S. Shah

Genetic control and tissue specificity of transcriptomic rhythmicity

This study identifies genetic regulators of transcriptomic rhythmicity using GTEx data and links them to phenotypes in the Pan-UK Biobank.

A double-negative prostate cancer subtype is vulnerable to SWI/SNF-targeting degrader molecules

This study identifies a SWI/SNF-targeting therapy effective against a double-negative prostate cancer subtype, showing it reduces viability in both AR-dependent and WNT-dependent models.

Thermal tolerance of mosquito eggs is associated with urban adaptation and human interactions

This study examines the thermotolerance of mosquito eggs and adults from Aedes species, finding that human-associated lineages have higher egg viability under high-temperature stress.

Adaptation of Pseudomonas aeruginosa to repeated invasion into a commensal competitor

This study examines how Pseudomonas aeruginosa adapts to repeated invasion of Staphylococcus epidermidis, showing divergent evolutionary responses between monoculture and coculture conditions.

Structural insights into CXCR4 modulation and oligomerization

This study uses cryoEM to reveal structural details of CXCR4 activation by CXCL12 and its oligomerization, showing new modes of GPCR regulation.

Single-cell transcriptional mapping reveals genetic and non-genetic determinants of aberrant differentiation in AML

The paper constructs a reference atlas of human hematopoiesis and maps AML differentiation patterns, revealing genetic and non-genetic factors driving aberrant differentiation in leukemia.

Massively parallel base editing screens to map variant effects on anti-tumor hallmarks of primary human T cells

This study uses base editing to screen for variants affecting T cell anti-tumor functions, identifying mutations that enhance tumor elimination with minimal off-target effects.

Targeting F-actin stress fibers to suppress the dedifferentiated phenotype in chondrocytes

This study investigates how TPM3.1 and CDC42 regulate F-actin stress fibers and dedifferentiation in passaged chondrocytes, showing their roles in maintaining the dedifferentiated phenotype.

Single cell dissection of developmental origins and transcriptional heterogeneity in B-cell acute lymphoblastic leukemia

This study uses scRNA-seq to analyze B-ALL samples, revealing transcriptional heterogeneity and developmental origins, with specific subtypes associated with distinct cell populations and clinical outcomes.

Antibiotic resistance alters the ability of Pseudomonas aeruginosa to invade the respiratory microbiome

This study shows antibiotic resistance in Pseudomonas aeruginosa can both help and hinder its ability to invade respiratory microbiomes, depending on the commensal microbes involved.

Selective advantage of mutant stem cells in clonal hematopoiesis occurs by attenuating the deleterious effects of inflammation and aging

This study identifies how DNMT3A and TET2 mutations in hematopoietic stem cells confer a selective advantage by reducing inflammation and aging effects.

Identification of a human hematopoietic stem cell subset that retains memory of inflammatory stress

The paper identifies a human HSC subset with inflammatory memory that accumulates with age and clonal hematopoiesis, potentially increasing cancer and infection risks.

A Spiking Neural Network with Continuous Local Learning for Robust Online Brain Machine Interface

This paper introduces a continuous spiking neural network training algorithm for brain machine interfaces, achieving high accuracy with reduced memory usage and online adaptability.

β-hydroxybutyrate is a metabolic regulator of proteostasis in the aged and Alzheimer disease brain

This study identifies β-hydroxybutyrate as a metabolic regulator of protein solubility in aging and Alzheimer's disease, showing it reduces insolubility of pathological proteins like amyloid-β.

Concerted epithelial and stromal changes during progression of Barrett's Esophagus to invasive adenocarcinoma exposed by multi-scale, multi-omics analysis

This study uses multi-omics analysis to show coordinated changes in epithelial, stromal, and immune compartments during Barrett's Esophagus progression to adenocarcinoma, revealing early appearance of cancer-associated fibroblasts and immunosuppressive microenvironment.

Modifications to the SR-Rich Region of the SARS-CoV-2 Nucleocapsid Regulate Self-Association and Attenuate RNA Interactions

This study identifies how modifications to the SARS-CoV-2 N nucleocapsid protein's SR-rich linker region affect self-association and RNA interactions through structural and biochemical analyses.

An inimitable proprotein convertase subtilisin kexin-9 (PCSK9) cleavage site VFAQ on Spike protein along with furin cleavage site makes SARS-CoV-2 unique

The paper identifies a novel PCSK9 cleavage site in SARS-CoV-2 Spike protein and suggests its combination with the furin site contributes to the virus's uniqueness in pathogenicity and drug development.

Network analysis for identifying potential anti-virulence targets through whole transcriptome analysis of Pseudomonas aeruginosa and Staphylococcus aureus exposed to certain anti-pathogenic polyherbal formulations

Glioblastoma induces the recruitment and differentiation of hybrid neutrophils from skull bone marrow

This study identifies hybrid neutrophils with dendritic features in glioblastoma that suppress tumor growth and originate from skull bone marrow.

Evidence of kinesin motors involved in stable kinetochore assembly during early meiosis

This study identifies kinesin motors involved in stable kinetochore assembly during early meiosis in budding yeast.

A Biologically Plausible Spiking Neural Network for Decoding Kinematics in the Hippocampus and Premotor Cortex

This paper develops a spiking neural network for decoding kinematics from neural data, achieving high correlation with true data and outperforming alternative methods.

Understanding and leveraging phenotypic plasticity during metastasis formation

This study develops a mathematical model to understand how phenotypic plasticity influences metastasis formation and shows it can protect tumors from treatment, suggesting it as a therapeutic target.

Data-Independent Acquisition and Quantification of Extracellular Matrix from Human Lung in Chronic Inflammation-Associated Carcinomas

The paper develops a proteomic pipeline to analyze ECM remodeling in lung squamous cell carcinoma, identifying 529 differentially expressed proteins and potential biomarkers.

FMRP-Regulated Alternative Splicing is Multifactorial and Resembles Splicing Control by MBNL1

This study shows that FMRP deficiency leads to altered splicing via Mbnl1 auto-splicing and redistribution of MBNL1 isoforms, affecting splicing in multiple RNAs.

Coenzyme A binding sites induce proximal acylation across protein families

The paper identifies that CoA-binding sites promote proximal lysine acylation in mitochondria through computational analysis and experimental validation.

Targeted photothrombotic stroke leads to disruptions in neurovascular coupling

This study investigates how photothrombotic stroke disrupts neurovascular coupling and shows that acute recovery of this coupling predicts sensorimotor function recovery.

Epigenetic dysregulation from chromosomal transit in micronuclei

This study shows that chromosomal transit through micronuclei causes epigenetic dysregulation in cancer cells, leading to long-term chromatin accessibility abnormalities.

SIRT5 is a proviral factor that interacts with SARS-CoV-2 Nsp14 protein

This study identifies SIRT5 as a proviral factor that interacts with SARS-CoV-2 Nsp14, enhancing viral replication and suggesting it as a therapeutic target.

The Mismatch Between Neuroscience Graduate Training and Professional Skill Sets

The paper surveys neuroscience professionals and students to assess skill set mismatches between training and workforce needs, finding gaps in management and communication skills.

A patient-driven clinicogenomic partnership through the Metastatic Prostate Cancer Project

The paper describes a patient-driven initiative that collects clinicogenomic data from metastatic prostate cancer patients, revealing consistent patient-reported data and genomic insights from cfDNA samples.