Shiri Freilich

Summary

Publications

  1. ncbi Protein coalitions in a core mammalian biochemical network linked by rapidly evolving proteins
    Chrysanthi Ainali
    Centre for Bioinformatics, Department of Informatics, School of Natural and Mathematical Sciences, King s College London, Strand, UK
    BMC Evol Biol 11:142. 2011
  2. ncbi Emergence, development and diversification of the TGF-beta signalling pathway within the animal kingdom
    Lukasz Huminiecki
    Ludwig Institute for Cancer Research, Uppsala University, Uppsala, Sweden
    BMC Evol Biol 9:28. 2009
  3. ncbi Metabolic-network-driven analysis of bacterial ecological strategies
    Shiri Freilich
    The Blavatnik School of Computer Sciences, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel
    Genome Biol 10:R61. 2009
  4. ncbi Stratification of co-evolving genomic groups using ranked phylogenetic profiles
    Shiri Freilich
    The Blavatnik School of Computer Sciences and School of Medicine, Tel Aviv University, Tel Aviv 69978, Israel
    BMC Bioinformatics 10:355. 2009
  5. ncbi The large-scale organization of the bacterial network of ecological co-occurrence interactions
    Shiri Freilich
    Blavatnik School of Computer Sciences, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel
    Nucleic Acids Res 38:3857-68. 2010
  6. ncbi Decoupling Environment-Dependent and Independent Genetic Robustness across Bacterial Species
    Shiri Freilich
    The Blavatnik School of Computer Sciences, Faculty of Life Sciences, Ramat Aviv, Israel
    PLoS Comput Biol 6:e1000690. 2010
  7. ncbi Competitive and cooperative metabolic interactions in bacterial communities
    Shiri Freilich
    Sackler Faculty of Medicine, Tel Aviv University, Tel Aviv, Israel
    Nat Commun 2:589. 2011
  8. ncbi Denoising inferred functional association networks obtained by gene fusion analysis
    Atanas Kamburov
    Computational Genomics Group, The European Bioinformatics Institute, EMBL Cambridge Outstation, Cambridge CB10 1SD, UK
    BMC Genomics 8:460. 2007
  9. ncbi Association between translation efficiency and horizontal gene transfer within microbial communities
    Tamir Tuller
    Faculty of Mathematics and Computer Science, Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Blavatnik School of Computer Science, School of Medicine, Tel Aviv University, Ramat Aviv 69978, Israel
    Nucleic Acids Res 39:4743-55. 2011

Collaborators

Detail Information

Publications9

  1. ncbi Protein coalitions in a core mammalian biochemical network linked by rapidly evolving proteins
    Chrysanthi Ainali
    Centre for Bioinformatics, Department of Informatics, School of Natural and Mathematical Sciences, King s College London, Strand, UK
    BMC Evol Biol 11:142. 2011
    ..The proteins involved in this system belong to ancient enzymatic pathways: glycolysis, the TCA cycle and oxidative phosphorylation...
  2. ncbi Emergence, development and diversification of the TGF-beta signalling pathway within the animal kingdom
    Lukasz Huminiecki
    Ludwig Institute for Cancer Research, Uppsala University, Uppsala, Sweden
    BMC Evol Biol 9:28. 2009
    ..Herein, we focus on the diversification of the transforming growth factor-beta (TGF-beta) pathway -- one of the fundamental and versatile metazoan signal transduction engines...
  3. ncbi Metabolic-network-driven analysis of bacterial ecological strategies
    Shiri Freilich
    The Blavatnik School of Computer Sciences, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel
    Genome Biol 10:R61. 2009
    ....
  4. ncbi Stratification of co-evolving genomic groups using ranked phylogenetic profiles
    Shiri Freilich
    The Blavatnik School of Computer Sciences and School of Medicine, Tel Aviv University, Tel Aviv 69978, Israel
    BMC Bioinformatics 10:355. 2009
    ....
  5. ncbi The large-scale organization of the bacterial network of ecological co-occurrence interactions
    Shiri Freilich
    Blavatnik School of Computer Sciences, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel
    Nucleic Acids Res 38:3857-68. 2010
    ..Here, we demonstrate its utility for predicting cooperation and inhibition within communities...
  6. ncbi Decoupling Environment-Dependent and Independent Genetic Robustness across Bacterial Species
    Shiri Freilich
    The Blavatnik School of Computer Sciences, Faculty of Life Sciences, Ramat Aviv, Israel
    PLoS Comput Biol 6:e1000690. 2010
    ..Finally, we identify reactions that are uniquely susceptible to perturbations in human pathogens, potentially serving as novel drug-targets...
  7. ncbi Competitive and cooperative metabolic interactions in bacterial communities
    Shiri Freilich
    Sackler Faculty of Medicine, Tel Aviv University, Tel Aviv, Israel
    Nat Commun 2:589. 2011
    ..These findings are important for the future design of consortia optimized towards bioremediation and bio-production applications...
  8. ncbi Denoising inferred functional association networks obtained by gene fusion analysis
    Atanas Kamburov
    Computational Genomics Group, The European Bioinformatics Institute, EMBL Cambridge Outstation, Cambridge CB10 1SD, UK
    BMC Genomics 8:460. 2007
    ..The precision of this method typically improves with an ever-increasing number of reference genomes...
  9. ncbi Association between translation efficiency and horizontal gene transfer within microbial communities
    Tamir Tuller
    Faculty of Mathematics and Computer Science, Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Blavatnik School of Computer Science, School of Medicine, Tel Aviv University, Ramat Aviv 69978, Israel
    Nucleic Acids Res 39:4743-55. 2011
    ..Our results also suggest that frequent HGT may be a homogenizing force that increases the similarity in the tRNA pools of organisms within the same community...