-
1
-
-
84866521002
-
Rational design of allosteric inhibitors and activators using the population-shift model. In vitro validation and application to an artificial biosensor
-
Ricci F., Vallée-Bélisle A., Porchetta A., Plaxco K.W. Rational design of allosteric inhibitors and activators using the population-shift model. In vitro validation and application to an artificial biosensor. J. Am. Chem. Soc. 2012, 134:15177-15180.
-
(2012)
J. Am. Chem. Soc.
, vol.134
, pp. 15177-15180
-
-
Ricci, F.1
Vallée-Bélisle, A.2
Porchetta, A.3
Plaxco, K.W.4
-
2
-
-
78650419952
-
Switch-based biosensors: a new approach towards real-time, in vivo molecular detection
-
Plaxco K.W., Soh H.T. Switch-based biosensors: a new approach towards real-time, in vivo molecular detection. Trends Biotechnol. 2011, 29:1-5.
-
(2011)
Trends Biotechnol.
, vol.29
, pp. 1-5
-
-
Plaxco, K.W.1
Soh, H.T.2
-
4
-
-
84891365461
-
Thermodynamic basis for engineering high-affinity, high-specificity binding-induced DNA clamp nanoswitches
-
Idili A., Plaxco K.W., Vallée-Bélisle A., Ricci F. Thermodynamic basis for engineering high-affinity, high-specificity binding-induced DNA clamp nanoswitches. ACS Nano 2013, 7:10863-10869.
-
(2013)
ACS Nano
, vol.7
, pp. 10863-10869
-
-
Idili, A.1
Plaxco, K.W.2
Vallée-Bélisle, A.3
Ricci, F.4
-
5
-
-
0037377340
-
Rube Goldberg goes (ribo)nuclear? Molecular switches and sensors made from RNA
-
Silverman S.K. Rube Goldberg goes (ribo)nuclear? Molecular switches and sensors made from RNA. RNA 2003, 9:377-383.
-
(2003)
RNA
, vol.9
, pp. 377-383
-
-
Silverman, S.K.1
-
6
-
-
67650713931
-
The structural and functional diversity of metabolite-binding riboswitches
-
Roth A., Breaker R.R. The structural and functional diversity of metabolite-binding riboswitches. Annu. Rev. Biochem. 2009, 78:305-334.
-
(2009)
Annu. Rev. Biochem.
, vol.78
, pp. 305-334
-
-
Roth, A.1
Breaker, R.R.2
-
7
-
-
34250833883
-
Smart aptamers facilitate multi-probe affinity analysis of proteins with ultra-wide dynamic range of measured concentrations
-
Drabovich A.P., Okhonin V., Berezovski M., Krylov S.N. Smart aptamers facilitate multi-probe affinity analysis of proteins with ultra-wide dynamic range of measured concentrations. J. Am. Chem. Soc. 2007, 129:7260-7261.
-
(2007)
J. Am. Chem. Soc.
, vol.129
, pp. 7260-7261
-
-
Drabovich, A.P.1
Okhonin, V.2
Berezovski, M.3
Krylov, S.N.4
-
8
-
-
69549120468
-
Thermodynamic basis for the optimization of binding-induced biomolecular switches and structure-switching biosensors
-
Vallée-Bélisle A., Ricci F., Plaxco K.W. Thermodynamic basis for the optimization of binding-induced biomolecular switches and structure-switching biosensors. Proc. Natl. Acad. Sci. U.S.A. 2009, 106:13802-13807.
-
(2009)
Proc. Natl. Acad. Sci. U.S.A.
, vol.106
, pp. 13802-13807
-
-
Vallée-Bélisle, A.1
Ricci, F.2
Plaxco, K.W.3
-
9
-
-
84884186095
-
Allosterically tunable, DNA-based switches triggered by heavy metals
-
Porchetta A., Vallée-Bélisle A., Plaxco K.W., Ricci F. Allosterically tunable, DNA-based switches triggered by heavy metals. J. Am. Chem. Soc. 2013, 135:13238-13241.
