souza, Yushi Du, Brian Feng, Nan Lin, Lakshmi V Madabusi, Kirsten M Müller,[...]. BMC Bioinformatics 2002
Jamie J Cannone, Sankar Subramanian, Murray N Schnare, James R Collett, Lisa M D'Souza, Yushi Du, Brian Feng, Nan Lin, Lakshmi V Madabusi, Kirsten M Müller,[...]. BMC Bioinformatics 2002
21
Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information.
M Zuker, P Stiegler. Nucleic Acids Res 1981
M Zuker, P Stiegler. Nucleic Acids Res 1981
20
Ribonuclease P: the evolution of an ancient RNA enzyme.
Scott C Walker, David R Engelke. Crit Rev Biochem Mol Biol 2006
Scott C Walker, David R Engelke. Crit Rev Biochem Mol Biol 2006
19
Eukaryotic RNase P RNA mediates cleavage in the absence of protein.
Ema Kikovska, Staffan G Svärd, Leif A Kirsebom. Proc Natl Acad Sci U S A 2007
Ema Kikovska, Staffan G Svärd, Leif A Kirsebom. Proc Natl Acad Sci U S A 2007
19
Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structure.
David H Mathews, Matthew D Disney, Jessica L Childs, Susan J Schroeder, Michael Zuker, Douglas H Turner. Proc Natl Acad Sci U S A 2004
David H Mathews, Matthew D Disney, Jessica L Childs, Susan J Schroeder, Michael Zuker, Douglas H Turner. Proc Natl Acad Sci U S A 2004
18
RNase P: interface of the RNA and protein worlds.
Donald Evans, Steven M Marquez, Norman R Pace. Trends Biochem Sci 2006
Donald Evans, Steven M Marquez, Norman R Pace. Trends Biochem Sci 2006
18
New insight into RNase P RNA structure from comparative analysis of the archaeal RNA.
J K Harris, E S Haas, D Williams, D N Frank, J W Brown. RNA 2001
J K Harris, E S Haas, D Williams, D N Frank, J W Brown. RNA 2001
22
Functional reconstitution and characterization of Pyrococcus furiosus RNase P.
Hsin-Yue Tsai, Dileep K Pulukkunat, Walter K Woznick, Venkat Gopalan. Proc Natl Acad Sci U S A 2006
Hsin-Yue Tsai, Dileep K Pulukkunat, Walter K Woznick, Venkat Gopalan. Proc Natl Acad Sci U S A 2006
25
RNase P RNAs from some Archaea are catalytically active.
J A Pannucci, E S Haas, T A Hall, J K Harris, J W Brown. Proc Natl Acad Sci U S A 1999
J A Pannucci, E S Haas, T A Hall, J K Harris, J W Brown. Proc Natl Acad Sci U S A 1999
18
Crystal structure of the RNA component of bacterial ribonuclease P.
Alfredo Torres-Larios, Kerren K Swinger, Andrey S Krasilnikov, Tao Pan, Alfonso Mondragón. Nature 2005
Alfredo Torres-Larios, Kerren K Swinger, Andrey S Krasilnikov, Tao Pan, Alfonso Mondragón. Nature 2005
17
RNase P without RNA: identification and functional reconstitution of the human mitochondrial tRNA processing enzyme.
Johann Holzmann, Peter Frank, Esther Löffler, Keiryn L Bennett, Christopher Gerner, Walter Rossmanith. Cell 2008
Johann Holzmann, Peter Frank, Esther Löffler, Keiryn L Bennett, Christopher Gerner, Walter Rossmanith. Cell 2008
17
CONTRAfold: RNA secondary structure prediction without physics-based models.
Chuong B Do, Daniel A Woods, Serafim Batzoglou. Bioinformatics 2006
Chuong B Do, Daniel A Woods, Serafim Batzoglou. Bioinformatics 2006
16
Crystal structure of a bacterial ribonuclease P RNA.
Alexei V Kazantsev, Angelika A Krivenko, Daniel J Harrington, Stephen R Holbrook, Paul D Adams, Norman R Pace. Proc Natl Acad Sci U S A 2005
Alexei V Kazantsev, Angelika A Krivenko, Daniel J Harrington, Stephen R Holbrook, Paul D Adams, Norman R Pace. Proc Natl Acad Sci U S A 2005
16
Thermodynamic parameters for an expanded nearest-neighbor model for formation of RNA duplexes with Watson-Crick base pairs.
