q-bio papers | Gist.Science

Concordance of Automated ACMG Variant Classification withExpert-Curated Assertions: A Systematic Evaluation Using theClinGen Evidence Repository

This study demonstrates that VarTriage, a streamlined automated classifier utilizing only 10 ClinGen-calibrated criteria and REVEL scores, achieves near-perfect binary concordance (kappa = 0.98) with expert-curated ACMG classifications, though its lower benign sensitivity highlights the need for incorporating non-computational evidence types to further improve accuracy.

Muhammad Abiodun SULAIMAN, Bolaji Fatai Oyeyemi2026-08-07

🧬 biology

Gene-resolved CpG and UpA codon-boundary ordering in tick-derived Jingmen tick virus genomes

This study analyzes 38 tick-derived Jingmen tick virus genomes to reveal that gene-specific CpG and UpA codon-boundary ordering patterns, shaped by segment history and protein function, deviate from random expectations and suggest a layered evolutionary model accommodating both tick and vertebrate environments.

Jun-Wei Yang, Cheng-Hsun Lee, Hsuan-Wei Huang, Wei-Mei Hsieh, Su-Lan Hsu2026-08-07

🧬 biology

Gene-resolved synonymous codon ordering reveals conserved CpG avoidance in cetacean morbillivirus

This study reveals that cetacean morbillivirus genomes exhibit a conserved, gene-specific arrangement of synonymous codons that actively minimizes CpG dinucleotides at codon boundaries, suggesting an RNA-level evolutionary constraint independent of protein sequence divergence or host adaptation.

Jun-Wei Yang, Cheng-Hsun Lee, Hsuan-Wei Huang, Wei-Mei Hsieh, Su-Lan Hsu, Fang-Hsu Lin2026-08-07

🧬 biology

DuoDose: homotypic-aware doublet detection by integrating identity and dosage evidence

DuoDose is a Python-based tool that improves homotypic doublet detection in single-cell RNA sequencing by integrating identity and dosage evidence into a calibrated random forest model, thereby reducing false positives from high-RNA singlets while outperforming existing baselines.

Yongqi Huang2026-08-07

🧬 biology

Optimisation and application of an ex vivo organ bath model to study contractile function and insulin signalling in intact adult skeletal muscle

This study establishes a systematically optimised ex vivo organ bath model using intact rat soleus muscles to simultaneously and reproducibly assess contractile function and insulin signalling, revealing that while acute insulin does not enhance force production, it robustly activates Akt phosphorylation, particularly when combined with electrical stimulation, all while accounting for sex-related physiological variability.

Maheen Wahid, Graeme Mackenzie, Kirsty Tinto, Euan Hannah, Susan Currie, Gwyn W. Gould, Margaret R. Cunningham2026-08-07

🧬 biology

Microbiome-based tracking of diet shifts in ectotherms: a new approach to monitor effects of global changes on food webs?

This paper presents a systematic literature map and meta-analysis demonstrating that diet-driven shifts in ectotherm gut microbiomes, particularly the enrichment of chitin-degrading bacteria linked to insect consumption, can serve as both indicators of environmental change and potential physiological regulators of host resilience.

Paula Cabral Eterovick, Katharina Ruthsatz, Selma Vieira, Johannes Sikorski, Katharina Wollenberg Valero, Jörg Overmann2026-08-07

🧬 biology

Multi-omics Identifies Hub Genes and Immune Networks in Stroke-CAD Comorbidity

By integrating multi-omics analysis, this study identifies key hub genes and an immune-metabolic regulatory network involving specific transcription factors and miRNAs that characterize the shared molecular basis of cerebral ischemic stroke and coronary artery disease comorbidity, offering novel biomarkers and therapeutic targets.

Yingna Tian, Qingbin Xu, Shuling Guo, Shuhao Mei, Huaqiang Wang, Weinan Zhao, Yan Zhao, Hanjing Wei, Wei Liu, Lulu Li, T (…)2026-08-07

🧬 biology

Machine Learning–Based QSAR Screening of Natural Product and ZINC Libraries Uncovers Stable BACE-1 Inhibitors Validated by Gaussian Accelerated Molecular Dynamics (GaMD) Simulations

This study developed an integrated QSAR and molecular dynamics framework to screen natural product and ZINC libraries, identifying stable BACE-1 inhibitors—particularly NPC475168—that demonstrate superior binding affinity and structural stability compared to reference compounds, offering promising leads for Alzheimer's disease therapy.

Waqar Ahmad, Xinyi Zhu, Shahin Shah Khan, Yi Bai, Pengfei Pei2026-08-07

🧬 biology

Trans-equatorial migration and non-breeding distribution of Wilson’s Storm-Petrels Oceanites oceanicus from King George Island, Antarctica

This study presents the first complete annual cycle tracking of Wilson's Storm-Petrels breeding on King George Island, revealing that the entire tracked population undertakes a consistent, clockwise trans-equatorial migration exclusively to the North Atlantic, primarily utilizing the Gulf of Maine as a non-breeding area and the Río de la Plata region as a staging site, which suggests greater vulnerability to environmental changes than previously assumed.

Hwayeon Kang, Hankyu Kim, Hyun-Young Nam, Eun-jeong Kim, Jongbin Go, Min-su Jeong, Hae-min Seo, Chang-Yong Choi2026-08-07

🧬 biology

Genome-wide evidence for differential selection between urban and non-urban habitats in a bird of prey

This study demonstrates that despite high gene flow and limited genome-wide differentiation, common kestrels exhibit adaptive divergence between urban and non-urban habitats through selection on specific genes related to pathogen response, neuronal function, and metabolism.

Gianluca Damiani, Giulia Gentile, Paolo Franchini, Simone Messina, Giacomo Dell'Omo, David Costantini2026-08-07

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