 Publications
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Complete Publications (1953-2007)
Recent Publications
1.
Li P.T.X., Vieregg J., Tinoco I., Jr. 2008.How RNA Unfolds and Refolds. Annu.
Rev. Biochem. 77: 77-100.
2.
Wen, J.D.,
Lancaster, L., Hodges, C., Zeri, A.C., Yoshimura, S.H., Noller, H.F.,
Bustamante, C., Tinoco, I., Jr. 2008. Following translation by single
ribosomes one codon at a time. Nature
452: 598-603
3.
Chen G., Wen J.D., Tinoco I., Jr. 2007. Single-molecule
mechanical unfolding and folding of a pseudoknot in human telomerase RNA. RNA
13: 2175-88
4.
Vieregg J., Cheng W., Bustamante C., Tinoco I., Jr. 2007.
Measurement of the Effect of Monovalent Cations on RNA Hairpin Stability. J.
Am. Chem. Soc. 129: 14966-73
5.
Green L., Kim C.H., Bustamante C., Tinoco I., Jr. 2008.
Characterization of the Mechanical Unfolding of RNA Pseudoknots. J.
Mol. Biol. 375: 511-28
6.
Cheng W., Dumont S., Tinoco I., Jr., Bustamante C. 2007. NS3
helicase actively separates RNA strands and senses sequence barriers ahead of
the opening fork. Proc.
Natl. Acad. Sci. 104: 13954-9
7.
Li P.T.X., Bustamante C., Tinoco I., Jr. 2007. Real-time
control of the energy landscape by force directs the folding of RNA
molecules. Proc.
Natl. Acad. Sci. 104: 7039-44
8.
Manosas M., Wen J.D., Li P.T.X., Smith S.B., Bustamante C., Tinoco I.,
Jr., Ritort F. 2007. Force unfolding kinetics of RNA using optical
tweezers. II. Modeling experiments. Biophys.
J. 92: 3010-21
9.
Wen J.D., Manosas M., Li P.T.X., Smith S.B., Bustamante C., Ritort F.,
Tinoco I., Jr. 2007. Force unfolding kinetics of RNA using optical
tweezers. I. Effects of experimental variables on measured results. Biophys.
J. 92: 2996-3009
10.
Dumont S., Cheng W., Serebrov V., Beran R.K., Tinoco I., Jr., Pyle
A.M., Bustamante C. 2006. RNA translocation and unwinding mechanism of
HCV NS3 helicase and its coordination by ATP. Nature
439: 105-8
11.
Li P.T.X., Bustamante C., Tinoco I., Jr. 2006. Unusual
mechanical stability of a minimal RNA kissing complex. Proc.
Natl. Acad. Sci. 103: 15847-52
12.
Li P.T.X., Collin D., Smith S.B., Bustamante C., Tinoco I., Jr. 2006.
Probing the mechanical folding kinetics of TAR RNA by hopping, force-jump,
and force-ramp methods. Biophys.
J. 90: 250-60
13.
Tinoco I., Jr., Li P.T., Bustamante C. 2006. Determination of
thermodynamics and kinetics of RNA reactions by force. Q.
Rev. Biophys. 39: 325-60
14.
Vieregg J.R., Tinoco I. 2006. Modelling RNA folding under
mechanical tension. Mol.
Phys. 104: 1343-52
15.
Collin D., Ritort F., Jarzynski C., Smith S.B., Tinoco I., Jr.,
Bustamante C. 2005. Verification of the Crooks fluctuation theorem and
recovery of RNA folding free energies. Nature
437: 231-4
16.
Mao H., Arias-Gonzalez J.R., Smith S.B., Tinoco I., Jr., Bustamante C.
2005. Temperature control methods in a laser tweezers system. Biophys.
J. 89: 1308-16
17.
Onoa B., Tinoco I., Jr. 2004. RNA folding and unfolding. Curr.
Opin. Struct. Biol. 14: 374-9
18.
Tinoco I. 2004. An appreciation of John D. Ferry and the
mechanical properties of single molecules. Biophys.
Chem. 112: 105-8
19.
Tinoco I., Jr. 2004. Force as a useful variable in reactions:
unfolding RNA. Annu.
