Computational and Systems Biology

Latest articles

1. 1. Computational and Systems Biology

   Untargeted Pixel-by-Pixel Imaging of Metabolite Ratio Pairs as a Novel Tool for Biomedical Discovery in Mass Spectrometry Imaging

   Huiyong Cheng, Dawson Miller ... Qiuying Chen
2. 1. Computational and Systems Biology

   AI-enabled alkaline-resistant evolution of protein to apply in mass production

   Liqi Kang, Banghao Wu ... Liang Hong

   The Pro-PRIME model demonstrates the ability to engineer VHH antibody with unprecedented alkali resistance and enhanced affinity, enabling industrial applications under extreme conditions previously unattainable with natural proteins.
3. 1. Computational and Systems Biology
   2. Genetics and Genomics

   Multiplexed assays of human disease-relevant mutations reveal UTR dinucleotide composition as a major determinant of RNA stability

   Jia-Ying Su, Yun-Lin Wang ... Chien-Ling Lin

   The UA-dinucleotide ratio in UTRs is negatively correlated with RNA stability both in the massively parallel reporter assay and in vivo, and is prevalent in fast-turnover genes.
4. 1. Neuroscience
   2. Computational and Systems Biology

   Computational modelling identifies key determinants of subregion-specific dopamine dynamics in the striatum

   Aske L Ejdrup, Jakob K Dreyer ... Ulrik Gether
5. 1. Structural Biology and Molecular Biophysics
   2. Computational and Systems Biology

   Compound Mutations in the Abl1 Kinase Cause Inhibitor Resistance by Shifting DFG Flip Mechanisms and Relative State Populations

   Gabriel Monteiro da Silva, Kyle Lam ... Brenda M Rubenstein
6. 1. Computational and Systems Biology
   2. Medicine

   Multi-tissue network analysis reveals the effect of JNK inhibition on dietary sucrose-induced metabolic dysfunction in rats

   Hong Yang, Cheng Zhang ... Adil Mardinoglu

   Inhibiting c-Jun N-terminal kinase exerts a cross-tissue therapeutic effect on metabolic dysfunction induced by sucrose overconsumption in rats.
7. 1. Computational and Systems Biology

   Discovering Root Causal Genes with High Throughput Perturbations

   Eric V Strobl, Eric R Gamazon
8. 1. Computational and Systems Biology

   A model-based factorization method for scRNA data unveils bifurcating transcriptional modules underlying cell fate determination

   Jun Ren, Ying Zhou ... Qiyuan Li

   A novel method for factorizing complex cellular trajectories into interpretable bifurcation processes enhances the understanding of cell fate determination through the identification of key biological determinants in scRNA-seq data.
9. 1. Structural Biology and Molecular Biophysics
   2. Computational and Systems Biology

   Reliable protein-protein docking with AlphaFold, Rosetta, and replica-exchange

   Ameya Harmalkar, Sergey Lyskov, Jeffrey J Gray
10. 1. Computational and Systems Biology
    2. Cancer Biology

    Drug combination prediction for cancer treatment using disease-specific drug response profiles and single-cell transcriptional signatures

    Daniel Osorio, Parastoo Shahrouzi ... Marieke L Kuijjer