GeneValidator: identify problems with protein-coding gene predictions.
GeneValidator: identify problems with protein-coding gene predictions.
复制标题
DOI：
10.1093/bioinformatics/btw015
复制
发表时间：
2016-05-15
期刊：
影响因子：
--
通讯作者：
Wurm Y
中科院分区：
文献类型：
--
作者：
Drăgan MA;Moghul I;Priyam A;Bustos C;Wurm Y
摘要：新兴模式生物的基因组正在以非常低的成本进行测序。然而，获得准确的基因预测仍然具有挑战性：即使是最好的基因预测算法也会出现重大错误，并可能危及后续分析。因此，许多预测的基因必须进行耗时的目视检查和人工策划。我们开发了GeneValidator（GV）来自动识别有问题的基因预测，并帮助手动管理。对于每个基因，GV根据与大型数据库中基因序列的比较进行多重分析。由此产生的报告确定了有问题的基因预测，并为每个预测提供了广泛的统计数据和图表，以指导人工管理工作。因此，GV加速并增强了生物学家和研究人员的工作，他们需要从新测序的基因组中进行准确的基因预测。可用性和实现：GV可以通过Web界面或命令行使用。GV是开源的（AGPL），可在https://wurmlab.github.io/tools/genevalidator上获得。联系方式：y.乌尔姆@ qmul.ac.uk补充信息：补充数据可在生物信息学在线获得。
Summary: Genomes of emerging model organisms are now being sequenced at very low cost. However, obtaining accurate gene predictions remains challenging: even the best gene prediction algorithms make substantial errors and can jeopardize subsequent analyses. Therefore, many predicted genes must be time-consumingly visually inspected and manually curated. We developed GeneValidator (GV) to automatically identify problematic gene predictions and to aid manual curation. For each gene, GV performs multiple analyses based on comparisons to gene sequences from large databases. The resulting report identifies problematic gene predictions and includes extensive statistics and graphs for each prediction to guide manual curation efforts. GV thus accelerates and enhances the work of biocurators and researchers who need accurate gene predictions from newly sequenced genomes. Availability and implementation: GV can be used through a web interface or in the command-line. GV is open-source (AGPL), available at https://wurmlab.github.io/tools/genevalidator. Contact: y.wurm@qmul.ac.uk Supplementary information: Supplementary data are available at Bioinformatics online.
影响因子：
12.3
作者：
Wilkerson MD;Schlueter SD;Brendel V
通讯作者：
Brendel V