AI-Driven-Drug-Discovery-for-EGFR-TKI-Resistance-in-NSCLC-Using-Dual-SMILES-Models
This project analyzes the long non-coding RNA UCA1 in non-small cell lung cancer (NSCLC) using TCGA RNA-seq data. It includes data preprocessing, normalization, differential expression analysis, and visualization. Key outputs are UCA1 expression patterns, PCA plots, heatmap
End-to-end oncology RWE pipeline: synthetic EHR data (Synthea) harmonized to the OMOP CDM, an NSCLC cohort built with dbt and PostgreSQL, and survival analysis in R, benchmarked against SEER registry data. Includes data-quality checks and a documented case where the synthetic data failed validation. Methods demo, not real patient data.
Plasma cell-free DNA hydroxymethylomes discriminate disease state in EGFR-mutant non-small cell lung cancer.
Patient-aware benchmark of frozen scGPT versus Scanpy/PCA on 29,614 NSCLC single cells with held-out evaluation and sample-level analysis
Somatic mutations in TCGA lung adenocarcinoma — maftools workflow
Single-cell RNA-seq analysis of CD8 T cell functional states in lung cancer - two-dataset portfolio examining tumor-associated exhaustion in LUAD and its association with anti-PD-1 immunotherapy response in NSCLC.
NSCLC Radiomics: Survival Time prediction using CT-extracted features and clinical data.
Gene expression analysis to identify biomarkers for early lung cancer detection (SCLC & NSCLC)
Single-cell and bulk RNA-seq analysis of T cell functional states associated with immunotherapy response in NSCLC.
PubChem API scraper for EGFR inhibitors including SMILES, MW, Lipinski Ro5 compliance across 3 TKI generations
Erhobene Datenelemente zum Lungenkrebspatientenpfad im Forschungsprojekt MiHUB
Strict held-out CP/CPR/CPRD/RD survival modeling reference implementation for the ACRIN 6668/RTOG 0235 secondary analysis.
A collection of code related to my MS thesis in Bioinformatics at SDSU
Analysis code for NSCLC radiosensitivity radiogenomics and CT radiomic surrogate modeling.
MSc Data Analytics Thesis: Unsupervised Feature Extraction for Assessing Recurrence of Lung Cancer
Bayesian NMA of advanced NSCLC treatments across 10 studies using gemtc and JAGS — fixed/random effects models, DIC model selection, SUCRA rankings, full league table, node-splitting consistency check, and heterogeneity estimation for NICE STA submissions.
ligand protein binding through docking for mutant specific biomarkers in egfr inhibiotrs in lung cancer
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