CisMols Analyzer: identification of compositionally similar cis-elemen
http://www.100md.com
《核酸研究医学期刊》
The authors would like to apologize for the omission of a reference in the conclusion. The corrected sentences affected and the complete missing reference details are given below.
Clearly, there is a paradox in the phylogenetic footprinting approach. To recognize conserved regulatory elements, there should be enough evolutionary distance to allow differential drift of sequences that flank the regulatory regions. However, this evolutionary distance can also decrease the conservation of, and thus ability to recognize, short cis-element motifs (see ref. 17).
17. Berezikov,E., Guryev,V., Plasterk,R.H. and Cuppen,E. (2004) CONREAL: conserved regulatory elements anchored alignment algorithm for identification of transcription factor binding sites by phylogenetic footprinting. Genome Res., 14, 170–178.(Anil G. Jegga, Ashima Gupta, Sivakumar G)
Clearly, there is a paradox in the phylogenetic footprinting approach. To recognize conserved regulatory elements, there should be enough evolutionary distance to allow differential drift of sequences that flank the regulatory regions. However, this evolutionary distance can also decrease the conservation of, and thus ability to recognize, short cis-element motifs (see ref. 17).
17. Berezikov,E., Guryev,V., Plasterk,R.H. and Cuppen,E. (2004) CONREAL: conserved regulatory elements anchored alignment algorithm for identification of transcription factor binding sites by phylogenetic footprinting. Genome Res., 14, 170–178.(Anil G. Jegga, Ashima Gupta, Sivakumar G)