Computational and Systems Biology

Latest articles

1. 1. Computational and Systems Biology
   2. Neuroscience

   Combining hypothesis- and data-driven neuroscience modeling in FAIR workflows

   Olivia Eriksson et al.

   Increased usability and validity of neuroscience models, through FAIR workflows for the whole modeling process, including data and model management, parameter estimation, uncertainty quantification, and model analysis.
2. 1. Computational and Systems Biology
   2. Neuroscience

   Structural differences in adolescent brainscan predict alcohol misuse

   Roshan Prakash Rane et al.

   Structural differences in adolescent brains associated with binge drinking might be preceding the onset of such behavior, suggesting a reevaluation of studies of the effects of alcohol on the adolescent brain.
3. 1. Computational and Systems Biology
   2. Genetics and Genomics

   Genome-wide detection of imprinted differentially methylated regions using nanopore sequencing

   Vahid Akbari et al.

   A genome-wide map of human allele-specific methylation using long-read sequencing detects novel imprinted DNA methylation events and reveals large blocks of subtle parent-of-origin bias in DNA methylation with mutual exclusive allelic H3K36me3 and H3K27me3 histone modifications.
4. 1. Computational and Systems Biology
   2. Neuroscience

   Waveform detection by deep learning reveals multi-area spindles that are selectively modulated by memory load

   Maryam H Mofrad et al.

   A new computational approach for detecting sleep waveforms reveals that the 11–15 Hz sleep 'spindle', a neural rhythm implicated in memory consolidation, co-occurs widely across cortex much more often than previously thought.
5. 1. Computational and Systems Biology
   2. Stem Cells and Regenerative Medicine

   Robotic search for optimal cell culture in regenerative medicine

   Genki N Kanda et al.

   Robotic AI system automated discovery of optimum cell culture protocol, a most experience-dependent process in regenerative medicine.
6. 1. Computational and Systems Biology
   2. Genetics and Genomics

   Quantitative prediction of variant effects on alternative splicing in MAPT using endogenous pre-messenger RNA structure probing

   Jayashree Kumar et al.

   A novel model is presented that reconciles in-cell structure probing data with splicing regulatory elements to predict exon 10 inclusion of the Tau gene with high accuracy for 53 splice altering mutations.
7. 1. Computational and Systems Biology

   Recurrent neural networks enable design of multifunctional synthetic human gut microbiome dynamics

   Mayank Baranwal et al.

   Recurrent neural network models enable prediction and design of health-relevant metabolite dynamics in synthetic human gut communities.
8. 1. Biochemistry and Chemical Biology
   2. Computational and Systems Biology

   Integrating multi-omics data reveals function and therapeutic potential of deubiquitinating enzymes

   Laura M Doherty et al.

   The integration of experimental and data mining approaches provides novel insights into deubiquitinating enzymes individually and as a gene family.
9. 1. Computational and Systems Biology
   2. Neuroscience

   Computational modeling of threat learning reveals links with anxiety and neuroanatomy in humans

   Rany Abend et al.

   Applying computational modeling to quantify threat learning processes uncovers how variations in these conserved learning processes relate to anxiety severity and the neuroanatomical substrates moderating these associations.
10. 1. Computational and Systems Biology

    Inferring characteristics of bacterial swimming in biofilm matrix from time-lapse confocal laser scanning microscopy

    Guillaume Ravel et al.