Comprehensive analysis and prediction of synthetic lethality using subcellular locations.
The lethality of a gene is a fundamental and representative measure for understanding the function of a gene and its associated bio-systems. Recently, many research groups have started focusing on the concept of synthetic lethality. The synthetic lethality between genes is defined by the combination of mutations in two genes causing cell death. Here, we confirm that synthetic lethality and cellular location have close relationships among the Saccharomyces cerevisiae genes. Furthermore, we attempt the prediction of candidate gene pairs with synthetic lethality. The prediction is based on the hierarchical aspect model (HAM) which learns from a data set of cellular location to estimate a likelihood value indicating the synthetic lethality between genes.
Yamada
Takuji
T
Bioinformatics Center, Institute for Chemical Research, Kyoto University, Gokasho, Uji, Kyoto 611-0011, Japan. takuji@kuicr.kyoto-u.ac.jp
Kawashima
Shuichi
S
Mamitsuka
Hiroshi
H
Goto
Susumu
S
Kanehisa
Minoru
M
D016923:Cell Death / Q000235:genetics; D016208:Databases, Factual; D005800:Genes, Fungal; D005804:Genes, Lethal; D016013:Likelihood Functions; D009154:Mutation; D011237:Predictive Value of Tests; D012441:Saccharomyces cerevisiae / Q000235:genetics* / Q000378:metabolism*; D029701:Saccharomyces cerevisiae Proteins / Q000032:analysis* / Q000378:metabolism; D013347:Subcellular Fractions / Q000737:chemistry
D029701:Saccharomyces cerevisiae Proteins