T Xia, J SantaLucia, M E Burkard, R Kierzek, S J Schroeder, X Jiao, C Cox, D H Turner. Biochemistry 1998
T Xia, J SantaLucia, M E Burkard, R Kierzek, S J Schroeder, X Jiao, C Cox, D H Turner. Biochemistry 1998
16
RNA STRAND: the RNA secondary structure and statistical analysis database.
Mirela Andronescu, Vera Bereg, Holger H Hoos, Anne Condon. BMC Bioinformatics 2008
Mirela Andronescu, Vera Bereg, Holger H Hoos, Anne Condon. BMC Bioinformatics 2008
16
Mfold web server for nucleic acid folding and hybridization prediction.
Michael Zuker. Nucleic Acids Res 2003
Michael Zuker. Nucleic Acids Res 2003
15
Evidence that substrate-specific effects of C5 protein lead to uniformity in binding and catalysis by RNase P.
Lei Sun, Frank E Campbell, Nathan H Zahler, Michael E Harris. EMBO J 2006
Lei Sun, Frank E Campbell, Nathan H Zahler, Michael E Harris. EMBO J 2006
23
The tmRDB and SRPDB resources.
Ebbe Sloth Andersen, Magnus Alm Rosenblad, Niels Larsen, Jesper Cairo Westergaard, Jody Burks, Iwona K Wower, Jacek Wower, Jan Gorodkin, Tore Samuelsson, Christian Zwieb. Nucleic Acids Res 2006
Ebbe Sloth Andersen, Magnus Alm Rosenblad, Niels Larsen, Jesper Cairo Westergaard, Jody Burks, Iwona K Wower, Jacek Wower, Jan Gorodkin, Tore Samuelsson, Christian Zwieb. Nucleic Acids Res 2006
17
Structure of a bacterial ribonuclease P holoenzyme in complex with tRNA.
Nicholas J Reiter, Amy Osterman, Alfredo Torres-Larios, Kerren K Swinger, Tao Pan, Alfonso Mondragón. Nature 2010
Nicholas J Reiter, Amy Osterman, Alfredo Torres-Larios, Kerren K Swinger, Tao Pan, Alfonso Mondragón. Nature 2010
15
The equilibrium partition function and base pair binding probabilities for RNA secondary structure.
J S McCaskill. Biopolymers 1990
J S McCaskill. Biopolymers 1990
14
Using an RNA secondary structure partition function to determine confidence in base pairs predicted by free energy minimization.
David H Mathews. RNA 2004
David H Mathews. RNA 2004
14
Pfold: RNA secondary structure prediction using stochastic context-free grammars.
Bjarne Knudsen, Jotun Hein. Nucleic Acids Res 2003
Bjarne Knudsen, Jotun Hein. Nucleic Acids Res 2003
14
Evaluation of several lightweight stochastic context-free grammars for RNA secondary structure prediction.
Robin D Dowell, Sean R Eddy. BMC Bioinformatics 2004
Robin D Dowell, Sean R Eddy. BMC Bioinformatics 2004
13
Dynalign: an algorithm for finding the secondary structure common to two RNA sequences.
David H Mathews, Douglas H Turner. J Mol Biol 2002
David H Mathews, Douglas H Turner. J Mol Biol 2002
13
Rfam: annotating non-coding RNAs in complete genomes.
Sam Griffiths-Jones, Simon Moxon, Mhairi Marshall, Ajay Khanna, Sean R Eddy, Alex Bateman. Nucleic Acids Res 2005
Sam Griffiths-Jones, Simon Moxon, Mhairi Marshall, Ajay Khanna, Sean R Eddy, Alex Bateman. Nucleic Acids Res 2005
13
Inferring noncoding RNA families and classes by means of genome-scale structure-based clustering.
Sebastian Will, Kristin Reiche, Ivo L Hofacker, Peter F Stadler, Rolf Backofen. PLoS Comput Biol 2007
Sebastian Will, Kristin Reiche, Ivo L Hofacker, Peter F Stadler, Rolf Backofen. PLoS Comput Biol 2007
13
Studies on Methanocaldococcus jannaschii RNase P reveal insights into the roles of RNA and protein cofactors in RNase P catalysis.
Dileep K Pulukkunat, Venkat Gopalan. Nucleic Acids Res 2008
Dileep K Pulukkunat, Venkat Gopalan. Nucleic Acids Res 2008
35
13
Derivation of the three-dimensional architecture of bacterial ribonuclease P RNAs from comparative sequence analysis.
C Massire, L Jaeger, E Westhof. J Mol Biol 1998
C Massire, L Jaeger, E Westhof. J Mol Biol 1998
13
RNAstructure: software for RNA secondary structure prediction and analysis.
