Events for October 7, 2024 - May 6, 2024

TITLE: "G-Flux: a metabolic flux and free energy analysis software for interpreting 13C, 2H, 18O, and 15N isotope tracing data." ABSTRACT: Metabolic fluxes offer insights into pathway utilization, kinetics, and thermodynamics. Stable isotope tracing and metabolic footprinting are widely used for inferring metabolic fluxes. However, quantitative flux measurement across broad metabolism remains challenging due to […]

TITLE: "PCA outperforms popular hidden variable inference methods for QTL mapping." ABSTRACT: Estimating and accounting for hidden variables is widely practiced as an important step in quantitative trait locus (QTL) analysis for improving the power of QTL identification. However, few benchmark studies have been performed to evaluate the efficacy of the various methods developed for […]

TITLE: "Stochastic Model and Optimization of SELEX." ABSTRACT: Systematic Evolution of Ligands by EXponential enrichment (SELEX) is a process to select the best aptamer sequence in a huge aptamer library that binds a specified target molecule with the highest affinity. There has been a deterministic model of SELEX, and we develop a fully discrete stochastic […]

TITLE: "Tensor Factorization for Interpreting the Mechanisms of MRSA Persistence." ABSTRACT: Methicillin-resistant Staphylococcus aureus (MRSA) bacteria is an increasingly common and life-threatening infection. While some antibiotics resolve MRSA infections in vitro, these same antibiotics often fail to clear an infection when used to treat patients, suggesting that MRSA persistence is a confluence of both host […]

TITLE: "Baseline MEthylation Patterns prior to flu vaccination." ABSTRACT: Influenza affects millions worldwide each year with responses varying from individual to individual. Influenza can be broken down into subtypes specifically H1N1, […]

TITLE: "Universal annotation of the human genome through integration of over a thousand epigenomic datasets." ABSTRACT: Genome-wide maps of chromatin marks such as histone modifications and open chromatin sites provide […]

TITLE: "Model driven design and analysis of functional screens" ABSTRACT: A little over a decade ago biomedicine was revolutionized by a conceptually simple insight: DNA sequencers could be used as molecular counting machines to measure a multitude of molecules beyond DNA. Through the years, sequencing has continued to become cheaper and more efficient (faster than […]

TITLE: "Evolutionary dynamics in the human gut microbiome from infancy through adulthood." ABSTRACT: While the ecological dynamics of the infant gut microbiome have been intensely studied, relatively little is known about the evolutionary dynamics in the infant gut microbiome. Here we analyze longitudinal fecal metagenomic data from >700 infants and their mothers over the first […]