Evan William Newell

Heterogeneity of HCMV-Specific CD8+ T Cells is Established Early in Infection, Clonally Encoded, and Stable Over Time

The paper tracks CMV-specific CD8+ T cells over time to show that clonal diversity and phenotypes are established early and remain stable during chronic infection.

Human CD4 T cells coordinate antitumor immunity through indirect antigen presentation

This study shows human CD4 T cells can drive antitumor immunity in MHC class II-negative cancers through indirect antigen presentation via APCs.

HIV-1 prime-boost vaccination shapes distinct clonal trajectories and memory precursor states of Env- and Gag-specific T cells

This study shows that HIV-1 DNA/rAd5 vaccination leads to distinct clonal expansion and memory precursor states in Env- and Gag-specific CD8 T cells.

Deconvolution of the mechanisms of T cell drug response in multiple myeloma induction therapy

This study investigates the molecular effects of RVd therapy on T cells using TEA-seq, revealing how individual and sequential drug administration impacts T cell function and states.

Spatial multi-omics and single-cell transcriptomics uncover senescence-associated cellular programs during colon adenoma to cancer progression

The paper uses spatial multi-omics and single-cell transcriptomics to identify senescence-associated programs in colon adenoma to cancer progression, finding GDF15 mediates senescence-stemness coupling and immune exclusion.

Hepatic γδ NKT cells modulate liver-resident CD8+ T cells to attenuated malaria parasite vaccines

This study identifies hepatic γδ NKT cells as modulators of liver-resident CD8+ T cell responses in malaria vaccine efficacy, showing their role in protection through IFNγ production and tissue-homing properties.

Coordinated expansion of CD163⁺ monocytes and immature CD177⁺ neutrophils marks severe neurotoxicity after CD19 CAR T cell therapy

The paper identifies CD163+ monocytes and immature CD177+ neutrophils as markers of severe neurotoxicity after CD19 CAR T cell therapy through multi-omics profiling.

Multi-omic profiling of human antibody-secreting cells reveals diverse subsets sustain durable humoral immunity

The paper identifies diverse human antibody-secreting cell subsets using multi-omic methods and shows their distinct functional and spatial characteristics.

Tissue-specific adaptation of human T cells is preserved during tissue inflammation

The paper examines tissue-specific T cell adaptations in healthy and inflamed human mucosal tissues, finding that these adaptations are largely maintained during inflammation.

Myeloma and therapy reshape the bone marrow niche to durably constrain immune reconstitution and vaccine responsiveness

This study shows how multiple myeloma and its treatment alter the bone marrow niche, impairing immune reconstitution and vaccine responses, with mRNA vaccines showing better efficacy than influenza vaccines.

Modulating AP-1 enables CAR-T cells to establish an intratumoral PD-1+Tcf1+ stem-like reservoir and overcomes resistance to PD-1 axis blockade

This study shows that overexpressing c-Jun in CAR-T cells enhances their ability to maintain PD-1+Tcf1+ stem-like cells in tumors and improves response to PD-L1 blockade.

Evaluating the practical aspects and performance of commercial single-cell RNA sequencing technologies

This study compares commercial single-cell RNA sequencing platforms based on performance metrics and practical considerations.

Pro-inflammatory role of granzyme K producing bystander CD8+ T cells in acute myeloid leukemia

This study identifies a pro-inflammatory role of Granzyme K-producing bystander CD8+ T cells in AML, which promote IL-8 secretion and may exacerbate disease progression.

Genital herpes shedding episodes associate with alterations in the spatial organization and activation of mucosal immune cells

This study examines how HSV-2 shedding affects immune cell organization and gene expression in the vaginal mucosa, finding increased immune surveillance and potential tissue homeostasis mechanisms.

Converging cytokine and metabolite networks shape asymmetric T cell fate at the term human maternal-fetal interface

The paper identifies cytokine and metabolite networks that regulate T cell fate at the human maternal-fetal interface, showing how they restrain T cells in an antigen-independent manner.

Chorionic Gonadotropin Beta 7 is a marker of immune evasion in cancer

The paper identifies CGB7 as a marker of immune evasion in cancer, associated with poor prognosis and resistance to immune checkpoint inhibitor therapy.

Cell Simulation as Cell Segmentation

This paper introduces a cell segmentation method using cell simulation to improve accuracy in single-cell spatial transcriptomics, showing better performance than existing methods in identifying tumor infiltrating immune cells.

Hallmarks of tumor-experienced T cells are absent in multiple myeloma patients from diagnosis through maintenance therapy

The paper profiles CD8+ T cells in multiple myeloma patients to assess tumor reactivity and exhaustion, finding no evidence of tumor-experienced T cells with hallmark exhaustion or activation features.

snPATHO-seq: unlocking the pathology archives

This study introduces a method to generate high-quality single-nucleus transcriptomic data from FFPE samples using recent single-cell genomic technology.

An information theoretic approach to detecting spatially varying genes

This paper introduces Maxspin, an information-theoretic method for detecting spatially varying genes, showing improved accuracy across spatial transcriptomics platforms and simulations.

Evaluation of UMAP as an alternative to t-SNE for single-cell data

The paper evaluates UMAP as an alternative to t-SNE for single-cell data, finding it faster, more consistent, and better at preserving cluster organization and continuums.

Reverse-engineering flow-cytometry gating strategies for phenotypic labelling and high-performance cell sorting

Hypergate optimizes flow-cytometry gating strategies for high yield and purity, outperforming human experts and machine learning models on public datasets.