Finding Transcription Factor Binding Motifs for Coregulated Genes by Combining Sequence Overrepresentation with Cross-Species Conservation
المؤلفون المشاركون
المصدر
Journal of Probability and Statistics
العدد
المجلد 2012، العدد 2012 (31 ديسمبر/كانون الأول 2012)، ص ص. 1-18، 18ص.
الناشر
Hindawi Publishing Corporation
تاريخ النشر
2012-06-25
دولة النشر
مصر
عدد الصفحات
18
التخصصات الرئيسية
الملخص EN
Novel computational methods for finding transcription factor binding motifs have long been sought due to tedious work of experimentally identifying them.
However, the current prevailing methods yield a large number of false positive predictions due to the short, variable nature of transcriptional factor binding sites (TFBSs).
We proposed here a method that combines sequence overrepresentation and cross-species sequence conservation to detect TFBSs in upstream regions of a given set of coregulated genes.
We applied the method to 35 S.
cerevisiae transcriptional factors with known DNA binding motifs (with the support of orthologous sequences from genomes of S.
mikatae, S.
bayanus, and S.
paradoxus), and the proposed method outperformed the single-genome-based motif finding methods MEME and AlignACE as well as the multiple-genome-based methods PHYME and Footprinter for the majority of these transcriptional factors.
Compared with the prevailing motif finding software, our method has some advantages in finding transcriptional factor binding motifs for potential coregulated genes if the gene upstream sequences of multiple closely related species are available.
Although we used yeast genomes to assess our method in this study, it might also be applied to other organisms if suitable related species are available and the upstream sequences of coregulated genes can be obtained for the multiple closely related species.
نمط استشهاد جمعية علماء النفس الأمريكية (APA)
Jia, Hui& Li, Jinming. 2012. Finding Transcription Factor Binding Motifs for Coregulated Genes by Combining Sequence Overrepresentation with Cross-Species Conservation. Journal of Probability and Statistics،Vol. 2012, no. 2012, pp.1-18.
https://search.emarefa.net/detail/BIM-501573
نمط استشهاد الجمعية الأمريكية للغات الحديثة (MLA)
Jia, Hui& Li, Jinming. Finding Transcription Factor Binding Motifs for Coregulated Genes by Combining Sequence Overrepresentation with Cross-Species Conservation. Journal of Probability and Statistics No. 2012 (2012), pp.1-18.
https://search.emarefa.net/detail/BIM-501573
نمط استشهاد الجمعية الطبية الأمريكية (AMA)
Jia, Hui& Li, Jinming. Finding Transcription Factor Binding Motifs for Coregulated Genes by Combining Sequence Overrepresentation with Cross-Species Conservation. Journal of Probability and Statistics. 2012. Vol. 2012, no. 2012, pp.1-18.
https://search.emarefa.net/detail/BIM-501573
نوع البيانات
مقالات
لغة النص
الإنجليزية
الملاحظات
Includes bibliographical references
رقم السجل
BIM-501573
قاعدة معامل التأثير والاستشهادات المرجعية العربي "ارسيف Arcif"
أضخم قاعدة بيانات عربية للاستشهادات المرجعية للمجلات العلمية المحكمة الصادرة في العالم العربي
تقوم هذه الخدمة بالتحقق من التشابه أو الانتحال في الأبحاث والمقالات العلمية والأطروحات الجامعية والكتب والأبحاث باللغة العربية، وتحديد درجة التشابه أو أصالة الأعمال البحثية وحماية ملكيتها الفكرية. تعرف اكثر