A. Thomas

Harnessing light heterogeneity to optimise controlled environment agriculture

This study uses light heterogeneity in vertical farms to identify optimal environmental conditions for crop yield and energy efficiency by analyzing light quality's impact on microgreens.

Impact of Glycan Depletion, Glycan Debranching and Increased Glycan Charge on HIV-1 Neutralization Sensitivity and Immunogenicity

This study evaluates glycoengineered HIV-1 trimers to enhance bNAb recognition, finding that B4GalT1+ST6GalT1 modifications increase antibody titers in infected donors but reduce vaccine-induced neutralizing antibodies.

Fig4 confers tolerance to rapamycin in a Ste20-dependent manner independent of the Vac14 scaffold

The paper shows that Fig4 mutants in yeast confer rapamycin tolerance independently of Vac14 through Ste20-dependent mechanisms, suggesting Fig4 functions outside the Fab1-Vac14-Fig4 complex.

IgM plays a prominent role in naturally acquired immunity against Plasmodium falciparum gametocytes

This study identifies IgM as a key antibody isotype in immune responses against Plasmodium falciparum gametocytes, showing its superior complement fixation activity compared to IgG.

A genetically encoded sensor for real-time monitoring of poly-ADP-ribosylation dynamics in-vitro and in cells

This paper introduces a genetically encoded FRET probe (pARS) for real-time monitoring of PARylation dynamics in vitro and in live cells, showing its utility in detecting PARP1 activity and inhibitor potency.

Genomic alterations and transcriptional phenotypes in circulating tumor DNA and matched metastatic tumor

This study compares genomic alterations and transcriptional phenotypes in circulating tumor DNA and matched metastatic tumors in SCLC patients, finding cfDNA reflects tumor mutations, identifies resistance mechanisms, and tracks tumor evolution.

Protocols for circulating neutrophil depletion in neonatal C57Bl/6 mice

The paper tests four neutrophil depletion protocols in neonatal mice, finding that the P3 Dual protocol achieves the best neutrophil clearance with minimal ethical concerns.

Transient lagging chromosomes cause primary microcephaly

This study shows that transient lagging chromosomes in anaphase, caused by loss of WDR62 and ASPM, lead to impaired cell proliferation and primary microcephaly through Aurora-B-dependent activation of 53BP1 and p21.

Multi-Niche Human Bone Marrow On-A-Chip for Studying the Interactions of Adoptive CAR-T Cell Therapies with Multiple Myeloma

This study develops a 3D bone marrow-on-a-chip model to investigate interactions between CAR-T cells and multiple myeloma cells in different niches and assess therapeutic responses.

EHMT2 Inactivation in Pancreatic Epithelial Cells Shapes the Transcriptional Landscape and Inflammation Response of the Whole Pancreas

D-type cyclins regulate DNA mismatch repair in the G1 and S phases of the cell cycle, maintaining genome stability

This study shows D-type cyclins inhibit mismatch repair (MMR) in G1 phase by shielding p21, while their degradation in S phase enables proper MMR function, maintaining genome stability.

Metformin protects the heart against chronic intermittent hypoxia through AMPK-dependent phosphorylation of HIF-1α

This study shows metformin protects the heart from chronic intermittent hypoxia by activating AMPK2, which phosphorylates and inhibits HIF-1α, reducing mitochondrial damage.

Gut microbiota-dependent increase in phenylacetic acid induces endothelial cell senescence during aging

This study shows that gut microbiota-dependent phenylacetic acid (PAA) increases endothelial cell senescence and impairs angiogenesis in aging, with acetate able to reverse these effects.

Myocardial Elasticity Imaging Correlates with Histopathology in a Model of Anthracycline-Induced Cardiotoxicity

This paper develops a biomechanical model-based elasticity imaging method to detect early cardiac decline in a primate model of anthracycline-induced cardiotoxicity, showing strong correlation with histopathological changes.

