Blar i forfatter "Lindemann, Stephen R."

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    • Minimal Interspecies Interaction Adjustment (MIIA): inference of member-dependent interactions in microbiomes 

      Song, Hyun-Seob; Lee, Joon-Yong; Haruta, Shin; Nelson, William C.; Lee, Dong-Yup; Lindemann, Stephen R.; Fredrickson, Jim K.; Bernstein, Hans Christopher (Journal article; Tidsskriftartikkel; Peer reviewed, 2019-06-11)
      An intriguing aspect in microbial communities is that pairwise interactions can be influenced by neighboring species. This creates context dependencies for microbial interactions that are based on the functional composition of the community. Context dependent interactions are ecologically important and clearly present in nature, yet firmly established theoretical methods are lacking from many modern ...

    • Prediction of Neighbor-dependent Microbial Interactions from Limited Population Data 

      Lee, Joon-Yong; Haruta, Shin; Kato, Souichiro; Bernstein, Hans Christopher; Lindemann, Stephen R.; Lee, Dong-Yup; Fredrickson, Jim K.; Song, Hyun-Seob (Journal article; Tidsskriftartikkel; Peer reviewed, 2020-01-21)
      Modulation of interspecies interactions by the presence of neighbor species is a key ecological factor that governs dynamics and function of microbial communities, yet the development of theoretical frameworks explicit for understanding context-dependent interactions are still nascent. In a recent study, we proposed a novel rule-based inference method termed the Minimal Interspecies Interaction ...

    • Spatiotemporal Metabolic Network Models Reveal Complex Autotroph-Heterotroph Biofilm Interactions Governed by Photon Incidences 

      Phalak, Poonam; Bernstein, Hans Christopher; Lindemann, Stephen R.; Renslow, Ryan; Thomas, Dennis G.; Henson, Michael A.; Song, Hyun-Seob (Journal article; Tidsskriftartikkel; Peer reviewed, 2022-08-05)
      Autotroph-heterotroph interactions are ubiquitous in natural environment and play a key role in controlling various essential ecosystem functions, such as production and utilization of organic matter, cycling of nitrogen, sulfur, and other chemical elements. Understanding how these biofilm metabolic interactions are constrained in space and time remains challenging because fully predictive models ...