Can One Predict DNA Transcription Start Sites by Studying Bubbles?
نویسندگان
چکیده
منابع مشابه
Can one predict DNA transcription start sites by studying bubbles?
It has been speculated that bubble formation of several base pairs due to thermal fluctuations is indicatory for biologically active sites. Recent evidence, based on experiments and molecular dynamics simulations using the Peyrard-Bishop-Dauxois model, seems to point in this direction. However, sufficiently large bubbles appear only seldom, which makes an accurate calculation difficult even for...
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C.H. Choi, A. Usheva, G. Kalosakas, K. Ø. Rasmussen, and A. R. Bishop Beth Israel Deaconess Medical Center and Harvard Medical School, 99 Brookline Avenue, Boston, Massachusetts 02215 Max Planck Institute for the Physics of Complex Systems, Nöthnitzer Str. 38, D-01187 Dresden, Germany Theoretical Division and Center for Nonlinear Studies, Los Alamos National Laboratory, Los Alamos, New Mexico 8...
متن کامل7 N ov 2 00 5 Can one predict DNA Transcription Start Sites by studying bubbles ?
It has been speculated that bubble formation of several base-pairs due to thermal fluctuations is indicatory for biological active sites. Recent evidence, based on experiments and molecular dynamics (MD) simulations using the Peyrard-Bishop-Dauxois model, seems to point in this direction. However, sufficiently large bubbles appear only seldom which makes an accurate calculation difficult even f...
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Alignments of homologous genomic sequences are widely used to identify functional genetic elements and study their evolution. Most studies tacitly equate homology of functional elements with sequence homology. This assumption is violated by the phenomenon of turnover, in which functionally equivalent elements reside at locations that are nonorthologous at the sequence level. Turnover has been d...
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and last paragraph of the intro, The claim that this is a new mechanism of retrotransposon regulation by transcription start site control is not true. The authors are apparently unaware of the work by David Garfinkel's lab on Ty1. Saha et al identified a downstream TSS that expresses a protein that inhibits Ty1 (Journal of Virology 2015, Jan 21). The downstream TSS is regulated by a subunit of ...
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ژورنال
عنوان ژورنال: Physical Review Letters
سال: 2005
ISSN: 0031-9007,1079-7114
DOI: 10.1103/physrevlett.95.218104