Christopher Ian Amos

A Polygenic Score for Smoking Persistence Captures Differences in Cessation Age

This paper develops a polygenic score for smoking persistence and finds it is associated with earlier or later cessation ages across diverse populations.

Large-scale association study identifies lung cancer susceptibility copy number variants and their potential functional role in genetic instability

The paper identifies lung cancer susceptibility copy number variants (CNVs) and shows their potential role in genomic instability through association analyses and functional validation.

Melanoma germline genetics: immune, cancer driver, and Wnt signaling genes

This paper identifies 116 risk loci for melanoma through GWAS, links susceptibility to immunity and Wnt signaling, and develops a PRS improving risk prediction.

Aquaporin-3 amplifies arsenite genotoxicity as a dose-dependent gene-by-environment interaction in human cells

This study shows that AQP3 amplifies arsenite-induced DNA damage in a dose-dependent manner, indicating a gene-by-environment interaction that influences genotoxicity.

Uncovering High-Order Epistatic Interactions in GWAS via a Machine Learning-Based Feature Engineering Framework

The paper introduces a machine learning framework to detect high-order genetic interactions in GWAS by encoding decision paths from classification trees as features, improving model accuracy and interpretability.

Multi-Omics Study of Ancestry in Adults with Intracranial Cancers Glioma (MOSAIC)

This study analyzes a diverse glioma cohort to show ancestry influences on survival, somatic alterations, and mutational processes in diffuse gliomas.

Gene-Specific Analysis of Clonal Hematopoiesis Identifies ASXL1 as a Risk Factor for Lung Cancer

The paper identifies ASXL1 mutations in clonal hematopoiesis as a risk factor for lung cancer, particularly in smokers, using large population-based cohorts.

Single-cell lung eQTL dataset of Asian never-smokers highlights the roles of alveolar cells in lung cancer etiology

The paper constructs a single-cell eQTL dataset from Asian never-smokers, identifying alveolar cell-specific genes linked to lung cancer susceptibility.

Integrative screening identifies functional variants and VNTRs underlying GWAS signals at the 5p15.33 multi-cancer susceptibility locus

The paper identifies functional variants and VNTRs at the 5p15.33 locus using fine-mapping, MPRA, and CRISPRi screens, revealing their role in cancer susceptibility through antagonistic pleiotropy.

Tumor-infiltrating natural killer cell profiling for therapeutic stratification in patients with resectable non-small cell lung cancer

This study identifies smoking-associated natural killer cell subsets in NSCLC that correlate with survival and response to neoadjuvant chemoimmunotherapy, suggesting their use in therapeutic stratification.

Multi-trait and multi-ancestry genetic analysis of comorbid lung diseases and traits improves genetic discovery and polygenic risk prediction

This paper improves genetic discovery and polygenic risk prediction for respiratory diseases by analyzing multiple traits and ancestries, identifying novel loci and developing a new polygenic risk score method.

Formal Statistical Replication Analysis in Lung Cancer Genome-Wide Association Studies

This paper introduces a formal statistical replication analysis to reduce false positives in lung cancer GWAS, finding it significantly lowers false discovery rate and improves polygenic risk score efficiency.

GASPS: A Multi-Omics Framework for Defining Genomic Aberration-Driven Signatures and Predicting Patient Outcomes in Lung Cancer

GASPS develops a statistical framework to define genomic aberration-driven signatures and predict patient outcomes in lung cancer using transcriptomic data.

An integrative analysis of consortium-based multi-omics QTL and genome-wide association study data uncovers new biomarkers for lung cancer

The paper integrates multi-omics QTL and GWAS data to identify 123 novel biomarkers for lung cancer and reveals cross-omics regulatory pathways.

Genomic Insights for Personalized Care: Motivating At-Risk Individuals Toward Evidence-Based Health Practices

The paper develops polygenic risk scores to stratify lung cancer and smoking cessation risk, showing significant odds ratios in diverse populations and planning clinical trials to evaluate interventions.

Multi-ancestry meta-analyses of lung cancer in the Million Veteran Program reveal novel risk loci and elucidate smoking-independent genetic risk

The paper identifies twelve novel genetic risk loci for lung cancer subtypes through multi-ancestry GWAS and shows smoking-independent genetic risk.

Context-aware single-cell multiome approach identified cell-type specific lung cancer susceptibility genes

The paper identifies cell-type specific lung cancer susceptibility genes by integrating single-cell multi-omics data with GWAS loci.

Identifying therapeutic targets for cancer: 2,094 circulating proteins and risk of nine cancers

This study identifies 40 circulating proteins associated with cancer risk using MR and colocalization, highlighting potential therapeutic targets and adverse effects of protein-altering interventions.

A statistical learning method for simultaneous copy number estimation and subclone clustering with single cell sequencing data

This paper introduces FLCNA, a statistical method for simultaneous copy number estimation and subclone clustering in scDNA-seq data, showing improved performance over existing methods in breast cancer samples.

Common genetic variations in telomere length genes and lung cancer

This study investigates the relationship between genetically predicted leukocyte telomere length and lung cancer risk, finding a causal association and novel susceptibility loci.

Genetic analysis of lung cancer reveals novel susceptibility loci and germline impact on somatic mutation burden

This study identifies eight novel lung cancer susceptibility loci and shows that germline variants related to smoking and DNA repair influence somatic mutation burden in lung tumors.

Genetic variants associated mRNA stability in lung

This study identifies genetic variants associated with mRNA stability (stQTLs) in lung tissue using RNA-seq data, finding they are enriched in CDS and 3UTR regions and overlap more with RNA-binding protein and microRNA binding sites compared to eQTLs.

Germline TYK2 mutation and cancer risk

The paper uses a genetic variant to assess cancer risk associated with TYK2 inhibition, finding increased risks for lung cancer and non-Hodgkin lymphoma.

Trans-ancestry genome-wide association study identifies novel genetic mechanisms in rheumatoid arthritis

This study conducts a trans-ancestry GWAS of rheumatoid arthritis, identifying 124 loci, 34 novel, and shows improved polygenic risk score performance across populations.

Dynamic Analysis of Alternative Polyadenylation from Single-Cell RNA-Seq(scDaPars) Reveals Cell Subpopulations Invisible to Gene Expression Analysis

scDaPars analyzes alternative polyadenylation in scRNA-seq data to identify cell subpopulations missed by gene expression analysis.

BMI-CNV: A Bayesian framework for multiple genotyping platforms detection of copy number variation

BMI-CNV improves CNV detection by integrating WES and microarray data across samples, showing better accuracy and identifying lung cancer risk regions.

IL-18 and Lower Risk for Lung Cancer: Triangulated Evidence from Germline Predictions, Pre-Diagnostic Measurements, and Tumor Expression

This study identifies IL-18 as a biomarker for reduced lung cancer risk using genetic, pre-diagnostic, and tumor expression data, with potential therapeutic implications.

Assessment of Polygenic Architecture and Risk Prediction based on Common Variants Across Fourteen Cancers

This study assesses polygenicity and risk prediction using common variants across 14 cancers, finding varying numbers of susceptibility variants and risk score effectiveness.

Physical activity and risk of lung cancer: a two-sample Mendelian randomiza-tion study

This study uses Mendelian randomization to assess if physical activity reduces lung cancer risk, finding no significant protective effect.

Immune-mediated genetic pathways resulting in pulmonary function impairment increase lung cancer susceptibility

The paper identifies genetic links between impaired pulmonary function and increased lung cancer risk, showing causal relationships through Mendelian randomization and highlighting immune-related pathways.