Computational and Systems Biology

Latest articles

1. 1. Computational and Systems Biology

   Semantical and geometrical protein encoding toward enhanced bioactivity and thermostability

   Yang Tan, Bingxin Zhou ... Liang Hong

   The novel pre-training framework integrating sequential and geometric encoders significantly enhances protein engineering by accurately predicting variant effects and thermostability, outperforming existing zero-shot learning methods with minimal computational cost.
2. 1. Computational and Systems Biology
   2. Microbiology and Infectious Disease

   Interpreting roles of mutations associated with the emergence of S. aureus USA300 strains using transcriptional regulatory network reconstruction

   Saugat Poudel, Jason Hyun ... Bernhard O Palsson

   Transcriptional regulatory network models can aid in identifying candidate genes associated with the target phenotype in bacterial genome-wide association studies.
3. 1. Computational and Systems Biology

   Barcode-free multiplex plasmid sequencing using Bayesian analysis and nanopore sequencing

   Masaaki Uematsu, Jeremy M Baskin

   SAVEMONEY is a computational tool that guides users to mix plasmids prior to nanopore sequencing, reducing the effective cost of whole-plasmid sequencing to below that of Sanger sequencing.
4. 1. Computational and Systems Biology

   Unsupervised Representation Learning of C. elegans Poses and Behavior Sequences From Microscope Video Recordings

   Maurice Deserno, Katarzyna Bozek
5. 1. Immunology and Inflammation
   2. Computational and Systems Biology

   Deconstructing Complexity: A Computational Topology Approach to Trajectory Inference in the Human Thymus with tviblindi

   Jan Stuchly, David Novak ... Tomas Kalina
6. 1. Neuroscience
   2. Computational and Systems Biology

   Accept-reject decision-making revealed via a quantitative and ethological study of C. elegans foraging

   Jessica A Haley, Tianyi Chen ... Sreekanth H Chalasani
7. 1. Structural Biology and Molecular Biophysics
   2. Computational and Systems Biology

   Atomistic Simulation of Voltage Activation of a Truncated BK Channel

   Zhiguang Jia, Jianhan Chen
8. 1. Computational and Systems Biology
   2. Physics of Living Systems

   Exploiting fluctuations in gene expression to detect causal interactions between genes

   Euan Joly-Smith, Mir Mikdad Talpur ... Andreas Hilfinger
9. 1. Computational and Systems Biology

   SCellBOW: AI-Driven Tumor Risk Stratification from Single-Cell Transcriptomics Using Phenotype Algebra

   Namrata Bhattacharya, Anja Rockstroh ... Debarka Sengupta
10. 1. Neuroscience
    2. Computational and Systems Biology

    Self-Other Generalisation Shapes Social Interaction and Is Disrupted in Borderline Personality Disorder

    Joseph M Barnby, Jen Nguyen ... Peter Fonagy