277 results found
    1. Computational and Systems Biology
    2. Microbiology and Infectious Disease

    Consistent and correctable bias in metagenomic sequencing experiments

    Michael R McLaren, Amy D Willis, Benjamin J Callahan
    A mathematical model of bias in marker-gene and metagenomic sequencing measurements explains systematic errors in defined mixtures of microbial species, and enables quantitative and reproducible investigation of biological communities.
    1. Evolutionary Biology

    Support for a clade of Placozoa and Cnidaria in genes with minimal compositional bias

    Christopher E Laumer, Harald Gruber-Vodicka ... Gonzalo Giribet
    Protein coding genes strongly support a sister group relationship between Placozoa and Cnidaria to the exclusion of Bilateria, contradicting previous phylogenies, which have likely been misled by pervasive compositional heterogeneity.
    1. Biochemistry and Chemical Biology
    2. Cell Biology

    A composition-dependent molecular clutch between T cell signaling condensates and actin

    Jonathon A Ditlev, Anthony R Vega ... Michael K Rosen
    Compositional changes alter actin binding by phase separated T cell signaling clusters, enabling cluster movement by distinct actin networks.
    1. Evolutionary Biology
    2. Microbiology and Infectious Disease

    An updated phylogeny of the Alphaproteobacteria reveals that the parasitic Rickettsiales and Holosporales have independent origins

    Sergio A Muñoz-Gómez, Sebastian Hess ... Andrew J Roger
    Diverse sophisticated phylogenetic analyses update the phylogeny of the Alphaproteobacteria and show that the parasitic Holosporales is a derived group within the Rhodospirillales order which comprises primarily free-living alphaproteobacteria.
    1. Microbiology and Infectious Disease

    Bidirectional interactions between indomethacin and the murine intestinal microbiota

    Xue Liang, Kyle Bittinger ... Garret A FitzGerald
    Indomethacin, a nonsteroidal anti-inflammatory drug, alters the composition of the intestinal microbiota, and the intestinal microbiota affect the pharmacokinetics of indomethacin.
    1. Biochemistry and Chemical Biology

    Random-sequence genetic oligomer pools display an innate potential for ligation and recombination

    Hannes Mutschler, Alexander I Taylor ... Philipp Holliger
    Random sequence RNA pools display an innate capacity for ligation and recombination, enabling them to “bootstrap” themselves towards higher compositional, informational and structural complexity.
    1. Genetics and Genomics
    2. Microbiology and Infectious Disease

    A phylogenetic transform enhances analysis of compositional microbiota data

    Justin D Silverman, Alex D Washburne ... Lawrence A David
    The PhILR transform uses an evolutionary model to overcome statistical challenges associated with microbiota surveys.
    1. Microbiology and Infectious Disease

    Multi-omics investigation of Clostridioides difficile-colonized patients reveals pathogen and commensal correlates of C. difficile pathogenesis

    Skye RS Fishbein, John I Robinson ... Gautam Dantas
    Integration of clinical patient data, pathogen information and a multi-omic analysis of the gut microbiome reveals key determinants of disease in C. difficile-colonized patients.
    1. Biochemistry and Chemical Biology
    2. Microbiology and Infectious Disease

    Cretaceous dinosaur bone contains recent organic material and provides an environment conducive to microbial communities

    Evan T Saitta, Renxing Liang ... Tullis Onstott
    Subterranean fossil bone hosts a living microbiome different from the surrounding sediment without evidence of original protein preservation.
    1. Computational and Systems Biology
    2. Epidemiology and Global Health

    National Institutes of Health research project grant inflation 1998 to 2021

    Michael S Lauer, Joy Wang, Deepshikha Roychowdhury
    National Institutes of Health (NIH) grants have evolved over time, with a greater proportion of funds going to solicited projects, but inflation-adjusted costs have remained relatively stable following a brief increase during the NIH-doubling (1998-2003).

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