کد مقاله | کد نشریه | سال انتشار | مقاله انگلیسی | نسخه تمام متن |
---|---|---|---|---|
2819109 | 1569907 | 2008 | 6 صفحه PDF | دانلود رایگان |
عنوان انگلیسی مقاله ISI
Using estimative reaction free energy to predict splice sites and their flanking competitors
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کلمات کلیدی
SFsprecursor messenger RNAMM1Splice site predictionRFEMIPMDDPWMROCSplice site - بستن سایتAlternative splicing - جابجایی جایگزینMaximum entropy model - حداکثر مدل آنتروپیSensitivity - حساسیتPre-mRNA - قبل از mRNAPosition weight matrix - ماتریس وزن موقعیتMEM - مامانInformation content - محتوای اطلاعاتSpecificity - ویژگیreceiver operating characteristics - ویژگی های عملکرد گیرنده
موضوعات مرتبط
علوم زیستی و بیوفناوری
بیوشیمی، ژنتیک و زیست شناسی مولکولی
ژنتیک
پیش نمایش صفحه اول مقاله
چکیده انگلیسی
A crucial part in the gene structure prediction is to identify the accurate splice sites, not only constitutive but also alternative ones. Here, we use the maximum information principle (MIP) to analyze the conservative segments around splice sites. According to the MIP, a reaction free energy (RFE) expression is deduced, which can be employed to estimate the free energy change during splicing reaction involving a donor or acceptor site. The expression contains not only the background probability factors, but also all kinds of dependencies among both adjacent and non-adjacent bases. We apply the RFE expression to recognize splice sites and their flanking competitors in human genes, the results show high sensitivity and specificity, so the RFE expression accords well with the splicing reaction process. Moreover, the RFE expression is better than previous methods for predicting competitors of splice sites, and it outperforms the reaction free energy subtraction (RFES), that implies RFE competition between a given splice site and its flanking competitor may not be an only primary factor for alternative splice site selection. The work is helpful to not only the understanding of splicing reaction from its relation to MIP, but also the research on computational recognition of splicing sites and alternative splice events.
ناشر
Database: Elsevier - ScienceDirect (ساینس دایرکت)
Journal: Gene - Volume 424, Issues 1â2, 15 November 2008, Pages 115-120
Journal: Gene - Volume 424, Issues 1â2, 15 November 2008, Pages 115-120
نویسندگان
Hong-Ying Jin, Liao-Fu Luo, Li-Rong Zhang,