388 results found
    1. Evolutionary Biology
    2. Microbiology and Infectious Disease

    A billion years arms-race between viruses, virophages, and eukaryotes

    Jose Gabriel Nino Barreat, Aris Katzourakis
    Phylogenetic analyses of the four core virion proteins support a new evolutionary model for the origin of the main groups of eukaryotic viruses in the kingdom Bamfordvirae.
    1. Neuroscience

    Uncovering temporal structure in hippocampal output patterns

    Kourosh Maboudi, Etienne Ackermann ... Caleb Kemere
    Machine learning models of coordinated hippocampal ensemble activity during sharp wave ripple activity encode structure that mirrors the place cell map expressed during exploration, and enable a new paradigm for analyzing and understanding this offline activity.
    1. Neuroscience

    Statistical structure of locomotion and its modulation by odors

    Liangyu Tao, Siddhi Ozarkar ... Vikas Bhandawat
    A fly's locomotion can be decomposed into a small number of locomotor features which can be modulated by odors and other sensory information.
    1. Computational and Systems Biology
    2. Neuroscience

    A stochastic neuronal model predicts random search behaviors at multiple spatial scales in C. elegans

    William M Roberts, Steven B Augustine ... Shawn R Lockery
    A stochastic model of locomotory control in C. elegans based on an extensive new set of tracking data can explain and predict effects of ablations and mutations on behavior.
    1. Computational and Systems Biology
    2. Structural Biology and Molecular Biophysics

    Linking time-series of single-molecule experiments with molecular dynamics simulations by machine learning

    Yasuhiro Matsunaga, Yuji Sugita
    A general machine learning scheme for integrating time-series data from single-molecule experiments and molecular dynamics simulations is proposed and successfully demonstrated for the folding dynamics of the WW domain.
    1. Computational and Systems Biology
    2. Structural Biology and Molecular Biophysics

    Bayesian inference of kinetic schemes for ion channels by Kalman filtering

    Jan L Münch, Fabian Paul ... Klaus Benndorf
    For analyzing time-dependent patch-clamp or patch-clamp fluorometry data of ion channels in terms of Markovian models, the superiority of Bayesian filtering with respect to traditional deterministic approaches is demonstrated enabling more reliable quantification of the parameters.
    1. Neuroscience

    Control of entropy in neural models of environmental state

    Timothy H Muller, Rogier B Mars ... Jill X O'Reilly
    Evidence for neuromodulatory control of flexibility in human neural models.
    1. Biochemistry and Chemical Biology
    2. Computational and Systems Biology

    SIMMER employs similarity algorithms to accurately identify human gut microbiome species and enzymes capable of known chemical transformations

    Annamarie E Bustion, Renuka R Nayak ... Katherine S Pollard
    Computational reaction representations and profile hidden Markov model searches of metagenomics databases can be harnessed to accurately predict bacterial species and enzyme sequences responsible for biotransformations in the human gut microbiome.
    1. Computational and Systems Biology
    2. Chromosomes and Gene Expression

    A continuum model of transcriptional bursting

    Adam M Corrigan, Edward Tunnacliffe ... Jonathan R Chubb
    Rather than switching between discrete on and off states, gene transcription exists in a spectrum or continuum of states, with a slowly changing initiation rate modulating the levels of activity.
    1. Computational and Systems Biology
    2. Chromosomes and Gene Expression

    Thousands of novel translated open reading frames in humans inferred by ribosome footprint profiling

    Anil Raj, Sidney H Wang ... Jonathan K Pritchard
    Over 7,000 novel translated sequences have been identified from human cells, including several hundred in annotated noncoding RNA, pseudogenes and de novo assembled transcripts.

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