ArticlePloS one2008
Mapping genetically compensatory pathways from synthetic lethal interactions in yeast.
Article in PloS one, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers, 1 of them a synthesis that pooled it.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
28 citing papers in PubMed, 1 synthesis or guideline pooled it, 47 citations in OpenAlex.
- Genetic architecture of growth traits revealed by global epistatic interactions.Genome biology and evolution · 2011Pooled it
- A novel ILP framework to identify compensatory pathways in genetic interaction networks with GIDEON.Bioinformatics (Oxford, England) · 2026Article
- A Novel ILP Framework to Identify Compensatory Pathways in Genetic Interaction Networks with GIDEON.bioRxiv : the preprint server for biology · 2026Article
- Exploring weighting schemes for the discovery of informative generalized between pathway models to uncover pathways in genetic interaction networks.Scientific reports · 2025Article
- Quantitative Genetic Screens for Mapping Bacterial Pathways and Functional Networks.Methods in molecular biology (Clifton, N.J.) · 2021Article
- Yeast Sphingolipid Phospholipase GeneMolecular and cellular biology · 2020Article
- Using prior knowledge from cellular pathways and molecular networks for diagnostic specimen classification.Briefings in bioinformatics · 2016Article
- Translation of Genotype to Phenotype by a Hierarchy of Cell Subsystems.Cell systems · 2016Article
- Inferring synthetic lethal interactions from mutual exclusivity of genetic events in cancer.Biology direct · 2015Article
- Prediction of Genetic Interactions Using Machine Learning and Network Properties.Frontiers in bioengineering and biotechnology · 2015Review
- Identifying aging-related genes in mouse hippocampus using gateway nodes.BMC systems biology · 2014Article
- Constructing module maps for integrated analysis of heterogeneous biological networks.Nucleic acids research · 2014Article
- Genetic interaction networks: better understand to better predict.Frontiers in genetics · 2013Review
- Systems genetics in "-omics" era: current and future development.Theory in biosciences = Theorie in den Biowissenschaften · 2013Review
- Genecentric: a package to uncover graph-theoretic structure in high-throughput epistasis data.BMC bioinformatics · 2013Article
- Feature Identification of Compensatory Gene Pairs without Sequence Homology in Yeast.Comparative and functional genomics · 2012Article
- Studying synthetic lethal interactions in the zebrafish system: insight into disease genes and mechanisms.Disease models & mechanisms · 2012Review
- Inferring mechanisms of compensation from E-MAP and SGA data using local search algorithms for max cut.Journal of computational biology : a journal of computational molecular cell biology · 2011Article
- Discovering novel subsystems using comparative genomics.Bioinformatics (Oxford, England) · 2011Article
- Putting genetic interactions in context through a global modular decomposition.Genome research · 2011Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors at 1 institution in 1 country.
Funding
Abstract
backgroundSynthetic lethal genetic interaction analysis has been successfully applied to predicting the functions of genes and their pathway identities. In the context of synthetic lethal interaction data alone, the global similarity of synthetic lethal interaction patterns between two genes is used to predict gene function. With physical interaction data, such as protein-protein interactions, the enrichment of physical interactions within subsets of genes and the enrichment of synthetic lethal interactions between those subsets of genes are used as an indication of compensatory pathways.
resultIn this paper, we propose a method of mapping genetically compensatory pathways from synthetic lethal interactions. Our method is designed to discover pairs of gene-sets in which synthetic lethal interactions are depleted among the genes in an individual set and where such gene-set pairs are connected by many synthetic lethal interactions. By its nature, our method could select compensatory pathway pairs that buffer the deleterious effect of the failure of either one, without the need of physical interaction data. By focusing on compensatory pathway pairs where genes in each individual pathway have a highly homogenous cellular function, we show that many cellular functions have genetically compensatory properties.
conclusionWe conclude that synthetic lethal interaction data are a powerful source to map genetically compensatory pathways, especially in systems lacking physical interaction information, and that the cellular function network contains abundant compensatory properties.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.