دورية أكاديمية
A third approach to gene prediction suggests thousands of additional human transcribed regions.
| العنوان: | A third approach to gene prediction suggests thousands of additional human transcribed regions. |
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| المؤلفون: | Gustavo Glusman, Shizhen Qin, M Raafat El-Gewely, Andrew F Siegel, Jared C Roach, Leroy Hood, Arian F A Smit |
| المصدر: | PLoS Computational Biology, Vol 2, Iss 3, p e18 (2006) |
| بيانات النشر: | Public Library of Science (PLoS), 2006. |
| سنة النشر: | 2006 |
| المجموعة: | LCC:Biology (General) |
| مصطلحات موضوعية: | Biology (General), QH301-705.5 |
| الوصف: | The identification and characterization of the complete ensemble of genes is a main goal of deciphering the digital information stored in the human genome. Many algorithms for computational gene prediction have been described, ultimately derived from two basic concepts: (1) modeling gene structure and (2) recognizing sequence similarity. Successful hybrid methods combining these two concepts have also been developed. We present a third orthogonal approach to gene prediction, based on detecting the genomic signatures of transcription, accumulated over evolutionary time. We discuss four algorithms based on this third concept: Greens and CHOWDER, which quantify mutational strand biases caused by transcription-coupled DNA repair, and ROAST and PASTA, which are based on strand-specific selection against polyadenylation signals. We combined these algorithms into an integrated method called FEAST, which we used to predict the location and orientation of thousands of putative transcription units not overlapping known genes. Many of the newly predicted transcriptional units do not appear to code for proteins. The new algorithms are particularly apt at detecting genes with long introns and lacking sequence conservation. They therefore complement existing gene prediction methods and will help identify functional transcripts within many apparent "genomic deserts." |
| نوع الوثيقة: | article |
| وصف الملف: | electronic resource |
| اللغة: | English |
| تدمد: | 1553-734X 1553-7358 |
| Relation: | http://europepmc.org/articles/PMC1391917?pdf=render; https://doaj.org/toc/1553-734X; https://doaj.org/toc/1553-7358 |
| DOI: | 10.1371/journal.pcbi.0020018 |
| URL الوصول: | https://doaj.org/article/dea272110e794962bb54468cc934951c |
| رقم الأكسشن: | edsdoj.272110e794962bb54468cc934951c |
| قاعدة البيانات: | Directory of Open Access Journals |
Full Text Finder | تدمد: | 1553734X 15537358 |
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| DOI: | 10.1371/journal.pcbi.0020018 |