Caveat emptor. limitations of the automated reconstruction of metabolic pathways in Plasmodium

被引：39

作者：

Ginsburg, Hagai ^{[1
]}

机构：

[1] Hebrew Univ Jerusalem, Inst Life Sci, Dept Biol Chem, IL-91904 Jerusalem, Israel

来源：

TRENDS IN PARASITOLOGY | 2009年 / 25卷 / 01期

关键词：

BIOCYC COLLECTION; FALCIPARUM; DATABASE; BIOSYNTHESIS; PREDICTION; GENOMICS; SEQUENCE; ENZYMES;

D O I：

10.1016/j.pt.2008.08.012

中图分类号：

R38 [医学寄生虫学]; Q [生物科学];

学科分类号：

090105 [作物生产系统与生态工程]; 100103 [病原生物学];

摘要：

The functional reconstruction of metabolic pathways from an annotated genome is a tedious and demanding enterprise. Automation of this endeavor using bioinformatics algorithms could cope with the ever-increasing number of sequenced genomes and accelerate the process. Here, the manual reconstruction of metabolic pathways in the functional genomic database of Plasmodium falciparum - Malaria Parasite Metabolic Pathways - is described and compared with pathways generated automatically as they appear in PlasmoCyc, metaSHARK and the Kyoto Encyclopedia for Genes and Genomes. A critical evaluation of this comparison discloses that the automatic reconstruction of pathways generates manifold paths that need an expert manual verification to accept some and reject most others based on manually curated gene annotation.

引用

页码：37 / 43

页数：7

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