bioRxiv

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Validation of deep learning enabled software MetronMind to measure vertebral heart size and vertebral left atrial size in dogs

bioRxiv Jan 1, 2025
Vertebral heart size (VHS) and vertebral left atrial size (VLAS) are objective radiographic measurements of heart and left atrial size respectively and are associated with inter and intraobserver variability when measured by humans. Artificial intell...
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InfluenceNet: Encoding Motif Influence for Interpretable Modeling of Cis-Regulatory Syntax

bioRxiv Jan 1, 2025
Cis-regulatory elements shape gene expression by recruiting transcription factors (TFs) to DNA motifs, yet how motifs cooperate or compete across distances remains poorly understood. Existing deep learning models predict TF binding with high accuracy...
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Direct Prediction of the Complex-Valued Analytic Signal of EEG from Raw Multichannel Data

bioRxiv Jan 1, 2025
Accurate estimation of instantaneous neural dynamics is essential for electroencephalography (EEG)-based brain–state analysis and future closed-loop applications. Conventional phase estimation methods that rely on bandpass filtering and autoregressiv...
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Sample-Based Training Data for Effective 3D Cell Segmentation

bioRxiv Jan 1, 2025
Deep learning remains the leading choice for cell segmentation, a critical step in bioimaging analysis. Whilst deep learning models provide excellent segmentation accuracy, a large number of hand-annotated samples are required which are scarce in 3D....
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Cellular deconvolution of the brain with topological magnetic resonance image analysis

bioRxiv Jan 1, 2025
Magnetic resonance imaging (MRI) is foundational tool in neuroscience, enabling characterization of neuroanatomical markers of disease, behavior, and cognition. However, the precise cellular processes driving the structural and functional readouts pr...
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High throughput quantitative tracking of single parasite in Plasmodium falciparum

bioRxiv Jan 1, 2025
New systematic profiling of drug effects is in urgent demand due to limitations in existing drug assessment approaches to evaluate comprehensive drug effects and distinguish heterogeneity in mixed populations. One challenge is the underdeveloped meth...
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The expression level of CACNA1C-encoded CaV1.2 is a tipping point between promotion and inhibition of dendritic growth in neurons

bioRxiv Jan 1, 2025
The CACNA1C gene encodes the CaV1.2 L-type voltage-gated calcium channel, which plays a crucial role in neuronal signaling. CACNA1C is a risk gene for psychiatric conditions involving disruption of neuronal connectivity such as schizophrenia, autism,...
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Bioactivity-Driven Prediction of Antibacterial Synergy Using Machine Learning Models

bioRxiv Jan 1, 2025
Predicting antibacterial drug synergy remains difficult due to strain variability and the limited scale of experimentally tested combinations. Existing machine-learning approaches often rely on permissive cross-validation schemes that allow drug pair...
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scCotag: Diagonal integration of single-cell multi-omics data via prior-informed co-optimal transport and regularized barycentric mapping

bioRxiv Jan 1, 2025
Recent advances in high-throughput single-cell technologies have enabled characterization of cellular states across distinct omics layers, yielding complementary insights into the organization of biological systems. To jointly leverage these disparat...
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Intrinsic DNA sequence determinants and tissue-specific regulation of human replication origins

bioRxiv Jan 1, 2025
The accurate duplication of the genome relies on the spatiotemporal control of DNA replication initiation, yet the determinants specifying mammalian origin locations remain elusive. By developing ORIFormer, a transformer-based neural network, we deco...
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