Aaron T. Mayer
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View article: Data from Genomic and Immune Landscape of Pancreatic Ductal Adenocarcinoma Associated with Germline Pathogenic Variants in <i>ATM</i>
Data from Genomic and Immune Landscape of Pancreatic Ductal Adenocarcinoma Associated with Germline Pathogenic Variants in <i>ATM</i> Open
Purpose:Germline pathogenic variants (PV) in ATM increase the risk of pancreatic ductal adenocarcinoma (PDAC), but the underlying tumor biology of PDAC associated with germline PV in ATM has not been adequately explored.Exper…
View article: Supplementary Table S3 from Genomic and Immune Landscape of Pancreatic Ductal Adenocarcinoma Associated with Germline Pathogenic Variants in <i>ATM</i>
Supplementary Table S3 from Genomic and Immune Landscape of Pancreatic Ductal Adenocarcinoma Associated with Germline Pathogenic Variants in <i>ATM</i> Open
Clinical characteristics of PDAC associated with germline ATM PV carriers
View article: Supplementary Table S5 from Genomic and Immune Landscape of Pancreatic Ductal Adenocarcinoma Associated with Germline Pathogenic Variants in <i>ATM</i>
Supplementary Table S5 from Genomic and Immune Landscape of Pancreatic Ductal Adenocarcinoma Associated with Germline Pathogenic Variants in <i>ATM</i> Open
Comparison of Overexpressed and Downregulated Genes between RNA-Sequencing Cluster 1 and Cluster 3
View article: Supplementary Figures S1-S12 from Genomic and Immune Landscape of Pancreatic Ductal Adenocarcinoma Associated with Germline Pathogenic Variants in <i>ATM</i>
Supplementary Figures S1-S12 from Genomic and Immune Landscape of Pancreatic Ductal Adenocarcinoma Associated with Germline Pathogenic Variants in <i>ATM</i> Open
Supplementary figures displaying supporting evidence Supplemental Figure 1: Results of IHC Staining for ATM expression. Supplemental Figure 2: Variant Summary from Whole Exome Sequencing Supplemental Figure 3: Oncoprint of Somatic Mutation…
View article: Supplementary Table S4 from Genomic and Immune Landscape of Pancreatic Ductal Adenocarcinoma Associated with Germline Pathogenic Variants in <i>ATM</i>
Supplementary Table S4 from Genomic and Immune Landscape of Pancreatic Ductal Adenocarcinoma Associated with Germline Pathogenic Variants in <i>ATM</i> Open
List of OncoKB Cancer Genes with Overexpression and Downregulation
View article: Supplementary Table S1 from Genomic and Immune Landscape of Pancreatic Ductal Adenocarcinoma Associated with Germline Pathogenic Variants in <i>ATM</i>
Supplementary Table S1 from Genomic and Immune Landscape of Pancreatic Ductal Adenocarcinoma Associated with Germline Pathogenic Variants in <i>ATM</i> Open
List of tumor samples subjected to DNA and RNA sequencing along with sample quality metrics
View article: Supplementary Table S2 from Genomic and Immune Landscape of Pancreatic Ductal Adenocarcinoma Associated with Germline Pathogenic Variants in <i>ATM</i>
Supplementary Table S2 from Genomic and Immune Landscape of Pancreatic Ductal Adenocarcinoma Associated with Germline Pathogenic Variants in <i>ATM</i> Open
List of germline ATM mutations in the study population
View article: 1105 The enable pancancer atlas: utilizing a multi-cohort spatial proteomics database for in silico clinical patient stratification of checkpoint blockade immunotherapy in hepatocellular carcinoma
1105 The enable pancancer atlas: utilizing a multi-cohort spatial proteomics database for in silico clinical patient stratification of checkpoint blockade immunotherapy in hepatocellular carcinoma Open
View article: 478 Spatial omics and deep learning define an immunotherapy resistance niche in hepatocellular carcinoma
478 Spatial omics and deep learning define an immunotherapy resistance niche in hepatocellular carcinoma Open
View article: Using spatial proteomics to enhance cell type assignments in histology images
Using spatial proteomics to enhance cell type assignments in histology images Open
Hematoxylin and eosin (H&E) staining has been a standard in clinical histopathology for many decades but lacks molecular detail. Advances in multiplexed spatial proteomics imaging allow cell types and tissues to be annotated by their expre…
View article: ROSIE: AI generation of multiplex immunofluorescence staining from histopathology images
ROSIE: AI generation of multiplex immunofluorescence staining from histopathology images Open
View article: OmicsNavigator: an LLM-driven multi-agent system for autonomous zero-shot biological analysis in spatial omics
OmicsNavigator: an LLM-driven multi-agent system for autonomous zero-shot biological analysis in spatial omics Open
Spatial omics provides unprecedented high-resolution insights into molecular tissue compositions but poses significant analytical challenges due to massive data volumes, complex hierarchical spatial structures, and domain-specific interpre…
View article: Multi-omic spatial profiling reveals the unique SARS-CoV-2 lung microenvironment and collagen VI as a predictive biomarker in severe COVID-19
Multi-omic spatial profiling reveals the unique SARS-CoV-2 lung microenvironment and collagen VI as a predictive biomarker in severe COVID-19 Open
Background Whilst COVID-19 is primarily a respiratory infection, few studies have characterized the immune response to COVID-19 in lung tissue. We sought to understand the pathogenic role of microenvironmental interactions and the extracel…
View article: Immune checkpoint inhibitors plus debulking surgery for patients with metastatic renal cell carcinoma: clinical outcomes and immunological correlates of a prospective pilot trial
