Conserved rules govern genetic interaction degree across species

[1]  Elizabeth N. Koch,et al.  Conserved rules govern genetic interaction degree across species , 2012, Genome Biology.

[2]  N. Friedman,et al.  Trinity: reconstructing a full-length transcriptome without a genome from RNA-Seq data , 2011, Nature Biotechnology.

[3]  Manolis Kellis,et al.  Comparative Functional Genomics of the Fission Yeasts , 2011, Science.

[4]  T. Toda,et al.  Calcineurin ensures a link between the DNA replication checkpoint and microtubule-dependent polarized growth , 2011, Nature Cell Biology.

[5]  Dennis B. Troup,et al.  NCBI GEO: archive for functional genomics data sets—10 years on , 2010, Nucleic Acids Res..

[6]  Gary D Bader,et al.  Quantitative analysis of fitness and genetic interactions in yeast on a genome scale , 2010, Nature Methods.

[7]  Dongsup Kim,et al.  Analysis of a genome-wide set of gene deletions in the fission yeast Schizosaccharomyces pombe , 2010, Nature Biotechnology.

[8]  Robin D Dowell,et al.  Genotype to Phenotype: A Complex Problem , 2010, Science.

[9]  Gary D Bader,et al.  The Genetic Landscape of a Cell , 2010, Science.

[10]  Erik L. L. Sonnhammer,et al.  InParanoid 7: new algorithms and tools for eukaryotic orthology analysis , 2009, Nucleic Acids Res..

[11]  C. Myers,et al.  Synthetic genetic array (SGA) analysis in Saccharomyces cerevisiae and Schizosaccharomyces pombe. , 2010, Methods in enzymology.

[12]  B. Andrews,et al.  Systematic mapping of genetic interaction networks. , 2009, Annual review of genetics.

[13]  Ben S. Wittner,et al.  Systematic RNA interference reveals that oncogenic KRAS-driven cancers require TBK1 , 2009, Nature.

[14]  Michael J. Emanuele,et al.  A Genome-wide RNAi Screen Identifies Multiple Synthetic Lethal Interactions with the Ras Oncogene , 2009, Cell.

[15]  Sridhar Ramaswamy,et al.  Synthetic Lethal Interaction between Oncogenic KRAS Dependency and STK33 Suppression in Human Cancer Cells , 2009, Cell.

[16]  E. Birney,et al.  Pfam: the protein families database , 2013, Nucleic Acids Res..

[17]  D. Durocher,et al.  Significant conservation of synthetic lethal genetic interaction networks between distantly related eukaryotes , 2008, Proceedings of the National Academy of Sciences.

[18]  Sean R. Collins,et al.  Conservation and Rewiring of Functional Modules Revealed by an Epistasis Map in Fission Yeast , 2008, Science.

[19]  Sean R. Collins,et al.  A tool-kit for high-throughput, quantitative analyses of genetic interactions in E. coli , 2008, Nature Methods.

[20]  Huiming Ding,et al.  eSGA: E. coli synthetic genetic array analysis , 2008, Nature Methods.

[21]  Olga G. Troyanskaya,et al.  The Sleipnir library for computational functional genomics , 2008, Bioinform..

[22]  Ben Lehner,et al.  Evolutionary plasticity of genetic interaction networks , 2008, Nature Genetics.

[23]  Erik L. L. Sonnhammer,et al.  InParanoid 6: eukaryotic ortholog clusters with inparalogs , 2007, Nucleic Acids Res..

[24]  Joshua M. Stuart,et al.  A global analysis of genetic interactions in Caenorhabditis elegans , 2007, Journal of biology.

[25]  N. Friedman,et al.  Natural history and evolutionary principles of gene duplication in fungi , 2007, Nature.

[26]  Ziheng Yang PAML 4: phylogenetic analysis by maximum likelihood. , 2007, Molecular biology and evolution.

[27]  Olga G. Troyanskaya,et al.  A scalable method for integration and functional analysis of multiple microarray datasets , 2006, Bioinform..

[28]  A. Fraser,et al.  Systematic mapping of genetic interactions in Caenorhabditis elegans identifies common modifiers of diverse signaling pathways , 2006, Nature Genetics.

[29]  Mike Tyers,et al.  BioGRID: a general repository for interaction datasets , 2005, Nucleic Acids Res..

[30]  Per Sunnehagen,et al.  Comparative genomics : using fungi as models , 2006 .

[31]  Matthew A. Hibbs,et al.  Discovery of biological networks from diverse functional genomic data , 2005, Genome Biology.

[32]  Norbert Perrimon,et al.  Genome-Wide RNAi Screen for Host Factors Required for Intracellular Bacterial Infection , 2005, Science.

[33]  Leo Breiman,et al.  Bagging Predictors , 1996, Machine Learning.

[34]  Bernard F. Buxton,et al.  The DISOPRED server for the prediction of protein disorder , 2004, Bioinform..

[35]  Y. Ohya,et al.  Dynactin is involved in a checkpoint to monitor cell wall synthesis in Saccharomyces cerevisiae , 2004, Nature Cell Biology.

[36]  Robert C. Edgar,et al.  MUSCLE: a multiple sequence alignment method with reduced time and space complexity , 2004, BMC Bioinformatics.

[37]  N. Perrimon,et al.  Genome-Wide RNAi Analysis of Growth and Viability in Drosophila Cells , 2004, Science.

[38]  Matthew Berriman,et al.  GeneDB: a resource for prokaryotic and eukaryotic organisms , 2004, Nucleic Acids Res..

[39]  Leo Breiman,et al.  Bagging Predictors , 1996, Machine Learning.

[40]  Alexander Isaev,et al.  PyEvolve: a toolkit for statistical modelling of molecular evolution , 2004, BMC Bioinformatics.

[41]  Toshihiro Tanaka The International HapMap Project , 2003, Nature.

[42]  Alex E. Lash,et al.  Gene Expression Omnibus: NCBI gene expression and hybridization array data repository , 2002, Nucleic Acids Res..

[43]  C. Ball,et al.  Saccharomyces Genome Database. , 2002, Methods in enzymology.

[44]  Russ B. Altman,et al.  Missing value estimation methods for DNA microarrays , 2001, Bioinform..

[45]  B. Garvik,et al.  Principles for the Buffering of Genetic Variation , 2001, Science.

[46]  T. Kuno,et al.  Molecular genetic analysis of the calcineurin signaling pathways , 2001, Cellular and Molecular Life Sciences CMLS.

[47]  Matthias Sipiczki,et al.  Where does fission yeast sit on the tree of life? , 2000, Genome Biology.

[48]  V. Allan,et al.  Dynactin , 2000, Current Biology.

[49]  I. Longden,et al.  EMBOSS: the European Molecular Biology Open Software Suite. , 2000, Trends in genetics : TIG.

[50]  M. Ashburner,et al.  Gene Ontology: tool for the unification of biology , 2000, Nature Genetics.

[51]  Z. Yang,et al.  Estimating synonymous and nonsynonymous substitution rates under realistic evolutionary models. , 2000, Molecular biology and evolution.

[52]  Michael R. Green,et al.  Dissecting the Regulatory Circuitry of a Eukaryotic Genome , 1998, Cell.

[53]  P. Russell,et al.  Replication checkpoint enforced by kinases Cds1 and Chk1. , 1998, Science.

[54]  T. Toda,et al.  A calcineurin-like gene ppb1+ in fission yeast: mutant defects in cytokinesis, cell polarity, mating and spindle pole body positioning. , 1994, Journal of cell science.