-
(2013)
J. Am. Chem. Soc.
, vol.135
, pp. 13238-13241
-
-
Porchetta, A.1
Vallée-Bélisle, A.2
Plaxco, K.W.3
Ricci, F.4
-
10
-
-
84856834769
-
Engineering biosensors with extended, narrowed, or arbitrarily edited dynamic range
-
Vallée-Bélisle A., Ricci F., Plaxco K.W. Engineering biosensors with extended, narrowed, or arbitrarily edited dynamic range. J. Am. Chem. Soc. 2012, 134:2876-2879.
-
(2012)
J. Am. Chem. Soc.
, vol.134
, pp. 2876-2879
-
-
Vallée-Bélisle, A.1
Ricci, F.2
Plaxco, K.W.3
-
11
-
-
84863219385
-
Re-engineering electrochemical biosensors to narrow or extend their useful dynamic range
-
Kang D., Vallée-Bélisle A., Porchetta A., Plaxco K.W., Ricci F. Re-engineering electrochemical biosensors to narrow or extend their useful dynamic range. Angew. Chem. Int. Ed. 2012, 51:6717-6721.
-
(2012)
Angew. Chem. Int. Ed.
, vol.51
, pp. 6717-6721
-
-
Kang, D.1
Vallée-Bélisle, A.2
Porchetta, A.3
Plaxco, K.W.4
Ricci, F.5
-
12
-
-
84871546095
-
Using distal-site mutations and allosteric inhibition to tune, extend, and narrow the useful dynamic range of aptamer-based sensors
-
Porchetta A., Vallée-Bélisle A., Plaxco K.W., Ricci F. Using distal-site mutations and allosteric inhibition to tune, extend, and narrow the useful dynamic range of aptamer-based sensors. J. Am. Chem. Soc. 2012, 134:20601-20604.
-
(2012)
J. Am. Chem. Soc.
, vol.134
, pp. 20601-20604
-
-
Porchetta, A.1
Vallée-Bélisle, A.2
Plaxco, K.W.3
Ricci, F.4
-
13
-
-
0025074907
-
In vitro selection of RNA molecules that bind specific ligands
-
Ellington A.D., Szostak J.W. In vitro selection of RNA molecules that bind specific ligands. Nature 1990, 346:818-822.
-
(1990)
Nature
, vol.346
, pp. 818-822
-
-
Ellington, A.D.1
Szostak, J.W.2
-
14
-
-
33744548059
-
Nucleic acid aptamers and enzymes as sensors
-
Navani N.K., Li Y. Nucleic acid aptamers and enzymes as sensors. Curr. Opin. Chem. Biol. 2006, 10:272-281.
-
(2006)
Curr. Opin. Chem. Biol.
, vol.10
, pp. 272-281
-
-
Navani, N.K.1
Li, Y.2
-
15
-
-
35148840942
-
Functional aptamers and aptazymes in biotechnology, diagnostics, and therapy
-
Famulok M., Hartig J.r.S., Mayer G.n. Functional aptamers and aptazymes in biotechnology, diagnostics, and therapy. Chem. Rev. 2007, 107:3715-3743.
-
(2007)
Chem. Rev.
, vol.107
, pp. 3715-3743
-
-
Famulok, M.1
Hartig, J.2
Mayer, G.3
-
16
-
-
66249097058
-
Functional nucleic acid sensors
-
Liu J., Cao Z., Lu Y. Functional nucleic acid sensors. Chem. Rev. 2009, 109:1948-1998.
-
(2009)
Chem. Rev.
, vol.109
, pp. 1948-1998
-
-
Liu, J.1
Cao, Z.2
Lu, Y.3
-
17
-
-
0026575221
-
Selection of single-stranded DNA molecules that bind and inhibit human thrombin
-
Bock L.C., Griffin L.C., Latham J.A., Vermaas E.H., Toole J.J. Selection of single-stranded DNA molecules that bind and inhibit human thrombin. Nature 1992, 355:564-566.
