J. Thompson

A resource to enable chemical biology and drug discovery of WDR Proteins

The paper develops a resource for discovering ligands for WDR proteins using experimental and computational methods, leading to the identification of drug-like ligands for 9 out of 20 targets.

Hurricanes Pose Substantial Risk to New England Forest Carbon Stocks

This study quantifies the carbon loss from hurricanes in New England forests, showing that a single storm can emit 10+ years of annual carbon sequestration.

Mouse models for pancreatic ductal adenocarcinoma are affected by the cre-driver used to promote KRASG12D activation.

This study compares mouse models of pancreatic ductal adenocarcinoma driven by different cre-recombinase systems, finding differences in tumor development and inflammation.

The adaptive immune response to Trichuris in wild versus laboratory mice: An established model system in context

The paper compares immune responses to Trichuris muris in wild and laboratory mice, finding quantitative differences and age-specific effects in cytokine production and Th1/Th2 balance.

Exploring the interactome of PML nuclear subdomains during fatty acid stress using APEX2-mediated proximity labeling

The paper uses APEX2 proximity labeling to identify the PML nuclear subdomain interactome under fatty acid stress, revealing COPII proteins and other factors involved in lipid stress responses.

Atlas of fetal metabolism during mid-to-late gestation and diabetic pregnancy

The paper maps fetal metabolism during mid-to-late gestation in normal and diabetic pregnancies, identifying metabolic changes due to maternal hyperglycemia.

Predicting response to cytotoxic chemotherapy

This study develops three precision biomarkers based on chromosomal instability signatures to predict response to different chemotherapies, showing improved progression-free survival in clinical trials.

A Suite of Advanced Tutorials for the WESTPA 2.0 Rare-Events Sampling Software

The paper provides advanced tutorials for WESTPA 2.0, demonstrating new features for rare-events sampling in molecular simulations.

Exploring oxidative stress and endothelial dysfunction as a mechanism linking bisphenol S exposure to vascular disease in human umbilical vein endothelial cells and a mouse model of postnatal exposure.

This study investigates how BPS exposure affects redox balance and NO availability in endothelial cells and mice, linking it to vascular dysfunction through oxidative stress.

Growth limitation via chemically complex carbohydrates reduces sensitivity of synthetic human gut communities to perturbations

This study shows that complex carbohydrates reduce microbial community sensitivity to perturbations by limiting growth and altering species interactions in synthetic human gut communities.

Paired Associates Learning is Disrupted After Unilateral Parietal Lobe Controlled Cortical Impact in Rats: A Trial-by-Trial Behavioral Analysis

This study examines PAL performance in a rat TBI model, finding deficits in learning and an inflammatory microglial response in the thalamus.

Therapeutic targeting of differentiation state-dependent metabolic vulnerabilities in DIPG

This study identifies metabolic vulnerabilities in DIPG subtypes and shows that targeting these vulnerabilities with specific drugs can extend survival in preclinical models.

WESTPA 2.0: High-performance upgrades for weighted ensemble simulations and analysis of longer-timescale applications

The paper introduces WESTPA 2.0, an upgraded software package for weighted ensemble simulations, enhancing efficiency and analysis of longer-timescale applications.

Predicted distribution of a rare and understudied forest carnivore: Humboldt martens (Martes caurina humboldtensis)

The paper models the distribution of Humboldt martens using environmental variables and identifies habitat associations, highlighting gaps in current knowledge.

Skeletal Muscle Transcriptome Alterations Related to Physical Function Decline in Older Mice

This study identifies age-related transcriptomic changes in skeletal muscle of older mice that correlate with declines in physical function.

Does land use matter? Carbon consequences of alternative land use futures in New England

This study evaluates the carbon impacts of five land-use scenarios in New England, finding that changes in harvesting intensity significantly affect carbon stocks and emissions.

A Conserved TCRβ signature dominates a highly polyclonal T-cell expansion during the acute phase of a murine malaria infection

The paper identifies a conserved TCRβ signature dominated by TRBV3 gene usage in a highly polyclonal T-cell expansion during the acute phase of a murine malaria infection.

Probabilistic Ranking Of Microbiomes Plus Taxa Selection to discover and validate microbiome function models for multiple litter decomposition studies

This paper uses Bayesian networks to model the relationship between soil microbiome composition and dissolved organic carbon levels, validating predictions across independent decomposition studies.

Co-designed land-use scenarios and their implications for storm runoff and streamflow in New England

The paper evaluates how different land-use scenarios impact storm runoff and streamflow in New England, finding that land-use changes can have effects comparable to climate change in certain scenarios.

Spatial simulation of co-designed land-cover change scenarios in New England: Alternative futures and their consequences for conservation priorities

The paper translates participatory land-use scenarios into spatial simulations to assess future landscape conditions and their impact on conservation priorities in New England.

Site-directed M2 proton channel inhibitors enable synergistic combination therapy for rimantadine-resistant pandemic influenza

The paper identifies M2-N31 inhibitors that show synergistic antiviral effects when combined with existing drugs, offering a strategy to combat rimantadine-resistant influenza.

Characterisation of deubiquitylating enzymes in the cellular response to high-LET ionising radiation and complex DNA damage

This study identifies USP6 as a key regulator of cell survival after high-LET radiation by stabilizing PARP-1, essential for repairing complex DNA damage.

Molecular measurable residual disease testing of blood during AML cytotoxic therapy for early prediction of clinical response

This study evaluates molecular residual disease in AML patients during chemotherapy, finding stable variant allele frequencies that may indicate limited therapeutic response.

Interspecies interactions mediated by conductive minerals in the sediments of the ferruginous Lake La Cruz, Spain

The paper shows that conductive minerals in Lake La Cruz sediments enable syntrophic interactions between microbial species, preventing acetate accumulation and supporting methanogenic activity.

HIF1-alpha expressing cells induce a hypoxic-like response in neighbouring cancer cells

This study shows that HIF1-alpha expressing cells in tumors induce hypoxia-like responses in neighboring cancer cells, affecting proliferation and gene expression.

Super-multiplexed fluorescence microscopy via photostability contrast

This paper introduces a method to increase fluorescence microscopy multiplexing by using photostability differences and a novel unmixing algorithm, enabling up to three labels per spectral channel.

A dual-mode mobile phone microscope using the onboard camera flash and ambient light

This paper introduces a dual-mode mobile phone microscope using internal flash and ambient light, enabling brightfield and darkfield imaging for microscopic visualization of various samples.