AIMC Journal:
bioRxiv

Showing 941 to 950 of 4938 articles

Practical Use of Advanced AI Frameworks on Real-Life Scientific Problems: Three Case Studies

bioRxiv Jun 29, 2026
Agentic artificial intelligence (AI) systems increasingly claim to automate scientific research, yet independent evaluations report persistent gaps between those claims and demonstrated capability. We tested frontier agentic AI systems on three pract...
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Learning Fragmentation Physics or Exploiting Sequence Priors? Benchmarking Bias in Deep Learning Models for De Novo Peptide Sequencing

bioRxiv Jun 29, 2026
Deep learning models have advanced de novo peptide sequencing, but their predictions may reflect both physics-based spectral evidence and learned peptide-sequence priors. Systematically measuring such prior-associated behavior is important for benchm...
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Can a Tissue-derived Progression Signature Accurately Predict Colorectal Cancer Stage Transitions in Blood?

bioRxiv Jun 29, 2026
Abstract. Colorectal cancer (CRC) is challenging to track because its molecular changes are very complex as the disease progresses, creating significant challenges for robust biomarker discovery. In this study, we developed a machine learning framewo...
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Healthy-to-Stroke Translation of EEG-Based BMIs: EEG Characterization and Reinforcement Learning-Based Decoder Evaluation

bioRxiv Jun 29, 2026
Purpose: EEG-based brain-machine interfaces (BMIs) may support assistive technologies for individuals with stroke-related motor impairment by translating neural activity into control commands for external devices. However, post-stroke neural reorgani...
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Inverse reinforcement learning reveals action-oriented value signals in naturalistic decision making

bioRxiv Jun 29, 2026
A major challenge for cognitive neuroscience is to explain how value of a goal-directed behavior is computed in complex and naturalistic environments. Standard computational models of decision making have been highly successful in controlled, trial-b...
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Partitioning away consciousness: an equal and cross-frequency connectivity analysis from the integration-segregation perspective

bioRxiv Jun 29, 2026
Derived from previous observations on equal and cross-frequency coupling, we evaluated the proposal that equal and cross-frequency phase synchronization may characterize the integration-segregation perspective of cerebral sensory-motor processing. Us...
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Retention, not flux: endpoint confounding caps computational prediction of peptide skin penetration, with a delivery-aware reframing

bioRxiv Jun 29, 2026
Bioactive peptides are now central to cosmetic and dermatological actives, yet predicting whether a given sequence will reach its site of action in skin remains unsolved. We contend that the dominant framing, predicting a single binary "skin permeabi...
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Causally measuring aging and rejuvenation through transcriptomic damage

bioRxiv Jun 29, 2026
Aging is caused, fully in large part, by the progressive accumulation of damage, yet quantifying age-related damage across tissues and conditions remains a challenge. Here, we present a computational framework to quantify damage from standard RNA-seq...
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A Robust Machine Learning Framework for Keloid Biomarker Discovery Beyond Differential Expression

bioRxiv Jun 29, 2026
Keloids are fibroproliferative skin disorders arising following dermal injury that extend beyond the original wound margins. Their pathogenesis remains poorly understood, and current treatments are associated with high recurrence rates. Identifying t...
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Optical flow reveals motility signatures for inferring pathogenic bacterial mixture compositions via temporal convolutional networks

bioRxiv Jun 29, 2026
With the rapid expansion of global food demand, aquaculture has become a critical pillar for future food security. However, aquaculture systems remain highly vulnerable to pathogenic bacteria, and rapid identification of antagonistic microbes is esse...
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