-
(1992)
Nature
, vol.355
, pp. 564-566
-
-
Bock, L.C.1
Griffin, L.C.2
Latham, J.A.3
Vermaas, E.H.4
Toole, J.J.5
-
18
-
-
33751020853
-
Quadruplex DNA: sequence, topology and structure
-
Burge S., Parkinson G.N., Hazel P., Todd A.K., Neidle S. Quadruplex DNA: sequence, topology and structure. Nucleic Acids Res. 2006, 34:5402-5415.
-
(2006)
Nucleic Acids Res.
, vol.34
, pp. 5402-5415
-
-
Burge, S.1
Parkinson, G.N.2
Hazel, P.3
Todd, A.K.4
Neidle, S.5
-
19
-
-
0035879386
-
Aptamer beacons for the direct detection of proteins
-
Hamaguchi N., Ellington A., Stanton M. Aptamer beacons for the direct detection of proteins. Anal. Biochem. 2001, 294:126-131.
-
(2001)
Anal. Biochem.
, vol.294
, pp. 126-131
-
-
Hamaguchi, N.1
Ellington, A.2
Stanton, M.3
-
20
-
-
0027467617
-
Thrombin-binding DNA aptamer forms a unimolecular quadruplex structure in solution
-
Macaya R.F., Schultze P., Smith F.W., Roe J.A., Feigon J. Thrombin-binding DNA aptamer forms a unimolecular quadruplex structure in solution. Proc. Natl. Acad. Sci. U.S.A. 1993, 90:3745-3749.
-
(1993)
Proc. Natl. Acad. Sci. U.S.A.
, vol.90
, pp. 3745-3749
-
-
Macaya, R.F.1
Schultze, P.2
Smith, F.W.3
Roe, J.A.4
Feigon, J.5
-
21
-
-
0027537022
-
A DNA aptamer which binds to and inhibits thrombin exhibits a new structural motif for DNA
-
Wang K.Y., McCurdy S., Shea R.G., Swaminathan S., Bolton P.H. A DNA aptamer which binds to and inhibits thrombin exhibits a new structural motif for DNA. Biochemistry 1993, 32:1899-1904.
-
(1993)
Biochemistry
, vol.32
, pp. 1899-1904
-
-
Wang, K.Y.1
McCurdy, S.2
Shea, R.G.3
Swaminathan, S.4
Bolton, P.H.5
-
22
-
-
0027172294
-
The structure of alpha-thrombin inhibited by a 15-mer single-stranded DNA aptamer
-
Padmanabhan K., Padmanabhan K.P., Ferrara J.D., Sadler J.E., Tulinsky A. The structure of alpha-thrombin inhibited by a 15-mer single-stranded DNA aptamer. J. Biol. Chem. 1993, 268:17651-17654.
-
(1993)
J. Biol. Chem.
, vol.268
, pp. 17651-17654
-
-
Padmanabhan, K.1
Padmanabhan, K.P.2
Ferrara, J.D.3
Sadler, J.E.4
Tulinsky, A.5
-
23
-
-
0030064793
-
An ambiguous structure of a DNA 15-mer thrombin complex
-
Padmanabhan K., Tulinsky A. An ambiguous structure of a DNA 15-mer thrombin complex. Acta Crystallogr. D 1996, 52:272-282.
-
(1996)
Acta Crystallogr. D
, vol.52
, pp. 272-282
-
-
Padmanabhan, K.1
Tulinsky, A.2
-
24
-
-
84898668187
-
G-quadruplexes incorporating modified constituents: a review
-
Sagi J. G-quadruplexes incorporating modified constituents: a review. J. Biomol. Struct. Dyn. 2013, 1-35.
-
(2013)
J. Biomol. Struct. Dyn.
, pp. 1-35
-
-
Sagi, J.1
-
25
-
-
84877690158
-
Insight into the molecular recognition of spermine by DNA quadruplexes from an NMR study of the association of spermine with the thrombin-binding aptamer
-
Keniry M.A., Owen E.A. Insight into the molecular recognition of spermine by DNA quadruplexes from an NMR study of the association of spermine with the thrombin-binding aptamer. J. Mol. Recognit. 2013, 26:308-317.