Immune checkpoint inhibitors plus debulking surgery for patients with metastatic renal cell carcinoma: clinical outcomes and immunological correlates of a prospective pilot trial Open
View article: Safety outcomes and immunological correlates in a prospective clinical trial of immune checkpoint therapy plus debulking surgery for patients with metastatic renal cell carcinoma
Safety outcomes and immunological correlates in a prospective clinical trial of immune checkpoint therapy plus debulking surgery for patients with metastatic renal cell carcinoma Open
View article: <i>ROSIE</i>: AI generation of multiplex immunofluorescence staining from histopathology images
<i>ROSIE</i>: AI generation of multiplex immunofluorescence staining from histopathology images Open
Hematoxylin and eosin (H&E) is a common and inexpensive histopathology assay. Though widely used and information-rich, it cannot directly inform about specific molecular markers, which require additional experiments to assess. To address t…
View article: 1373 Search and retrieval of detailed disease-associated cell microenvironments via conventional histopathology
1373 Search and retrieval of detailed disease-associated cell microenvironments via conventional histopathology Open
View article: 1415 Multimodal spatial signatures of immunotherapy response in hepatocellular carcinoma
1415 Multimodal spatial signatures of immunotherapy response in hepatocellular carcinoma Open
View article: 1203 Automated prediction of immunotherapy response in head and neck squamous cell carcinoma by a multimodal graph neural network
1203 Automated prediction of immunotherapy response in head and neck squamous cell carcinoma by a multimodal graph neural network Open
View article: 70 Spatial proteomic profiling of VISTA and PSGL-1 interactions across cancer indications
70 Spatial proteomic profiling of VISTA and PSGL-1 interactions across cancer indications Open
View article: Spatial analysis reveals targetable macrophage-mediated mechanisms of immune evasion in hepatocellular carcinoma minimal residual disease
Spatial analysis reveals targetable macrophage-mediated mechanisms of immune evasion in hepatocellular carcinoma minimal residual disease Open
View article: Discovery and generalization of tissue structures from spatial omics data
Discovery and generalization of tissue structures from spatial omics data Open
View article: Single-cell spatial multiomics reveals tumor microenvironment vulnerabilities in cancer resistance to immunotherapy
Single-cell spatial multiomics reveals tumor microenvironment vulnerabilities in cancer resistance to immunotherapy Open
Heterogeneous resistance to immunotherapy remains a major challenge in cancer treatment, often leading to disease progression and death. Using CITE-seq and matched 40-plex PhenoCycler tissue imaging, we performed longitudinal multimodal si…
View article: Spatial insights into immunotherapy response in non-small cell lung cancer (NSCLC) by multiplexed tissue imaging
Spatial insights into immunotherapy response in non-small cell lung cancer (NSCLC) by multiplexed tissue imaging Open
View article: A Multi-Granularity Approach to Similarity Search in Multiplexed Immunofluorescence Images
A Multi-Granularity Approach to Similarity Search in Multiplexed Immunofluorescence Images Open
Due to the rapid increase and importance of multiplexed immunofluorescence (mIF) imaging data in spatial biology, there is a pressing need to develop efficient image-to-image search pipelines for both diagnostic and research purposes. Whil…
View article: 899 emObject: domain specific data abstraction for spatial omics
899 emObject: domain specific data abstraction for spatial omics Open
Background Recent advances in high-parameter spatial biology have yielded a rapidly growing new class of biological data, allowing researchers to more comprehensively characterize cellular state and morphology in native tissue context. How…
View article: 1290 Quantitative cell morphology featurization in multiplexed immunofluorescence images reveals tumor subtypes in cancer microenvironments
1290 Quantitative cell morphology featurization in multiplexed immunofluorescence images reveals tumor subtypes in cancer microenvironments Open
Background Cell morphology, the study of cellular form and structure, provides valuable insights into the diverse characteristics and functions of different cell types. Cell morphology is also indicative of cellular activities and processe…
View article: MA09.03 High-Dimensional Profiling of the Tumour Microenvironment of Non-small Cell Lung Cancer
MA09.03 High-Dimensional Profiling of the Tumour Microenvironment of Non-small Cell Lung Cancer Open
View article: 95 From images to insights: Deep spatial profiling reveals disease and treatment biomarkers
95 From images to insights: Deep spatial profiling reveals disease and treatment biomarkers Open
Background Selecting the right biomarkers is important for success in phase transitions of clinical trials. Biomarkers selected using conventional techniques (TMB, PD1/PD-L1 IHC) have several limitations. There is a growing need to identif…
View article: 222-E Integrative spatial multi-omics analysis of NSCLC tumor microenvironment identifies key features associated with response to immune checkpoint inhibitor therapy
222-E Integrative spatial multi-omics analysis of NSCLC tumor microenvironment identifies key features associated with response to immune checkpoint inhibitor therapy Open
Background The tumor microenvironment (TME) of non-small cell lung cancer (NSCLC) undergoing immune checkpoint inhibitor (ICI) treatment is poorly understood. Spatially-resolved single-cell analyses are necessary to identify co-enriched ce…