Reinforcement learning in densely recurrent biological networks [PDF]
iScienceSummary: Training highly recurrent networks is a technical challenge: gradient-based methods suffer from exploding or vanishing gradients, while purely evolutionary searches converge slowly.
Miles Walter Churchland +1 more
doaj +2 more sources
GCCVision: An integrated toolkit for calculating and visualizing parental genome contribution in breeding populations [PDF]
iScienceSummary: Tracking parental genome contributions in segregating populations is crucial for accelerating genetic gain in plant breeding. We introduce GCCVision (Genome Contribution Calculator and Visualizer), an integrated bioinformatics toolkit to ...
Enhui Shen +4 more
doaj +2 more sources
Neural network-assisted RNA velocity imputation for empowering transcript dynamics-based analyses [PDF]
iScienceSummary: Existing RNA velocity estimation tools often fail to calculate velocities for a substantial portion of genes due to technical limitations or model assumptions, thereby restricting downstream analyses that rely on velocity estimations.
Riku Egami +4 more
doaj +2 more sources
Deep learning-enabled high-performance multiphoton fluorescence vascular imaging using clinically approved fluorescent probes [PDF]
iScienceSummary: Among various modalities, multiphoton fluorescence imaging (MPFI) stands out for its exceptionally high spatial resolution in deep tissue imaging.
Zhourui Xu +11 more
doaj +2 more sources
Efficient trace reconstruction in DNA storage systems using bidirectional beam search [PDF]
iScienceSummary: As DNA data storage gains popularity, efficient trace reconstruction algorithms are crucial for fast decoding of data from noisy sequenced reads (or “traces”).
Zhenhao Gu +5 more
doaj +2 more sources
A single-cell and tissue-scale analysis suite resolves Mixl1’s role in heart development [PDF]
iScienceSummary: Perturbation studies using gene knockouts have become a key tool for understanding the roles of regulatory genes in development. However, large-scale studies dissecting the molecular role of development master regulators in every cell type ...
Magdalena E. Strauss +11 more
doaj +2 more sources
dotears: Scalable and consistent directed acyclic graph estimation using observational and interventional data [PDF]
iScienceSummary: New assays such as Perturb-seq link parallel CRISPR interventions to transcriptomic readouts, providing insight into gene regulatory networks.
Albert Xue +3 more
doaj +2 more sources
Database of recurrent mutations, an unbiased web resource to browse recurrent mutations in cancers [PDF]
iScienceSummary: Existing cancer-associated variant databases contain biases arising from duplicate entries and the inclusion of targeted sequencing panels, which interfere with accurate estimation somatic mutation frequency in cancer cohorts.
Deepankar Chakroborty +5 more
doaj +2 more sources
Deep metabolic profiling of immune cells by spectral flow cytometry—A comprehensive validation approach [PDF]
iScienceSummary: The advancing field of immunometabolism requires tools that link single-cell metabolism with immune function. Metabolic flow cytometry provides this capability, but its broad adoption has been limited by costly custom reagents and a lack of ...
Claire L. Wishart +6 more
doaj +2 more sources
iScience, 2023 Summary: The hippocampus plays a vital role in navigation, learning, and memory, and is affected in Alzheimer’s disease (AD). This study investigated the classification of AD-transgenic rats versus wild-type littermates using electrophysiological ...
Faraz Moradi +6 more
doaj +1 more source