-
(2013)
J. Mol. Recognit.
, vol.26
, pp. 308-317
-
-
Keniry, M.A.1
Owen, E.A.2
-
26
-
-
33746928345
-
Aptamer conformational switch as sensitive electrochemical biosensor for potassium ion recognition
-
Radi A.-E., O'Sullivan C.K. Aptamer conformational switch as sensitive electrochemical biosensor for potassium ion recognition. Chem. Commun. 2006, 3432-3434.
-
(2006)
Chem. Commun.
, pp. 3432-3434
-
-
Radi, A.-E.1
O'Sullivan, C.K.2
-
27
-
-
77149133392
-
Potassium-sensitive G-quadruplex DNA for sensitive visible potassium detection
-
Yang X., Li T., Li B., Wang E. Potassium-sensitive G-quadruplex DNA for sensitive visible potassium detection. Analyst 2010, 135:71-75.
-
(2010)
Analyst
, vol.135
, pp. 71-75
-
-
Yang, X.1
Li, T.2
Li, B.3
Wang, E.4
-
28
-
-
84859982563
-
Fluorescence imaging of potassium ions in living cells using a fluorescent probe based on a thrombin binding aptamer-peptide conjugate
-
Ohtsuka K., Sato S., Sato Y., Sota K., Ohzawa S., Matsuda T., Takemoto K., Takamune N., Juskowiak B., Nagai T., et al. Fluorescence imaging of potassium ions in living cells using a fluorescent probe based on a thrombin binding aptamer-peptide conjugate. Chem. Commun. 2012, 48:4740-4742.
-
(2012)
Chem. Commun.
, vol.48
, pp. 4740-4742
-
-
Ohtsuka, K.1
Sato, S.2
Sato, Y.3
Sota, K.4
Ohzawa, S.5
Matsuda, T.6
Takemoto, K.7
Takamune, N.8
Juskowiak, B.9
Nagai, T.10
-
29
-
-
68049137318
-
Crystal violet-G-quadruplex complexes as fluorescent sensors for homogeneous detection of potassium ion
-
Kong D.-M., Guo J.-H., Yang W., Ma Y.-E., Shen H.-X. Crystal violet-G-quadruplex complexes as fluorescent sensors for homogeneous detection of potassium ion. Biosens. Bioelectron. 2009, 25:88-93.
-
(2009)
Biosens. Bioelectron.
, vol.25
, pp. 88-93
-
-
Kong, D.-M.1
Guo, J.-H.2
Yang, W.3
Ma, Y.-E.4
Shen, H.-X.5
-
30
-
-
84862225337
-
Ultrasensitive detection of potassium ions based on target induced DNA conformational switch enhanced fluorescence polarization
-
Hu K., Huang Y., Zhao S., Tian J., Wu Q., Zhang G., Jiang J. Ultrasensitive detection of potassium ions based on target induced DNA conformational switch enhanced fluorescence polarization. Analyst 2012, 137:2770-2773.
-
(2012)
Analyst
, vol.137
, pp. 2770-2773
-
-
Hu, K.1
Huang, Y.2
Zhao, S.3
Tian, J.4
Wu, Q.5
Zhang, G.6
Jiang, J.7
-
31
-
-
84863116181
-
Cationic conjugated polyelectrolytes-triggered conformational change of molecular beacon aptamer for highly sensitive and selective potassium ion detection
-
Kim B., Jung I.H., Kang M., Shim H.-K., Woo H.Y. Cationic conjugated polyelectrolytes-triggered conformational change of molecular beacon aptamer for highly sensitive and selective potassium ion detection. J. Am. Chem. Soc. 2012, 134:3133-3138.
-
(2012)
J. Am. Chem. Soc.
, vol.134
, pp. 3133-3138
-
-
Kim, B.1
Jung, I.H.2
Kang, M.3
Shim, H.-K.4
Woo, H.Y.5
-
32
-
-
58649096996
-
G-Quadruplex-based DNAzyme as a sensing platform for ultrasensitive colorimetric potassium detection
-
Li T., Wang E., Dong S. G-Quadruplex-based DNAzyme as a sensing platform for ultrasensitive colorimetric potassium detection. Chem. Commun. 2009, 580-582.
