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  • Epistatic interaction maps relative to multiple metabolic phenotypes 

    Snitkin, Evan S.; Segrè, Daniel (Public Library of Science, 2011-02-01)
    An epistatic interaction between two genes occurs when the phenotypic impact of one gene depends on another gene, often exposing a functional association between them. Due to experimental scalability and to evolutionary ...
  • Microbial carbon use efficiency predicted from genome-scale metabolic models 

    Saifuddin, Mustafa; Bhatnagar, Jennifer M.; Segrè, Daniel; Finzi, Adrien C. (2019-08-08)
    Respiration by soil bacteria and fungi is one of the largest fluxes of carbon (C) from the land surface. Although this flux is a direct product of microbial metabolism, controls over metabolism and their responses to global ...
  • Environmental boundary conditions for the origin of life converge to an organo-sulfur metabolism 

    Goldford, Joshua E.; Hartman, Hyman; Marsland, Robert; Segrè, Daniel (2019-12)
    It has been suggested that a deep memory of early life is hidden in the architecture of metabolic networks, whose reactions could have been catalyzed by small molecules or minerals before genetically encoded enzymes. A ...
  • BowSaw: inferring higher-order trait interactions associated with complex biological phenotypes 

    Kon, Mark; Dimucci, Demetrius; Segre, Daniel (2019-11-12)
    Machine learning is helping the interpretation of biological complexity by enabling the inference and classification of cellular, organismal and ecological phenotypes based on large datasets, e.g. from genomic, transcriptomic ...
  • Emergent simplicity in microbial community assembly 

    Goldford, Joshua E.; Lu, Nanxi; Bajic, Djordje; Estrela, Sylvie; Tikhonov, Mikhail; Sanchez-Gorostiaga, Alicia; Segre, Daniel; Mehta, Pankaj; Sanchez, Alvaro (AMER ASSOC ADVANCEMENT SCIENCE, 2018-08-03)
    A major unresolved question in microbiome research is whether the complex taxonomic architectures observed in surveys of natural communities can be explained and predicted by fundamental, quantitative principles. Bridging ...
  • Effects of warming temperatures on winning times in the Boston Marathon 

    Miller-Rushing, Abraham J.; Primack, Richard B.; Phillips, Nathan; Kaufmann, Robert K. (PUBLIC LIBRARY SCIENCE, 2012-09-26)
    It is not known whether global warming will affect winning times in endurance events, and counterbalance improvements in race performances that have occurred over the past century. We examined a time series (1933–2004) ...
  • Simultaneous multiplane imaging with reverberation multiphoton microscopy 

    Beaulieu, Devin R.; Davison, Ian G.; Bifano, Thomas G.; Mertz, Jerome; Kılıç, Kıvılcım (2020-02-20)
    Multiphoton microscopy (MPM) has gained enormous popularity over the years for its capacity to provide high resolution images from deep within scattering samples1. However, MPM is generally based on single-point laser-focus ...
  • A multidimensional perspective on microbial interactions 

    Pacheco, Alan R.; Segrè, Daniel (2019-06-01)
    Beyond being simply positive or negative, beneficial or inhibitory, microbial interactions can involve a diverse set of mechanisms, dependencies and dynamical properties. These more nuanced features have been described in ...
  • Coevolution of male and female genital morphology in Waterfowl 

    Brennan, Patricia L.R.; Prum, Richard O.; McCracken, Kevin G.; Sorenson, Michael D.; Wilson, Robert E.; Birkhead, Tim R. (Public Library of Science, 2007-05-02)
    Most birds have simple genitalia; males lack external genitalia and females have simple vaginas. However, male waterfowl have a phallus whose length (1.5–>40 cm) and morphological elaborations vary among species and are ...
  • Metabolic network percolation quantifies biosynthetic capabilities across the human oral microbiome 

    Bernstein, David B.; Dewhirst, Floyd E.; Segrè, Daniel (2019-06-13)
    The biosynthetic capabilities of microbes underlie their growth and interactions, playing a prominent role in microbial community structure. For large, diverse microbial communities, prediction of these capabilities is ...

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