statistical model

Human-caused ignitions and plant invasion drive fire-regime change in a dryland biodiversity hotspot

The paper quantifies how human ignitions and herbaceous fuels drive fire regime changes in the Sonoran Desert, showing human-caused fires dominate and spread more with increased vegetation cover.

Social vision expands into auditory cortices of people born deaf: evidence from naturalistic film and encoding models

The paper compares neural processing in deaf and hearing adults during a film task, finding enhanced visual encoding in auditory cortices of the deaf.

Temporal Variability in Brain Connectivity for Estimating Two-Year Clinical Severity in Mild Cognitive Impairment

The paper examines if temporal variability in brain connectivity improves prediction of two-year clinical severity in mild cognitive impairment compared to static connectivity measures.

Growth-driven mechanical buckling as a mechanism of age-related tortuosity in human cerebral arteries

This study models age-related tortuosity in human cerebral arteries as growth-driven mechanical buckling under spatial constraints, supported by imaging data from MRI.

Structural basis for inefficient G protein coupling by Frizzled receptors

The paper identifies detergent LMNG as stabilizing a weak FZD-G protein interface, revealing that FZDs inherently weakly couple to G proteins and preferentially signal through DVL.

Dendrite Control Theory: A Unifying Framework Bridging Neuronal Morphology And Dendritic Voltage Behavior

This paper applies control theory to dendritic structures, showing how morphology and input organization affect resilience and energy cost, with implications for neuronal function.

Epigenetic reprogramming by promoter hypomethylation is linked to aberrant gene expression and transcriptomic plasticity in colorectal cancer

The paper identifies promoter hypomethylation as a driver of transcriptomic plasticity and aberrant gene expression in colorectal cancer, linking it to distinct cell states and metastatic behavior.

SPECHTacle: An Efficient Detection and Visualization of Cell Specific Regulation in Single Cell-Based Experiments Using a Novel Combinatorial Computational Tool

SPECHTacle efficiently identifies and visualizes cell-specific regulatory changes in single-cell experiments using optimal transport and entropy analysis.

Genomic prediction of resistance to Phytophthora megakarya in cacao from a sparse host-pathogen screen

This study predicts cacao resistance to Phytophthora megakarya using genomic data, finding that host genomic relationships are more predictive than pathogen relatedness in a structured host-pathogen system.

Improving phosphoproteomic kinase activity inference by contextual refinement of Kinase Library relationships

The paper improves kinase activity inference by refining kinase-substrate relationships with protein-association evidence, enhancing accuracy and coverage in phosphoproteomic data.

Clinical-Anchored Incremental Survival Learning: A Stability-Constrained Framework for Molecularly Enhanced Survival Prediction in Lung Adenocarcinoma

This paper introduces CAISL, a framework for improving survival prediction in lung adenocarcinoma by integrating clinical and molecular data with stability constraints, achieving better performance than clinical and molecular-only models.

Salinity adaptation in date palm (Phoenix dactylifera): evidence for selective sweeps at Salt Overly Sensitive (SOS) genes

This study identifies selective sweeps in SOS pathway genes of date palm genomes, suggesting adaptation to salinity through genetic changes.

Transportability of mouse gene knockout models to human complex phenotypes

The paper assesses the transportability of mouse gene knockout models to human complex phenotypes using GPAT framework, finding evidence for 12 phenotypes but limited for others.

TIGRdisco: a tool for the discovery of TIGR arrays and TIGR-associated Tas proteins from nucleotide sequences

TIGRdisco identifies TIGR arrays and Tas proteins from nucleotide sequences, recovering most array units and uncovering unannotated loci across datasets.

Long-read shotgun metagenomics identifies distinct urogenital microbial community states associated with functional potential and urinary tract infection during pregnancy

This study uses long-read shotgun metagenomics to identify distinct urogenital microbial community states in pregnant women, linking them to functional potential and UTI risk.

