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J. S.  Cumbie, Ivanchenko, M. G., and Megraw, M., ?NanoCAGE-XL and CapFilter: an approach to genome wide identification of high confidence transcription start sites.?, BMC Genomics, vol. 16, p. 597, 2015.\par \par T.  Morton, Petricka, J., Corcoran, D. L., Li, S., Winter, C. M., Carda, A., Benfey, P. N., Ohler, U., and Megraw, M., ?Paired-end analysis of transcription start sites in Arabidopsis reveals plant-specific promoter signatures.?, Plant Cell, vol. 26, no. 7, pp. 2746-60, 2014.\par \par M.  Megraw and Hatzigeorgiou, A. G., ?MicroRNA promoter analysis.?, Methods Mol Biol, vol. 592, pp. 149-61, 2010.\par \par M.  Megraw, Pereira, F., Jensen, S. T., Ohler, U., and Hatzigeorgiou, A. G., ?A transcription factor affinity-based code for mammalian transcription initiation.?, Genome Res, vol. 19, no. 4, pp. 644-56, 2009.\par \par M.  Megraw, Baev, V., Rusinov, V., Jensen, S. T., Kalantidis, K., and Hatzigeorgiou, A. G., ?MicroRNA promoter element discovery in Arabidopsis.?, RNA, vol. 12, no. 9, pp. 1612-9, 2006.\par \par }