DNA Sequence Context and Protein Composition Modulate HMG-Domain Protein Recognition of Cisplatin-Modified DNA†

Biochemistry ◽  
1997 ◽  
Vol 36 (38) ◽  
pp. 11428-11436 ◽  
Author(s):  
Shari U. Dunham ◽  
Stephen J. Lippard
Keyword(s):  
Dna Sequence ◽  
Protein Composition ◽  
Protein Recognition ◽  
Sequence Context ◽  
Modified Dna ◽  
Domain Protein

scholarly journals DNA Sequence Context as a Determinant of the Quantity and Chemistry of Guanine Oxidation Produced by Hydroxyl Radicals and One-electron Oxidants

2008 ◽  
Vol 283 (51) ◽  
pp. 35569-35578 ◽  
Author(s):  
Yelena Margolin ◽  
Vladimir Shafirovich ◽  
Nicholas E. Geacintov ◽  
Michael S. DeMott ◽  
Peter C. Dedon
Keyword(s):  
Dna Sequence ◽  
Hydroxyl Radicals ◽  
Sequence Context ◽  
Guanine Oxidation

Stopped-Flow Fluorescence Studies of HMG-Domain Protein Binding to Cisplatin-Modified DNA†

Biochemistry ◽  
2000 ◽  
Vol 39 (29) ◽  
pp. 8426-8438 ◽  
Author(s):  
Elizabeth R. Jamieson ◽  
Stephen J. Lippard
Keyword(s):  
Protein Binding ◽  
Stopped Flow ◽  
Fluorescence Studies ◽  
Modified Dna ◽  
Domain Protein

Thermodynamic, Spectroscopic, and Equilibrium Binding Studies of DNA Sequence Context Effects in Six 22-Base Pair Deoxyoligonucleotides

Biochemistry ◽  
1999 ◽  
Vol 38 (34) ◽  
pp. 11197-11208 ◽  
Author(s):  
Peter V. Riccelli ◽  
Peter M. Vallone ◽  
Irina Kashin ◽  
Brian D. Faldasz ◽  
Michael J. Lane ◽  
...  
Keyword(s):  
Dna Sequence ◽  
Base Pair ◽  
Context Effects ◽  
Binding Studies ◽  
Sequence Context ◽  
Equilibrium Binding

scholarly journals Modulating the properties of DNA-SWCNT sensors using chemically modified DNA

2021 ◽  
Author(s):  
Alice J. Gillen ◽  
Benjamin P. Lambert ◽  
Alessandra Antonucci ◽  
Daniel Molina-Romero ◽  
Ardemis A. Boghossian
Keyword(s):  
Dna Sequence ◽  
Fluorescence Intensity ◽  
Dna Sequences ◽  
Attractive Alternative ◽  
Laser Exposure ◽  
Chemically Modified ◽  
Modified Dna ◽  
Penetration Depths

AbstractProperties of SWCNT-based sensors such as brightness and detection capabilities strongly depend on the characteristics of the wrapping used to suspend the nanotubes. In this study, we explore ways to modify the properties of DNA-SWCNT sensors by using chemically modified DNA sequences, with the aim of creating sensors more suitable for use in in vivo and in vitro applications. We show that both the fluorescence intensity and sensor reactivity are strongly impacted not only by the chemical modification of the DNA but also by the method of preparation. In the absence of modifications, the sensors prepared using MeOH-assisted surfactant exchange exhibited higher overall fluorescence compared to those prepared by direct sonication. However, we demonstrate that the incorporation of chemical modifications in the DNA sequence could be used to enhance the fluorescence intensity of sonicated samples. We attribute these improvements to both a change in dispersion efficiency as well as to a change in SWCNT chirality distribution.Furthermore, despite their higher intensities, the response capabilities of sensors prepared by MeOH-assisted surfactant exchange were shown to be significantly reduced compared to their sonicated counterparts. Sonicated sensors exhibited a globally higher turn-on response towards dopamine compared to the exchanged samples, with modified samples retaining their relative intensity enhancement. As the increases in fluorescence intensity were achieved without needing to alter the base sequence of the DNA wrapping or to add any exogenous compounds, these modifications can - in theory - be applied to nearly any DNA sequence to increase the brightness and penetration depths of a variety of DNA-SWCNT sensors without affecting biocompatibility or reducing the near-limitless sequence space available. This makes these sensors an attractive alternative for dopamine sensing in vitro and in vivo by enabling significantly higher penetration depths and shorter laser exposure times.

scholarly journals DNA Sequence Context Effects on the Glycosylase Activity of Human 8-Oxoguanine DNA Glycosylase

2012 ◽  
Vol 287 (44) ◽  
pp. 36702-36710 ◽  
Author(s):  
Akira Sassa ◽  
William A. Beard ◽  
Rajendra Prasad ◽  
Samuel H. Wilson
Keyword(s):  
Dna Sequence ◽  
Context Effects ◽  
Dna Glycosylase ◽  
Sequence Context

scholarly journals DNA sequence context as a marker of CpG methylation instability in normal and cancer tissues

2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Giovanni Scala ◽  
Antonio Federico ◽  
Domenico Palumbo ◽  
Sergio Cocozza ◽  
Dario Greco
Keyword(s):  
Dna Sequence ◽  
Cpg Methylation ◽  
Sequence Context ◽  
Cancer Tissues
Sign in / Sign up

Export Citation Format

Share Document