Browse our latest Computational and Systems Biology articles

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    1. Computational and Systems Biology
    2. Chromosomes and Gene Expression

    Combinatorial bZIP dimers display complex DNA-binding specificity landscapes

    José A Rodríguez-Martínez, Aaron W Reinke ... Aseem Z Ansari
    Cognate site identification uncovers the impact of combinatorial dimerization in specifying new DNA binding sites for human bZIP transcription factors and comprehensive specificity landscapes predict the impact of SNPs on bZIP binding at previously unannotated regulatory loci.
    1. Computational and Systems Biology
    2. Neuroscience

    A molecular mechanism for the topographic alignment of convergent neural maps

    Elise Savier, Stephen J Eglen ... Michael Reber
    Retinal ephrin-As gradients provide positional information, through retino-collicular map in the superior colliculus, for topographic alignment of cortico-collicular projections.
    1. Computational and Systems Biology
    2. Ecology

    Data-driven identification of potential Zika virus vectors

    Michelle V Evans, Tad A Dallas ... John M Drake
    Data-driven methods predict over 35 mosquitoes are potential vectors of Zika virus, suggesting a larger geographic area and a greater human population is at risk of infection.
    1. Computational and Systems Biology
    2. Neuroscience

    Mapping the function of neuronal ion channels in model and experiment

    William F Podlaski, Alexander Seeholzer ... Tim P Vogels
    The ion channel genealogy resource is a comprehensive and intuitive comparison tool for ion channel models and experimental data, helping to visualize their similarity and function to facilitate better experimentally-constrained modeling.
    1. Computational and Systems Biology

    Design principles of autocatalytic cycles constrain enzyme kinetics and force low substrate saturation at flux branch points

    Uri Barenholz, Dan Davidi ... Ron Milo
    The stability of metabolic autocatalytic cycles that are widespread in central metabolism limits the affinities of enzymes at flux branch points and explains excess expression of these enzymes.
    1. Computational and Systems Biology
    2. Epidemiology and Global Health

    Modelling primaquine-induced haemolysis in G6PD deficiency

    James Watson, Walter RJ Taylor ... Nicholas J White
    In silico modelling of all available data shows that a twenty-day ascending-dose primaquine regimen could be safe to administer to G6PD deficient patients for the radical cure of vivax malaria.
    1. Computational and Systems Biology

    Selecting the most appropriate time points to profile in high-throughput studies

    Michael Kleyman, Emre Sefer ... Ziv Bar-Joseph
    The Time Point Selection (or TPS) method is a general protocol for determining sampling rates for high throughout time series biological studies, that is efficient, cheap, scalable and works well for several different types of molecular data.
    1. Computational and Systems Biology
    2. Microbiology and Infectious Disease

    Intracellular growth of Mycobacterium tuberculosis after macrophage cell death leads to serial killing of host cells

    Deeqa Mahamed, Mikael Boulle ... Alex Sigal
    The rapid killing of macrophages by Mycobacterium tuberculosis aggregates, and the subsequent proliferation of the bacteria inside the dead cell, leads to a cell death cascade and explains the coupling of necrosis and pathogen growth observed in active disease.
    1. Computational and Systems Biology
    2. Ecology

    Nomadic-colonial life strategies enable paradoxical survival and growth despite habitat destruction

    Zhi Xuan Tan, Kang Hao Cheong
    By modelling organisms that alternate between individual and colonial lifestyles, the well-known Parrondo's paradox can emerge in an ecological setting without the need for stochastic environmental variation.
    1. Computational and Systems Biology
    2. Microbiology and Infectious Disease

    Operon mRNAs are organized into ORF-centric structures that predict translation efficiency

    David H Burkhardt, Silvi Rouskin ... Carol A Gross
    Operonic mRNAs in bacteria are comprised of ORF (open reading frame)-wide units of secondary structure, which are intrinsically distinct between adjacent ORFs and encode a rough blueprint for ORF-specific translation efficiency.