Position and distance specificity are important determinants of cis-regulatory motifs in addition to evolutionary conservation.
Position and distance specificity are important determinants of cis-regulatory motifs in addition to evolutionary conservation.
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位置和距离特异性除了进化保护外，是顺式调节基序的重要决定因素。
DOI：
10.1093/nar/gkm201
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发表时间：
2007
影响因子：
14.9
通讯作者：
Hannenhalli, Sridhar
中科院分区：
文献类型：
--
作者：
Vardhanabhuti, Saran;Wang, Junwen;Hannenhalli, Sridhar
Computational discovery of cis-regulatory elements remains challenging. To cope with the high false positives, evolutionary conservation is routinely used. However, conservation is only one of the attributes of cis-regulatory elements and is neither necessary nor sufficient. Here, we assess two additional attributes—positional and inter-motif distance specificity—that are critical for interactions between transcription factors. We first show that for a greater than expected fraction of known motifs, the genes that contain the motifs in their promoters in a position-specific or distance-specific manner are related, both in function and/or in expression pattern. We then use the position and distance specificity to discover novel motifs. Our work highlights the importance of distance and position specificity, in addition to the evolutionary conservation, in discovering cis-regulatory motifs.
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影响因子：
10.5
作者：
Butler, JEF;Kadonaga, JT
通讯作者：
Kadonaga, JT
影响因子：
2.5
作者：
Hannenhalli, S;Levy, S
通讯作者：
Levy, S
影响因子：
2.5
作者：
Levy, S;Hannenhalli, S
通讯作者：
Hannenhalli, S
影响因子：
10.5
作者：
Lim, CY;Santoso, B;Kadonaga, JT
通讯作者：
Kadonaga, JT
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3.8
作者：
Poch, MT;Al-Kassim, L;Hines, RN
通讯作者：
Hines, RN