Method for modulating gene expression

A method for altering the structure of a polynucleotide comprising the steps of:

• selecting a polynucleotide binding agent binding site and polynucleotide binding agent;
• contacting a polynucleotide with said binding site and binding agent;
• and
• detecting an alteration in the structure of said polynucleotide, wherein said polynucleotide binding agent is selected from the group consisting of:
• malachite green, a photoreactive dye, a free radical generating compound, an iron salt, an iron ion, a radioactive iron radionuclide, isofuran blue, an isosulfan blue derivative, reactive sulfonyl chloride of isosulfan blue, hypocrellins and hypericin, tetrabromorhodamine, Rose Bengal photooxidizing dye, a FotoFenton reagent, 2-mercaptopyridine N-oxide, phenanthrolines, a spontaneous nitric oxide donor, DEANO, spermine NONOate, S-nitrosoglutathione, SNAP, SIN-1, M-7904, 2-hydroxyacetophenone oxime and Fenton's reagent.

A method for modulating the function of a polynucleotide comprising the steps of:

• selecting a polynucleotide binding agent binding site and polynucleotide binding agent;
• contacting a polynucleotide with said binding site and binding agent;
• and
• detecting modulation of said function, wherein said polynucleotide binding agent is selected from the group consisting of:
• malachite green, a photoreactive dye, a free radical generating compound, an iron salt, an iron ion, a radioactive iron radionuclide, isofuran blue, an isosulfan blue derivative, reactive sulfonyl chloride of isosulfan blue, hypocrellins and hypericin, tetrabromorhodamine, Rose Bengal photooxidizing dye, a FotoFenton reagent, 2-mercaptopyridine N-oxide, phenanthrolines, a spontaneous nitric oxide donor, DEANO, sperimine NONOate, S-nitrosoglutathione, SNAP, SIN-1, M-7904, 2-hydroxyacetophenone oxime and Fenton's reagent.

A method for modulating gene expression comprising the steps of:

• selecting a polynucleotide binding agent binding site and polynucleotide binding agent;
• contacting an organism with said binding site and binding agent irradiating said binding agent with electromagnetic radiation;
• and
• selected from the group of gene expression, wherein said polynucleotide binding agent is generating from the group consisting of:
• malachite green, a photoreactive dye, a free radical generating compound, an iron salt, an iron ion, a radioactive iron radionuclide, isofuran blue, an isosulfan blue derivative, reactive sulfonyl chloride of isosulfan blue, hypocrellins and hypericin, tetrabromorhodamine, Rose Bengal photooxidizing dye, a FotoFenton reagent, 2-mercaptopyridine N-oxide, phenanthrolines, a spontaneous nitric oxide donor, DEANO, spermine NONOate, S-nitrosoglutathione, SNAP, SIN-1, M-7904, 2-hydroxyacetophenone oxime and Fenton's reagent.

A method for modulating gene expression comprising the steps of:

• selecting a polynucleotide binding agent binding site and polynucleotide binding agent;
• contacting an organism with said binding site and binding agent;
• and
• detecting modulation of gene expression, wherein said binding site is selected from the group consisting of that bind:
• malachite green, a photoreactive dye, a free radical generating compound, an iron salt, an iron ion, a radioactive iron radionuclide, isofuran blue, an isosulfan blue derivative, reactive sulfonyl chloride of isosulfan blue, hypocrellins and hypericin, tetrabromorhodamine, Rose Bengal photooxidizing dye, a FotoFenton reagent, 2-mercaptopyridine N-oxide, phenanthrolines, a spontaneous nitric oxide donor, DEANO, spermine NONOate, S-nitrosoglutathione, SNAP, SIN-1, M-7904, 2-hydroxyacetophenone oxime or Fenton's reagent.