Rev. Biophys. Biomol. Struct. 33: 363-85
20.
Tinoco I., Jr., Collin D., Li P.T.X. 2004. The effect of force
on thermodynamics and kinetics: unfolding single RNA molecules. Biochem.
Soc. Trans. 32: 757-60
21.
Onoa B., Dumont S., Liphardt J., Smith S.B., Tinoco I., Jr.,
Bustamante C. 2003. Identifying kinetic barriers to mechanical
unfolding of the T. thermophila ribozyme. Science
299: 1892-5
22.
Liphardt J., Dumont S., Smith S.B., Tinoco I., Jr., Bustamante C. 2002.
Equilibrium information from nonequilibrium measurements in an experimental
test of Jarzynski's equality. Science
296: 1832-5
23.
Ritort F., Bustamante C., Tinoco I., Jr. 2002. A two-state
kinetic model for the unfolding of single molecules by mechanical force. Proc.
Natl. Acad. Sci. 99: 13544-8
24.
Tinoco I., Jr. 2002. Physical chemistry of nucleic acids. Annu.
Rev. Phys. Chem. 53: 1-15
25.
Tinoco I., Jr., Bustamante C. 2002. The effect of force on
thermodynamics and kinetics of single molecule reactions. Biophys.
Chem. 101-102: 513-33
26.
Gonzalez R.L., Jr., Tinoco I., Jr. 2001. Identification and
characterization of metal ion binding sites in RNA. Methods
Enzymol. 338: 421-43
27.
Kim C.H., Tinoco I., Jr. 2001. Structural and thermodynamic
studies on mutant RNA motifs that impair the specificity between a viral
replicase and its promoter. J.
Mol. Biol. 307: 827-39
28.
Liphardt J., Onoa B., Smith S.B., Tinoco I.J., Bustamante C. 2001.
Reversible unfolding of single RNA molecules by mechanical force. Science
292: 733-7
29.
Zheng M., Wu M., Tinoco I., Jr. 2001. Formation of a GNRA
tetraloop in P5abc can disrupt an interdomain interaction in the Tetrahymena
group I ribozyme. Proc.
Natl. Acad. Sci. 98: 3695-700
30.
Kim C.H., Kao C.C., Tinoco I., Jr. 2000. RNA motifs that
determine specificity between a viral replicase and its promoter. Nat.
Struct. Biol. 7: 415-23
31.
Kim C.H., Tinoco I., Jr. 2000. A retroviral RNA kissing complex
containing only two G.C base pairs. Proc. Natl. Acad. Sci. 97:
9396-401
32.
Rudisser S., Tinoco I., Jr. 2000. Solution structure of
Cobalt(III)hexammine complexed to the GAAA tetraloop, and metal-ion binding
to G.A mismatches. J. Mol. Biol. 295: 1211-23
33.
Schmitz M., Tinoco I., Jr. 2000. Solution structure and
metal-ion binding of the P4 element from bacterial RNase P RNA. RNA 6:
1212-25
34.
Colmenarejo G., Tinoco I., Jr. 1999. Structure and
thermodynamics of metal binding in the P5 helix of a group I intron ribozyme.
J. Mol. Biol. 290: 119-35
35.
Gonzalez R.L., Jr., Tinoco I., Jr. 1999. Solution structure and
thermodynamics of a divalent metal ion binding site in an RNA pseudoknot. J.
Mol. Biol. 289: 1267-82
36.
Macosko J.C., Pio M.S., Tinoco I., Jr., Shin Y.K. 1999. A novel
5 displacement spin-labeling technique for electron paramagnetic resonance
spectroscopy of RNA. RNA 5: 1158-66
37.
Rudisser S., Pelton J.G., Tinoco I., Jr. 1999. Assignment of
cytosine N3 resonances in nucleic acids via intrabase three-bond coupling to
amino protons. J Biomol NMR 15: 173-6
38. Silverman S.K., Zheng
M., Wu M., Tinoco I., Jr., Cech T.R. 1999. Quantifying the energetic
interplay of RNA tertiary and secondary structure interactions. RNA 5:
1665-74
39. Tinoco I., Jr.,
Bustamante C. 1999. How RNA folds. J. Mol. Biol. 293: 271-81
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