Computational and Systems Biology

Latest articles

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

   Transcriptome maps of general eukaryotic RNA degradation factors

   Salma Sohrabi-Jahromi et al.

   Mapping of 30 general RNA degradation factors onto the yeast transcriptome provides the global distribution of factors for RNA turnover and surveillance in a eukaryotic cell.
2. 1. Computational and Systems Biology
   2. Microbiology and Infectious Disease

   HSV-1 single-cell analysis reveals the activation of anti-viral and developmental programs in distinct sub-populations

   Nir Drayman et al.

   Single-cell analyses of cells infected by Herpes Simplex Virus 1 revealed extreme heterogeneity among infected cells, including the robust activation of developmental gene programs in highly infected cells.
3. 1. Computational and Systems Biology

   Metabolic network percolation quantifies biosynthetic capabilities across the human oral microbiome

   David B Bernstein et al.
4. 1. Computational and Systems Biology
   2. Developmental Biology

   Modularity, criticality, and evolvability of a developmental gene regulatory network

   Berta Verd et al.
5. 1. Computational and Systems Biology
   2. Genetics and Genomics

   Global donor and acceptor splicing site kinetics in human cells

   Leonhard Wachutka et al.

   Transient transcriptome sequencing and kinetic modeling suggest how the kinetics and yield of RNA splicing are encoded in the human genome.
6. 1. Computational and Systems Biology
   2. Neuroscience

   Fast and flexible sequence induction in spiking neural networks via rapid excitability changes

   Rich Pang, Adrienne L Fairhall

   Biologically plausible changes in the excitabilities of single neurons may suffice to selectively modulate sequential network dynamics, without modifying of recurrent connectivity.
7. 1. Computational and Systems Biology
   2. Neuroscience

   NetPyNE, a tool for data-driven multiscale modeling of brain circuits

   Salvador Dura-Bernal et al.

   The NetPyNE software tool provides a framework to efficiently develop, simulate, optimize and analyze experimentally grounded neural models spanning the molecular, cellular and circuit scales.
8. 1. Computational and Systems Biology
   2. Human Biology and Medicine

   In-depth human plasma proteome analysis captures tissue proteins and transfer of protein variants across the placenta

   Maria Pernemalm et al.

   Comprehensive mass spectrometry analysis of human plasma proteome reveals tissue leakage proteins, describes variability between individual plasma proteomes and demonstrates protein transfer across the placenta during pregnancy.
9. 1. Computational and Systems Biology
   2. Physics of Living Systems

   Imaging single-cell blood flow in the smallest to largest vessels in the living retina

   Aby Joseph et al.

   By using a specialized camera that corrects for eye blur, millions of single-blood-cells are imaged, and their speed measured, as they travel through the largest-to-smallest vessels of the retina.
10. 1. Computational and Systems Biology
    2. Developmental Biology

    Retinal stem cells modulate proliferative parameters to coordinate post-embryonic morphogenesis in the eye of fish

    Erika Tsingos et al.

    3D niche topology imposes a spatially biased random stem cell loss, which is differentially fine-tuned in neural retina and retinal pigmented epithelium to regulate growth, shape, and cellular topology.