Jessica S Reuter, David H Mathews. BMC Bioinformatics 2010
Jessica S Reuter, David H Mathews. BMC Bioinformatics 2010
13
RNA secondary structure prediction using stochastic context-free grammars and evolutionary history.
B Knudsen, J Hein. Bioinformatics 1999
B Knudsen, J Hein. Bioinformatics 1999
12
15
Base pairing between Escherichia coli RNase P RNA and its substrate.
L A Kirsebom, S G Svärd. EMBO J 1994
L A Kirsebom, S G Svärd. EMBO J 1994
12
12
The affinity of magnesium binding sites in the Bacillus subtilis RNase P x pre-tRNA complex is enhanced by the protein subunit.
Jeffrey C Kurz, Carol A Fierke. Biochemistry 2002
Jeffrey C Kurz, Carol A Fierke. Biochemistry 2002
16
Crystal structure of the specificity domain of ribonuclease P.
Andrey S Krasilnikov, Xiaojing Yang, Tao Pan, Alfonso Mondragón. Nature 2003
Andrey S Krasilnikov, Xiaojing Yang, Tao Pan, Alfonso Mondragón. Nature 2003
12
Unexpected diversity of RNase P, an ancient tRNA processing enzyme: challenges and prospects.
Lien B Lai, Agustín Vioque, Leif A Kirsebom, Venkat Gopalan. FEBS Lett 2010
Lien B Lai, Agustín Vioque, Leif A Kirsebom, Venkat Gopalan. FEBS Lett 2010
12
A dynamic programming algorithm for RNA structure prediction including pseudoknots.
E Rivas, S R Eddy. J Mol Biol 1999
E Rivas, S R Eddy. J Mol Biol 1999
11
A statistical sampling algorithm for RNA secondary structure prediction.
Ye Ding, Charles E Lawrence. Nucleic Acids Res 2003
Ye Ding, Charles E Lawrence. Nucleic Acids Res 2003
11
Rfam: an RNA family database.
Sam Griffiths-Jones, Alex Bateman, Mhairi Marshall, Ajay Khanna, Sean R Eddy. Nucleic Acids Res 2003
Sam Griffiths-Jones, Alex Bateman, Mhairi Marshall, Ajay Khanna, Sean R Eddy. Nucleic Acids Res 2003
11
Efficient pairwise RNA structure prediction using probabilistic alignment constraints in Dynalign.
Arif Ozgun Harmanci, Gaurav Sharma, David H Mathews. BMC Bioinformatics 2007
Arif Ozgun Harmanci, Gaurav Sharma, David H Mathews. BMC Bioinformatics 2007
15
Efficient parameter estimation for RNA secondary structure prediction.
Mirela Andronescu, Anne Condon, Holger H Hoos, David H Mathews, Kevin P Murphy. Bioinformatics 2007
Mirela Andronescu, Anne Condon, Holger H Hoos, David H Mathews, Kevin P Murphy. Bioinformatics 2007
11
Protein component of Bacillus subtilis RNase P specifically enhances the affinity for precursor-tRNAAsp.
J C Kurz, S Niranjanakumari, C A Fierke. Biochemistry 1998
J C Kurz, S Niranjanakumari, C A Fierke. Biochemistry 1998
11
Evidence for induced fit in bacterial RNase P RNA-mediated cleavage.
Mathias Brännvall, Ema Kikovska, Shiying Wu, Leif A Kirsebom. J Mol Biol 2007
Mathias Brännvall, Ema Kikovska, Shiying Wu, Leif A Kirsebom. J Mol Biol 2007
36
Evidence that binding of C5 protein to P RNA enhances ribozyme catalysis by influencing active site metal ion affinity.
Lei Sun, Michael E Harris. RNA 2007
Lei Sun, Michael E Harris. RNA 2007
30
Archaeal RNase P has multiple protein subunits homologous to eukaryotic nuclear RNase P proteins.
Thomas A Hall, James W Brown. RNA 2002
Thomas A Hall, James W Brown. RNA 2002
14
The protein component of Bacillus subtilis ribonuclease P increases catalytic efficiency by enhancing interactions with the 5' leader sequence of pre-tRNAAsp.
S M Crary, S Niranjanakumari, C A Fierke. Biochemistry 1998
S M Crary, S Niranjanakumari, C A Fierke. Biochemistry 1998
11
Co-cited is the co-citation frequency, indicating how many articles cite the article together with the query article. Similarity is the co-citation as percentage of the times cited of the query article or the article in the search results, whichever is the lowest. These numbers are calculated for the last 100 citations when articles are cited more than 100 times.