🧬 biology

Integrative GC–MS Metabolite Profiling and Structure-Based Molecular Docking for Identification of Antibacterial Leads from Calotropis gigantea and Nyctanthes arbor-tristis

This study identifies *Nyctanthes arbor-tristis* as a superior source of antibacterial phytochemicals against multidrug-resistant pathogens, highlighting α-tocopherol-β-D-mannoside as a promising lead candidate through integrated GC-MS profiling, in vitro assays, ADMET prediction, and molecular docking.

Suparna C Chakraborty, Rohini Kulkarni2026-09-01
🧬 biology

50µm ex vivo MRI reveals distant layer-specific hippocampal atrophy in early Alzheimer's disease

Using ultra-high-resolution 50µm ex vivo MRI, this study reveals that early Alzheimer's disease (Braak stage II) is characterized by distant, layer-specific atrophy in the anterior CA1 and subiculum regions, which is strongly driven by tau pathology in upstream entorhinal areas rather than local tau burden.

Yasmine Salman, Sandra O. Tomé, Nicolas Joudiou, Amanda Annettesdotter, Pulkit Khandelwal, Tevi M. Lawson, Catherine Beh (…)2026-09-01
🧬 biology

Deciphering the Multi-Target Anti-Diabetic Mechanisms of Chrysin Using Integrated Network Pharmacology, Molecular Docking, and Molecular Dynamics Simulations

This study employs an integrated network pharmacology, molecular docking, and molecular dynamics approach to elucidate that chrysin exerts anti-diabetic effects by simultaneously targeting key proteins like GSK3β and modulating critical pathways such as PI3K/Akt and NF-κB to regulate glucose metabolism, inflammation, and oxidative stress.

Ghanshyam Mapare, Sateesh Belemkar2026-09-01
🧬 biology

A permutation-null artifact drives a conservation–divergence spectrum's signature trend, and phylogeny dominates a protein language model's per-position coupling signal

This paper demonstrates that the signature negative trend in the conservation–divergence spectrum is largely an artifact of its permutation null model and that protein language models' per-position coupling signals are predominantly driven by phylogeny rather than functional mechanism, establishing a rigorous framework for cross-examining black-box models against independent evolutionary evidence.

Huazhang Shen2026-09-01
🧬 biology

An Auditable Complexity Ladder for Mechanism-Level Experiments in Artificial Life

This paper introduces an auditable, eleven-level complexity ladder protocol for artificial life mechanism experiments that ensures rigorous, reproducible claims through prospective freeze criteria, failure retention, byte-safe RNG isolation, and explicit evidence grading, demonstrated via a minimal-cell model while transparently disclosing methodological limitations and past analytical errors.

Huazhang Shen2026-09-01
🧬 biology

Basal expression predicts context-specific drug responses only where they are reproducible: a leakage-safe 47-line LOCO benchmark on Tahoe-100M

This pre-registered, leakage-safe benchmark demonstrates that the ability of basal transcriptome expression to predict context-specific drug responses is fundamentally limited by the low reproducibility of the target signal, with meaningful prediction only emerging for a small subset of drugs where the residual response is sufficiently reliable.

Huazhang Shen2026-09-01
🧬 biology

HADIA-KB: Evidence-Preserving Digital Knowledge Infrastructure for Jharkhand’s Traditional Rice Beer

HADIA-KB is an evidence-preserving digital knowledge infrastructure that aggregates and maps fragmented scientific and cultural data on Jharkhand's traditional rice beer into a reproducible, source-proven graph, explicitly highlighting documentation gaps and regional variations rather than consolidating diverse traditions into a single narrative.

Mohammad Amir Khusru Amir2026-09-01✓ Author reviewed
🧬 biology

GRP: A Representation-Aware Effective Geometry of Protein State Space

This paper introduces GRP, a general-relativity-inspired framework that models protein state spaces as coordinate-aware geometric manifolds to identify stable invariants linking AI representations to biological constraints, demonstrating that a few dominant modes capture most conformational variance and that structured biological paths exhibit distinct transport properties compared to null models.

Chuanyang Liu2026-09-01