scholarly journals Molecular methods for assessment of non-covalent metallodrug–DNA interactions

2019 ◽  
Vol 48 (4) ◽  
pp. 971-988 ◽  
Author(s):  
Andrew Kellett ◽  
Zara Molphy ◽  
Creina Slator ◽  
Vickie McKee ◽  
Nicholas P. Farrell
Keyword(s):  
Nucleic Acid ◽  
Molecular Methods ◽  
Dna Interactions ◽  
Nucleic Acid Interactions

Herein we provide an accessible account of molecular methods to probe inorganic–nucleic acid interactions. Techniques are described using copper(ii) and platinum(ii) complexes prepared in our laboratories.

scholarly journals Universal correction of enzymatic sequence bias reveals molecular signatures of protein/DNA interactions

2017 ◽  
Author(s):  
André L. Martins ◽  
Ninad M. Walavalkar ◽  
Warren D. Anderson ◽  
Chongzhi Zang ◽  
Michael J. Guertin
Keyword(s):  
Experimental Data ◽  
Transcription Factors ◽  
Nucleic Acid ◽  
High Throughput Sequencing ◽  
Molecular Signatures ◽  
Dna Interactions ◽  
Protein Dna Interactions ◽  
Resolution Mapping ◽  
Nucleic Acid Interactions ◽  
Sequence Bias

AbstractCoupling molecular biology to high throughput sequencing has revolutionized the study of biology. Molecular genomics techniques are continually refined to provide higher resolution mapping of nucleic acid interactions and structure. Sequence preferences of enzymes can interfere with the accurate interpretation of these data. We developed seqOutBias to characterize enzymatic sequence bias from experimental data and scale individual sequence reads to correct intrinsic enzymatic sequence biases. SeqOutBias efficiently corrects DNase-seq, TACh-seq, ATAC-seq, MNase-seq, and PRO-seq data. We show that seqOutBias correction facilitates identification of true molecular signatures resulting from transcription factors and RNA polymerase interacting with DNA.

Snapshot blotting: The transfer of nucleic acids and nucleoprotein complexes from electrophoresis gels to EM grids

1992 ◽  
Vol 50 (1) ◽  
pp. 762-763
Author(s):  
Stephen D. Jett
Keyword(s):  
Nucleic Acid ◽  
Nucleic Acids ◽  
Nucleic Acid Binding ◽  
Mobility Shift ◽  
Carbon Coated ◽  
Nucleoprotein Complexes ◽  
Mobility Shift Assay ◽  
Protein Nucleic Acid ◽  
Gel Mobility Shift ◽  
Nucleic Acid Interactions

The electrophoresis gel mobility shift assay is a popular method for the study of protein-nucleic acid interactions. The binding of proteins to DNA is characterized by a reduction in the electrophoretic mobility of the nucleic acid. Binding affinity, stoichiometry, and kinetics can be obtained from such assays; however, it is often desirable to image the various species in the gel bands using TEM. Present methods for isolation of nucleoproteins from gel bands are inefficient and often destroy the native structure of the complexes. We have developed a technique, called “snapshot blotting,” by which nucleic acids and nucleoprotein complexes in electrophoresis gels can be electrophoretically transferred directly onto carbon-coated grids for TEM imaging.

Visualization of drug-nucleic acid interactions at atomic resolution

1977 ◽  
Vol 114 (3) ◽  
pp. 333-365 ◽  
Author(s):  
Henry M. Sobell ◽  
Chun-Che Tsai ◽  
Shri C. Jain ◽  
Steven G. Gilbert
Keyword(s):  
Nucleic Acid ◽  
Atomic Resolution ◽  
Nucleic Acid Interactions

Implications and concepts of polyamine-nucleic acid interactions

1991 ◽  
Vol 46 (1) ◽  
pp. 37-47 ◽  
Author(s):  
Burt G. Feuerstein ◽  
Loren D. Williams ◽  
Hirak S. Basu ◽  
Laurence J. Marton
Keyword(s):  
Nucleic Acid ◽  
Nucleic Acid Interactions

Use of difference boundary sedimentation velocity to investigate nonspecific protein-nucleic acid interactions

Biochemistry ◽  
1980 ◽  
Vol 19 (15) ◽  
pp. 3516-3522 ◽  
Author(s):  
Timothy M. Lohman ◽  
C. Glen Wensley ◽  
Jeffrey Cina ◽  
Richard R. Burgess ◽  
M. Thomas Record
Keyword(s):  
Nucleic Acid ◽  
Sedimentation Velocity ◽  
Protein Nucleic Acid ◽  
Nucleic Acid Interactions

Protein—nucleic acid interactions Folding and binding Web alert

1998 ◽  
Vol 8 (1) ◽  
pp. 9-10 ◽  
Author(s):  
PhilipE Bourne ◽  
Judith Murray-Rust ◽  
JeremyH Lakey
Keyword(s):  
Nucleic Acid ◽  
Protein Nucleic Acid ◽  
Nucleic Acid Interactions

Single-molecule nucleic acid interactions monitored on a label-free microcavity biosensor platform

2014 ◽  
Vol 9 (11) ◽  
pp. 933-939 ◽  
Author(s):  
Martin D. Baaske ◽  
Matthew R. Foreman ◽  
Frank Vollmer
Keyword(s):  
Nucleic Acid ◽  
Single Molecule ◽  
Label Free ◽  
Nucleic Acid Interactions

Nonspecific Prion Protein–Nucleic Acid Interactions Lead to Different Aggregates and Cytotoxic Species

Biochemistry ◽  
2012 ◽  
Vol 51 (27) ◽  
pp. 5402-5413 ◽  
Author(s):  
Bruno Macedo ◽  
Thiago A. Millen ◽  
Carolina A. C. A. Braga ◽  
Mariana P. B. Gomes ◽  
Priscila S. Ferreira ◽  
...  
Keyword(s):  
Nucleic Acid ◽  
Prion Protein ◽  
Protein Nucleic Acid ◽  
Nucleic Acid Interactions
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