Quantitative microarray profiling of DNA-binding molecules.

نویسندگان

  • James W Puckett
  • Katy A Muzikar
  • Josh Tietjen
  • Christopher L Warren
  • Aseem Z Ansari
  • Peter B Dervan
چکیده

A high-throughput Cognate Site Identity (CSI) microarray platform interrogating all 524 800 10-base pair variable sites is correlated to quantitative DNase I footprinting data of DNA binding pyrrole-imidazole polyamides. An eight-ring hairpin polyamide programmed to target the 5 bp sequence 5'-TACGT-3' within the hypoxia response element (HRE) yielded a CSI microarray-derived sequence motif of 5'-WWACGT-3' (W = A,T). A linear beta-linked polyamide programmed to target a (GAA)3 repeat yielded a CSI microarray-derived sequence motif of 5'-AARAARWWG-3' (R = G,A). Quantitative DNase I footprinting of selected sequences from each microarray experiment enabled quantitative prediction of Ka values across the microarray intensity spectrum.

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عنوان ژورنال:
  • Journal of the American Chemical Society

دوره 129 40  شماره 

صفحات  -

تاریخ انتشار 2007