-
(2009)
Chem. Commun.
, pp. 580-582
-
-
Li, T.1
Wang, E.2
Dong, S.3
-
33
-
-
83455164149
-
Fluorescence detection of potassium ion using the G-Quadruplex structure
-
Takenaka S., Juskowiak B. Fluorescence detection of potassium ion using the G-Quadruplex structure. Anal. Sci. 2011, 27:1167.
-
(2011)
Anal. Sci.
, vol.27
, pp. 1167
-
-
Takenaka, S.1
Juskowiak, B.2
-
35
-
-
0042121256
-
MFold web server for nucleic acid folding and hybridization prediction
-
Zuker M. mFold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res. 2003, 31:3406-3415.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 3406-3415
-
-
Zuker, M.1
-
36
-
-
84934438960
-
Bioinformatics, volume II
-
Humana Press, Totowa, NJ, J.M. Keith (Ed.)
-
Markham N.R., Zuker M. Bioinformatics, volume II. Structure, Function and Applications 2008, vol. 453:3-31. Humana Press, Totowa, NJ. J.M. Keith (Ed.).
-
(2008)
Structure, Function and Applications
, vol.453
, pp. 3-31
-
-
Markham, N.R.1
Zuker, M.2
-
37
-
-
84855959280
-
Toward a digital gene response: RNA G-Quadruplexes with fewer quartets fold with higher cooperativity
-
Mullen M.A., Assmann S.M., Bevilacqua P.C. Toward a digital gene response: RNA G-Quadruplexes with fewer quartets fold with higher cooperativity. J. Am. Chem. Soc. 2012, 134:812-815.
-
(2012)
J. Am. Chem. Soc.
, vol.134
, pp. 812-815
-
-
Mullen, M.A.1
Assmann, S.M.2
Bevilacqua, P.C.3
-
39
-
-
52949116414
-
Assembling materials with DNA as the guide
-
Aldaye F.A., Palmer A.L., Sleiman H.F. Assembling materials with DNA as the guide. Science 2008, 321:1795-1799.
-
(2008)
Science
, vol.321
, pp. 1795-1799
-
-
Aldaye, F.A.1
Palmer, A.L.2
Sleiman, H.F.3
-
40
-
-
0028318228
-
Sequence specific thermodynamic and structural properties for DNA·RNA duplexes
-
Ratmeyer L., Vinayak R., Zhong Y.Y., Zon G., Wilson W.D. Sequence specific thermodynamic and structural properties for DNA·RNA duplexes. Biochemistry 1994, 33:5298-5304.
-
(1994)
Biochemistry
, vol.33
, pp. 5298-5304
-
-
Ratmeyer, L.1
Vinayak, R.2
Zhong, Y.Y.3
Zon, G.4
Wilson, W.D.5
-
41
-
-
84859336756
-
Elongated thrombin binding aptamer: AG-Quadruplex cation-sensitive conformational switch
-
De Rache A., Kejnovská I., Vorlíčková M., Buess-Herman C. Elongated thrombin binding aptamer: AG-Quadruplex cation-sensitive conformational switch. Chem. A Eur. J. 2012, 18:4392-4400.
-
(2012)
Chem. A Eur. J.
, vol.18
, pp. 4392-4400
-
-
De Rache, A.1
Kejnovská, I.2
Vorlíčková, M.3
Buess-Herman, C.4
-
42
-
-
84877360086
-
Aptamer biosensor for label-free impedance spectroscopy detection of potassium ion based on DNA G-quadruplex conformation
-
Chen Z., Chen L., Ma H., Zhou T., Li X. Aptamer biosensor for label-free impedance spectroscopy detection of potassium ion based on DNA G-quadruplex conformation. Biosens. Bioelectron. 2013, 48:108-112.
-
(2013)
Biosens. Bioelectron.
, vol.48
, pp. 108-112
-
-
Chen, Z.1
Chen, L.2
Ma, H.3
Zhou, T.4
Li, X.5
|