Computational Genomics Summer Institute CGSI Courses

An Introduction to Graph Neural Networks

Explore graph neural networks: fundamentals, applications, and recent advancements in machine learning on graph-structured data.

• YouTube
• 24 minutes
• Self-Paced
• Free Video

Matrix Factorization and Applications to Bulk and Single Cell Omic Datasets

Explore matrix factorization techniques for analyzing bulk and single-cell omic datasets, with applications in computational genomics and bioinformatics.

• YouTube
• 46 minutes
• Self-Paced
• Free Video

How to Squeeze the Best Genome Assembly From Your HiFi Reads

Explore advanced techniques for optimizing HiFi read genome assembly, focusing on haplotype-resolved methods and complex repetitive regions in eukaryotic genomes.

• YouTube
• 35 minutes
• Self-Paced
• Free Video

ecDNA and Breakage Fusion Bridge: Two Facets of Oncogene Amplification in Cancer

Explore oncogene amplification in cancer through ecDNA and Breakage Fusion Bridge mechanisms. Gain insights into cutting-edge research on extrachromosomal DNA and its role in cancerous transformations.

• YouTube
• 41 minutes
• Self-Paced
• Free Video

Acceleration of Bioinformatics Workloads Through Hardware-Algorithm Co-Design and Processing-in-Memory Technologies

Explore hardware-algorithm co-design and processing-in-memory technologies for accelerating bioinformatics workloads, focusing on genomic sequence analysis and mapping techniques.

• YouTube
• 31 minutes
• Self-Paced
• Free Video

The Flaws of Others: Large Language Models in Biomedical Research

Explore the potential and limitations of large language models in biomedical research, focusing on their application and impact in analyzing complex malaria infection data.

• YouTube
• 30 minutes
• Self-Paced
• Free Video

Statistically Consistent Estimation of Level-1 Phylogenetic Networks from SNPs

Explore statistically consistent methods for estimating level-1 phylogenetic networks from SNP data, focusing on rooted and unrooted structures in computational genomics.

• YouTube
• 20 minutes
• Self-Paced
• Free Video

SPLASH: Statistical Signal Extraction for Unified Genomic Discovery

Explore SPLASH, a statistical algorithm for efficient genomic discovery. Learn about its applications in microbial sequencing, transcriptomics, and scientific research.

• YouTube
• 42 minutes
• Self-Paced
• Free Video

SARS-CoV-2 Saltations and Punctuational Evolution - CGSI 2024

Explore SARS-CoV-2 evolution through saltations and punctuated equilibrium, analyzing community structure of coordinated substitution networks for early variant detection.

• YouTube
• 31 minutes
• Self-Paced
• Free Video

Computational Methods for Modeling and Analyzing Epigenomic Data

Explore computational methods for modeling and analyzing epigenomic data, focusing on chromatin state annotation, gene-based modeling, and cross-species conservation in functional genomics.

• YouTube
• 23 minutes
• Self-Paced
• Free Video

Dissecting the Gene Regulatory Grammar at a Single Cell Resolution

Explore gene regulatory mechanisms at single-cell resolution. Discover cutting-edge techniques for analyzing multimodal data and constructing regulatory networks in genomics research.

• YouTube
• 30 minutes
• Self-Paced
• Free Video

Bref4 Compression: Increasing Analyses Performed on Compressed Sequence Data

Explore Bref4 compression techniques for efficient analysis of compressed sequence data. Learn to enhance genomic research capabilities and optimize data storage.

• YouTube
• 31 minutes
• Self-Paced
• Free Video

Hierarchical Models for Deep Mutational Scans - CGSI 2024

Explore hierarchical models for deep mutational scans, focusing on robust analysis frameworks, drug transporter biophysics, and variant effect prediction in genomics research.

• YouTube
• 35 minutes
• Self-Paced
• Free Video

Using the Pyro Probabilistic Programming Language for Statistical Genomics - CGSI 2024

Explore Pyro probabilistic programming for statistical genomics. Learn to model RNA splicing and implement isoform-specific knockdown using advanced computational techniques.

• YouTube
• 38 minutes
• Self-Paced
• Free Video

Fitting Time-Dependent Models Using Sicegar: Applications to RpoS-Dependent Gene Transcription in E. coli - CGSI 2024

Explore time-dependent modeling using sicegar for analyzing RpoS-dependent gene transcription timing in E. coli, with applications to multiple stress responses.

• YouTube
• 46 minutes
• Self-Paced
• Free Video