[better]: Bioe6403

“BIOE6403 was the single most useful course for my transition from mechanical engineering to biotech. I used the LNP design project directly in my job interview at Moderna.” — Former student, 2023

| Week | Topic | Hands-on Lab / Computational Exercise | |------|----------------------------|----------------------------------------| | 1 | Introduction to systems biology; central dogma review | Setting up Python/R environment; accessing GEO/ArrayExpress | | 2 | High-throughput data overview (microarray, bulk RNA-seq, scRNA-seq) | FASTQ to count matrix; quality control with FastQC & MultiQC | | 3 | Network representations (graphs, adjacency matrices, motifs) | Building protein interaction networks using STRING + NetworkX | | 4 | Network inference I: Correlation & mutual information | ARACNE & CLR algorithm implementation | | 5 | Network inference II: Bayesian & regression-based (GENIE3) | Comparing inference methods on DREAM challenge data | | 6 | ODE modeling of gene circuits | Simulating a repressilator (toggle switch) with SciPy/odeint | | 7 | Parameter estimation & sensitivity analysis | Fitting a model to synthetic data; LHS-PRCC analysis | | 8 | Single-cell RNA-seq analysis pipeline | Using Scanpy: filtering, normalization, highly variable genes | | 9 | Dimensionality reduction & trajectory inference | UMAP visualization; Monocle 3 / PAGA trajectory | | 10 | Machine learning for genomic prediction | Regularized regression (LASSO) for TF binding site prediction | | 11 | Multi-omics integration (MOFA, Seurat v4) | Integrating scRNA-seq + scATAC-seq from PBMCs | | 12 | Spatial transcriptomics & image-based omics | Analyzing a Visium dataset; spot deconvolution | | 13 | Model validation: Knockouts, perturbations, and causal inference | Using DoRothEA + PROGENy for activity inference | | 14 | Final project presentations | Peer feedback & reproducibility check | bioe6403

The primary goal of BIOE6403 is to provide a deep understanding of how medical devices "read" the human body. The curriculum focuses on: “BIOE6403 was the single most useful course for

Based on past student surveys (n=45), BIOE6403 requires: , specific circuit design help , or information

: You can view the full academic requirements and details on the UQ Course Profile page Degree Pathways : This course is typically part of programs like the Master of Electrical Engineering or other biomedical engineering tracks at UQ. , specific circuit design help , or information on in this course at UQ? BIOE6403-60637-7560 - Course profiles