Earl Grey ParTEA: scalable, consistent transposable element annotation from pangenomes to deep phylogenetic scopes

Earl Grey ParTEA annotates transposable elements across multiple genomes, revealing shared and private TE families and improving annotation consistency.

A Kernel-Spectral Index for Single-Neuron Input-Output Complexity

The paper introduces the Spectral Complexity Index (SCI), a white-box measure of single-neuron computational complexity that outperforms existing methods in efficiency and interpretability.

A Urinary Metabolomic Signature Associated with Small Intestinal Bacterial Overgrowth in Children with Short Bowel Syndrome

The paper identifies a urinary metabolomic signature linked to small intestinal bacterial overgrowth in children with short bowel syndrome using gas chromatography/mass spectrometry.

Metformin lowers HMGA1a and RBM3 protein in breast cancer cells, and its effect on ESR1 splicing depends on cell density and exposure time

This paper investigates how metformin affects ESR1 splicing in breast cancer cells, finding that its effect depends on cell density and exposure time, and that HMGA1a is unlikely to be the splicing factor responsible.

Receptor-proximal phosphoform organization precedes β2 integrin activation

The paper quantifies phosphoform organization near β2 integrins and shows that signaling alters phosphosites while preserving spatial organization of proteins.

Evolution-guided association mapping using long-read genomes from a self-identified Black or African American cohort in All of Us

This study uses long-read genomes from a Black or African American cohort to identify genomic regions under recent positive selection and their associations with phenotypes.

Dissociable Oscillatory Alpha and Aperiodic Neural Dynamics Underlie Atypical Attentional Control in Children With Attention-Deficit/Hyperactivity Disorder (ADHD)

This study identifies distinct neural dynamics in ADHD children, showing atypical alpha oscillations for demand-related attention and aperiodic activity for distractor-related instability.

A Bias Correction Method for Substructure Estimation with Small Reference Sample Sizes

The paper evaluates how small reference sample sizes affect substructure estimation and proposes bias corrections for improved accuracy.

From smartphone to gene: Automated image-based phenotyping captures flowering diversity of common buckwheat

The paper uses smartphone imaging and automated analysis to phenotype flowering traits in buckwheat, identifying heritable traits and genomic regions associated with flowering patterns.

Differential Gene Expression and Functional Enrichment Analysis of Breast Tumor and Normal Tissue RNA-seq Data: A Reanalysis of GEO Dataset GSE210787

The paper reanalyzes RNA-seq data from breast tumor and normal tissues to identify differentially expressed genes and assess functional enrichment, finding 120 DEGs but no significant KEGG pathways after correction.

A new Serratia taxon found in a trombidiform mite shows genomic evidence of host adaptation but is phylogenetically distinct from Serratia symbiotica

The paper identifies a new Serratia taxon in mites with genomic signs of host adaptation but phylogenetically distinct from S. symbiotica.

Comparative profiling of sperm small RNAs in cnidarians highlights potential for paternal inheritance

This study identifies and characterizes three classes of small RNAs in sperm from three cnidarian species, revealing their potential role in paternal epigenetic inheritance.

Vorinostat Can Reduce an Ongoing Fibrosis and Preserve Key Liver Metabolic Functions by Selectively Altering Mesenchymal Cell Differentiation

This study shows Vorinostat reduces ongoing liver fibrosis and preserves metabolic functions by altering mesenchymal cell differentiation in a human iPSC-derived model.

Unprecedented urban freshwater microviral survey highlights shift from sewage to river water communities

The paper surveys microviruses in urban freshwater environments, finding shifts in community composition from sewage to river water, with wastewater treatment plants acting as filters.

Inferring modularity in genotype-phenotype maps using patterns of epistasis and pleiotropy

This paper introduces two methods, SLED and GTD, to infer modular structure in genotype-phenotype maps by combining epistasis and pleiotropy, showing they yield similar modular architectures in yeast data.