Interpolated Markov models for eukaryotic gene finding
Interpolated Markov models for eukaryotic gene finding
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DOI：
10.1006/geno.1999.5854
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发表时间：
1999-07-01
期刊：
影响因子：
4.4
通讯作者：
Tettelin, H
中科院分区：
文献类型：
--
作者：
Salzberg, SL;Pertea, M;Tettelin, H
计算基因发现研究强调了细菌和人类DNA基因发现的发展。这使得一些小型真核生物的基因组计划没有一个满足它们需求的系统。本文报道了一种新的系统GLIMMERM，该系统是为了寻找疟疾寄生虫恶性疟原虫中的基因而开发的。由于恶性疟原虫的基因密度较高，因此本系统的设计是基于一种成功的细菌基因探索器GIMMER。该系统增加了专门训练的模块以寻找剪接点，并利用来自恶性疟原虫基因组的所有可用数据进行了训练。尽管目前还不可能准确地评估入侵检测的准确性，但实验室对一小部分预测基因的测试(使用RT-PCR)证实了所有这些预测。随着恶性疟原虫基因组测序的快速发展，C-His新基因发现器的问世将极大地方便注释过程，(C)1999年度学术出版社。
Computational gene finding research has emphasized the development of gene finders for bacterial and human DNA. This has left genome projects for some small eukaryotes without a system that addresses their needs. This paper reports on a new system, GLIMMERM, that was developed to find genes in the malaria parasite Plasmodium falciparum. Because the gene density in P. falciparum is relatively high, the system design was based on a successful bacterial gene finder, GLIMMER. The system was augmented with specially trained modules to find splice sites and was trained on all available data from the P. falciparum genome. Although a precise evaluation of ids accuracy is impossible at this time, laboratory tests (using RT-PCR) on a small selection of predicted genes confirmed all of those predictions. With the rapid progress in sequencing the genome of P. falciparum, the availability of C-his new gene finder will greatly facilitate the annotation process, (C) 1999 Academic Press.