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Dexter, Joseph

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Dexter

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Joseph

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Dexter, Joseph
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    Reply to: Beowulf single-authorship claim is unsupported
    (Springer Science and Business Media LLC, 2021-11-11) Krieger, Madison; Chaudhuri, Pramit; Dexter, Joseph
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    Robust network structure of the Sln1-Ypd1-Ssk1 three-component phospho-relay prevents unintended activation of the HOG MAPK pathway in Saccharomyces cerevisiae
    (BioMed Central, 2015) Dexter, Joseph; Xu, Ping; Gunawardena, Jeremy; McClean, Megan N
    Background: The yeast Saccharomyces cerevisiae relies on the high-osmolarity glycerol (HOG) signaling pathway to respond to increases in external osmolarity. The HOG pathway is rapidly activated under conditions of elevated osmolarity and regulates transcriptional and metabolic changes within the cell. Under normal growth conditions, however, a three-component phospho-relay consisting of the histidine kinase Sln1, the transfer protein Ypd1, and the response regulator Ssk1 represses HOG pathway activity by phosphorylation of Ssk1. This inhibition of the HOG pathway is essential for cellular fitness in normal osmolarity. Nevertheless, the extent to and mechanisms by which inhibition is robust to fluctuations in the concentrations of the phospho-relay components has received little attention. Results: We established that the Sln1-Ypd1-Ssk1 phospho-relay is robust—it is able to maintain inhibition of the HOG pathway even after significant changes in the levels of its three components. We then developed a biochemically realistic mathematical model of the phospho-relay, which suggested that robustness is due to buffering by a large excess pool of Ypd1. We confirmed experimentally that depletion of the Ypd1 pool results in inappropriate activation of the HOG pathway. Conclusions: We identified buffering by an intermediate component in excess as a novel mechanism through which a phospho-relay can achieve robustness. This buffering requires multiple components and is therefore unavailable to two-component systems, suggesting one important advantage of multi-component relays. Electronic supplementary material The online version of this article (doi:10.1186/s12918-015-0158-y) contains supplementary material, which is available to authorized users.
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    Large-Scale Quantitative Profiling of the Old English Verse Tradition
    ((Springer) Nature, 2019-04-08) Neidorf, Leonard; Krieger, Madison; Yakubek, Michelle; Chaudhuri, Pramit; Dexter, Joseph
    The corpus of Old English (OE) verse is an indispensable source for scholars of the Indo-European tradition, early Germanic culture, and English literary history. Although the focus of sustained literary scholarship for over two centuries, OE poetry has not been subjected to corpus-wide computational profiling, in part because of the sparseness and extreme fragmentation of the surviving material. Here we report a detailed quantitative analysis of the whole corpus that considers a broad range of features reflective of sound, meter, and diction. This integrated examination of fine-grained features enabled us to identify salient stylistic patterns despite the inherent limitations of the corpus. In particular, we provide quantitative evidence consistent with the unitary authorship of Beowulf and the Cynewulfian authorship of Andreas, shedding light on two longstanding questions in OE philology. Our results demonstrate the usefulness of high-dimensional stylometric profiling for fragmentary literary traditions and lay the foundation for future studies of the cultural evolution of English literature.