mixed model

Multifocal Ectopic Purkinje Premature Contractions due to neutralization of an SCN5A negative charge: structural insights into the gating pore hypothesis

The paper identifies a novel SCN5A variant, E171Q, that creates a gating pore current by neutralizing a negative charge in the S2 helix, leading to MEPPC and altered voltage dependence.

An expression-directed linear mixed model (edLMM) discovering low-effect genetic variants

This paper introduces edLMM, a method that detects low-effect genetic variants using moderate sample sizes, improving missing heritability estimation.

Rational strain design with minimal phenotype perturbation

This paper introduces a framework for rational strain design in E. coli that minimizes phenotype perturbation using mixed-integer linear programming and kinetic models to improve anthranilate production.

Nationwide Inclusive Facilitator Training: Mindsets, Practices and Growth

This paper evaluates a national facilitator training program for inclusive teaching, finding increased confidence and alignment with DEI practices among participants.

A Conserved Electrostatic Membrane-Binding Surface in Synaptotagmin-Like Proteins Revealed Using Molecular Phylogenetic Analysis and Homology Modeling

The paper uses molecular phylogenetic analysis and homology modeling to show that the electrostatic membrane-binding surface of synaptotagmin-like proteins is highly conserved across vertebrates.

High Impact: Wikipedia sources and edit history document two decades of the climate change field

This study analyzes Wikipedia's 'Effects of climate change' article and its edit history to show how climate change knowledge evolved and was shaped by IPCC reports and a few editors.

OptEnvelope: a target point guided method for growth-coupled production using knockouts

OptEnvelope identifies optimal knockout strategies for coupling growth and metabolite production using mixed-integer linear programming, benchmarked on E. coli and S. cerevisiae for acetate, glycerol, succinate, and ethanol.

Exploring the Therapeutic Potential of Cannabis Constituents in Parkinson's Disease: Insights from Molecular Docking Studies

This paper uses molecular docking to evaluate cannabis compounds' neuroprotective effects against Parkinson's disease targets, finding cannabicyclol has a strong binding affinity for MAO-B.

Molecular dynamic investigation for ROCO-4 kinase inhibitor as treatment options for parkinsonism

The paper investigates potential inhibitors of ROCO4 kinase for Parkinson's disease treatment, identifying Mongolicain-A as a promising candidate with high specificity for the G2019S mutation.

Transcranial focused ultrasound-mediated neurochemical and functional connectivity changes in deep cortical regions in humans

Theta-burst transcranial ultrasound lowered GABA+ in the posterior cingulate but not dorsal anterior cingulate cortex in 24 adults, while raising resting-state connectivity of both targets.

A framework for decolonising and diversifying biomedical sciences curricula: rediscovery, representation and readiness

The paper examines attitudes towards decolonising biomedical sciences curricula at the University of Bristol, finding disparities in awareness and representation among students and staff.

Molecular Investigation of TSHR gene in Bangladeshi Congenital Hypothyroid patients

The paper identifies two TSHR gene mutations in congenital hypothyroid patients and evaluates their impact on drug binding and protein stability using computational methods.

Combining molecular dynamics simulations and scoring method to computationally model ubiquitylated linker histones in chromatosomes

This study uses molecular dynamics simulations and a geometric scoring method to model mono-ubiquitylated linker histones in chromatosomes and identify their conformational states.

Advancing Understanding of Inequities in Rare Disease Genomics

This paper describes the Rare Genomes Project's efforts to address inequities in rare disease genomics by diversifying enrollment and understanding barriers to access.

Gene regulatory network inference using mixed-norms regularized multivariate model with covariance selection

This paper introduces two novel methods for gene regulatory network inference using mixed-norm regularization and shows they outperform existing approaches on simulated and experimental data.

In Silico insight to identify Potential Inhibitors of BUB1B from Mushroom bioactive compounds to Prevent Breast cancer metastasis

This study identifies Lepiotaprocerin D as a potential inhibitor of BUB1B from mushroom compounds to prevent breast cancer metastasis through computational screening and molecular docking.

Longitudinal multi-omics study reveals common etiology underlying association between plasma proteome and BMI trajectories in adolescent and young adult twins

This study identifies proteins and genes associated with BMI and its changes in twins, showing shared genetic and environmental factors across proteome, transcriptome, and metabolome layers.

Deciphering PD1 activation mechanism from molecular docking and molecular dynamic simulations

The paper investigates PD1 activation mechanism using molecular docking and simulations, finding a high molecular weight complex that explains PD1-PDL1 interaction and activation.

Repurposing Remdesivir for COVID-19: Computational Drug Design Targeting SARS-CoV-2 RNA Polymerase and Main Protease using Molecular Dynamics Approach

This study designs remdesivir derivatives targeting SARS-CoV-2 RdRp and MPro using molecular docking and dynamics simulations to improve efficacy and stability.

Molecular Dynamics and Water site bias docking method allows the identification of key amino acids in the Carbohydrate Recognition Domain of a viral protein

The paper introduces a computational method combining molecular docking and dynamics simulations to identify key amino acids in a viral protein's Carbohydrate Recognition Domain, validated by in vitro experiments.

networkGWAS:A network-based approach to discover genetic associations

networkGWAS improves network-based GWAS by using mixed models and permutation schemes to detect genetic associations with better statistical control.

Molecular dynamics of the interaction between the ALS/FTD-associated (GGGGCC)n RNA G-quadruplex structure and the three RRM domains of hnRNP H

The paper uses molecular docking and dynamics simulations to study how hnRNP H binds to a G-quadruplex RNA structure linked to ALS/FTD, identifying key residues and a novel binding hotspot.

An in-silico approach to study the molecular interaction of the PINK1 kinase domain with Parkin Ubl domain

The paper investigates how mutations in the PINK1 kinase domain affect its interaction with the Parkin Ubl domain using molecular docking and dynamics simulations.

kimma: flexible linear mixed effects modeling with kinship for RNA-seq data

kimma is an R package for linear mixed effects modeling of RNA-seq data, offering improved sensitivity and model complexity compared to existing pipelines.

Heritability estimation of cognitive phenotypes in the ABCD Study using mixed models

The paper estimates heritability of cognitive phenotypes in the ABCD Study using mixed models and the FEMA package, finding narrower confidence intervals with SNP-derived genetic relatedness.

Inhibiting a promiscuous GPCR: iterative discovery of bitter taste receptor ligands

The paper discovers new ligands for the promiscuous TAS2R14 bitter taste receptor using a mixed experimental and computational approach, identifying 10 antagonists and 200 agonists.

ChoruMM: a versatile multi-components mixed model for bacterial-GWAS

The paper develops ChoruMM, a multi-components mixed model for bacterial GWAS, showing that standard human genetics models are inadequate for highly structured bacterial genomes.

Fully efficient, two-stage analysis of multi-environment trials with directional dominance and multi-trait genomic selection

The paper introduces StageWise, an R package for genomic selection in multi-environment, multi-trait plant breeding, showing improved model fit and selection indices.

A computational investigation on Rho-related GTP-binding protein RhoB through molecular modeling and molecular dynamics simulation study

This study predicts the structure of RhoB using molecular modeling and simulates its dynamics to identify key residues involved in stability and function.

Insulin docking within the open hemichannel of connexin 43 may reduce risk of amyotrophic lateral sclerosis

The paper investigates how insulin interacts with connexin 43 hemichannels and suggests this interaction may reduce ALS risk by blocking toxic substance transfer.