Centrosome age breaks spindle size symmetry even in symmetrically dividing cells

The paper shows that centrosome age causes subtle spindle asymmetry in symmetrically dividing cells, leading to unequal daughter cell sizes.

Tumor-Specific CD8+ T Cells from the Bone Marrow Resist Exhaustion and Exhibit Increased Persistence in Tumor-Bearing Hosts as Compared to Tumor Infiltrating Lymphocytes

This study compares tumor-specific CD8+ T cells from the bone marrow with tumor-infiltrating lymphocytes, finding BM T cells to be more effective in persistence and function for adoptive cell therapy.

ATR inhibition augments the efficacy of lurbinectedin in small cell lung cancer

This study shows that combining ATR inhibition with lurbinectedin improves efficacy in SCLC, particularly in MYC-driven non-neuroendocrine tumors.

Absence of CD47 in the tumor microenvironment modulates tumor metabolism and immunosuppressive signatures limiting breast cancer progression.

This paper shows that CD47 absence in tumors reduces tumor burden and enhances immune response by altering metabolism and immunosuppressive signatures in breast cancer.

An atlas of gene regulatory networks for memory CD4+ T cells in youth and old age

The paper constructs an atlas of gene regulatory networks for memory CD4+ T cells in young and old mice, revealing age-related changes in transcription factor control and cell-cell communication.

Survivor bias drives overestimation of stability in reconstructed ancestral proteins

The paper shows that survivor bias, not consensus bias, explains the overestimation of stability in ancestral proteins reconstructed from extant sequences.

Origin and dynamics of Mycobacterium tuberculosis subpopulations that predictably generate drug tolerance and resistance

This paper identifies drug-tolerant subpopulations in Mycobacterium tuberculosis using a multi-transwell system and barcoding, showing their role in generating resistance.

Orthogonal Shared Basis Factorization: Cross-species gene expression analysis using a common expression subspace

This paper introduces OSBF, a joint matrix factorization method for cross-species gene expression analysis, enabling comparison of functionally similar phenotypes without relying on homology.

CasDinG is an ATP-dependent 5'-3' DNA helicase with accessory domains essential for type IV CRISPR immunity

Rationally designed Gla-domainless FXa as TFPI bait in hemophilia

The paper designs and tests GD-FXa variants to enhance TFPI binding and coagulation restoration in hemophilia.

Subtyping of Small Cell Lung Cancer using plasma cell-free nucleosomes

This study uses cfChIP-seq on plasma samples to subtype SCLC based on epigenetic states, linking plasma nucleosome data to tumor transcriptomes and developing a classifier for lineage-defining transcription factors.

Hypoxic memory of tumor intrinsic type I interferon suppression promotes breast cancer metastasis

The paper shows hypoxia induces a long-lasting suppression of type I interferon and antigen presentation in breast cancer cells, enhancing metastasis and being reversible with HDACi and immunotherapy.

BET inhibition sensitizes immunologically-cold Rb-deficient prostate cancer to immune checkpoint blockade

This paper shows that BET inhibition makes immunologically cold Rb-deficient prostate cancer more responsive to immune checkpoint blockade by reprogramming the tumor microenvironment through STING/NF-κB/IFN signaling.

Vertical HIV-1 transmission in the setting of maternal broad and potent antibody responses

This study examines maternal broadly neutralizing antibody (bnAb) specificities in HIV-transmitting and non-transmitting mothers to determine if certain bnAb specificities drive infant transmitted/founder virus selection.

Computational analysis reveals similarities and differences between SCLC subtypes

The paper analyzes SCLC subtypes using gene expression data to determine their similarities and differences, identifying co-expressed modules and classifying cell lines into clusters.

A unique mode of nucleic acid immunity performed by a single multifunctional enzyme

This study identifies a single multifunctional enzyme, Nhi, that provides robust nucleic acid immunity against phages by acting as both sensor and effector.