q-bio papers | Gist.Science

Analysis of a Spatio-temporal Harvested Prey-Predator Model and a Machine Learning Framework for Prediction of Pattern Regimes with Demonstration on the Model

This paper investigates the spatio-temporal dynamics of a harvested prey-predator model with Holling Type-II functional response through analytical stability and bifurcation analysis, while simultaneously developing and validating a hybrid CNN-Random Forest machine learning framework to predict pattern regimes and construct transition diagrams across a two-parameter space.

Ankur Paul, Amrit Bose, Uttam Ghosh2026-07-14

🧬 biology

Language-Grounded Drug Representations for Cold-Start Drug–Drug Interaction Prediction

This paper proposes a multimodal framework that fuses graph neural network representations of drug structures with semantic embeddings from biomedical language models to effectively predict drug–drug interactions for new, unseen drugs in cold-start scenarios where traditional structure-only models fail.

Aaron Ajit2026-07-14

🧬 biology

Candidate Homologs of REST-Associated Chromatin Regulatory Components in Choanoflagellates

This study identifies candidate homologs of key chromatin regulatory components involved in animal REST-associated repression within choanoflagellates, suggesting that while the individual protein families predate animals, their integration into a functional REST-like pathway remains unconfirmed.

Ajay B. Vellanki2026-07-14

🧬 biology

Afadin Loss Uncovers an Ectopic Neurogenic Niche and Reorganizes the Adult Ventricular-Subventricular Zone

This study demonstrates that developmental loss of the adherens junction protein Afadin reorganizes the adult brain by inducing a stable, ectopic neurogenic niche in the neocortex and disrupting the canonical ventricular-subventricular zone, thereby revealing the profound plasticity of neural stem cells in response to adhesion defects.

Cristina Gil-Sanz, Isabel Mateos-White, Alba Marín-Garnes, Laura Veintimilla-Escot, Jaime Fabra-Beser, Laura Lázaro-Caro (…)2026-07-14

🧬 biology

Phytochemical Screening and Comparative Antimicrobial Activity of Phyllanthus niruri L. (Phyllanthaceae) against Staphylococcus aureus, Escherichia coli, and Candida albicans

This study validates the ethnomedicinal use of *Phyllanthus niruri* L. from Mozambique by demonstrating that its leaf extract, rich in phenols, flavonoids, and tannins, exhibits potent, dose-dependent antifungal activity against *Candida albicans* and *Staphylococcus aureus* (with MICs of 12.5 mg/mL), outperforming Fluconazole at higher concentrations, while showing no efficacy against *Escherichia coli*.

Isidora Jorge, Gisela Guibunda, Jorge Amade, Porfirio Rosa, Jaime Diogo, Geraldo Hodela, Alfredo Dique, Lázaro Cuinica (…)2026-07-14

🧬 biology

Rethinking Model Selection in Choice Behavior

Naoki Kamiya, who was affiliated with The Institute of Statistical Mathematics when the work reported in the manuscript was conducted and who now conducts research through Relations & Behavior Lab, Tokyo, Japan, argues for shifting the focus of choice behavior model selection from identifying a single "correct" formulation to evaluating how different models capture distinct manipulable environmental components, advocating for the use of ensemble methods like Bayesian model averaging and stacking to integrate these complementary structures for improved prediction and control.

Naoki Kamiya2026-07-14

🧬 biology

Structure-Based Design of RNA Aptamers Targeting the Oncogenic KRAS G12D Variant

This study employs a comprehensive in silico approach to identify and characterize RNA-106, a stable RNA aptamer that selectively binds to and inhibits the oncogenic KRAS G12D variant through specific interactions with its Switch I and II domains, offering a promising foundation for developing RNA-based therapeutics against KRAS-driven cancers.

Hammam T. Elghazzaly, Mohamed H. Abuseif, Abdelkader Ammar. KW, Hassan A. Sahloul, Majdeldin E. Abdelgilil2026-07-14

🧬 biology

Brain Activity Related to Cheating Identification: A Step Towards the Study of Corruption

This study utilized an fMRI paradigm with INDETRAE scenarios to demonstrate that different cheating circumstances elicit distinct neural signatures across mentalizing, executive control, and reward networks, thereby validating the paradigm for investigating the neural substrates of corruption.

Víctor E. Olalde-Mathieu, Daniel Atilano-Barbosa, Giovanna L. Licea-Haquet, Jonatan García-Campos, Fernando A. Barrios (…)2026-07-14

🧬 biology

Chromosome-level reference genome assemblies of five Brassicaceae species inhabiting challenging ultramafic substrates

This study presents high-quality, chromosome-level genome assemblies for five Balkan Brassicaceae species adapted to ultramafic substrates, utilizing PacBio HiFi and Hi-C technologies to provide foundational resources for comparative genomics and evolutionary adaptation research in this understudied biodiversity hotspot.

Mahnaz Nezamivand-Chegini, Miloš Duchoslav, Raúl Wijfjes, Gabriela Šrámková, Jana Nosková, Vít Bureš, Tereza Koberová, T (…)2026-07-14

🧬 biology

Metastasis-associated DNA methylation alterations persist after accounting for immune and stromal cell heterogeneity in primary colorectal tumors

This study identifies distinct DNA methylation alterations associated with metastatic progression in primary colorectal tumors that persist after accounting for immune and stromal cell heterogeneity, revealing specific epigenetic signatures linked to gene silencing and potential biomarkers for metastatic risk.

Alos B. Diallo, Sabin D. Hart, John P. Zavras, Scott M. Palisoul, Fred W. Kolling, Louis J. Vaickus, Jiaoyuan E. Sun, Lu (…)2026-07-14

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