Module #1 Introduction to Bioinformatics and Disease Research Overview of bioinformatics and its role in disease research, importance of bioinformatics tools in understanding disease mechanisms and identifying potential therapeutic targets.
Module #2 Genomics and Next-Generation Sequencing Introduction to genomics, next-generation sequencing technologies, and their applications in disease research.
Module #3 Sequence Alignment and Analysis Introduction to sequence alignment algorithms, local and global alignment, and analysis of alignment results.
Module #4 Genome Assembly and Annotation Overview of genome assembly and annotation pipelines, including tools such as Velvet, SPAdes, and MAKER.
Module #5 Functional Annotation and Gene Ontology Introduction to functional annotation, gene ontology, and tools such as InterProScan and GOseq.
Module #6 Differential Gene Expression Analysis Introduction to differential gene expression analysis, including RNA-seq data analysis and tools such as DESeq2 and edgeR.
Module #7 Variant Analysis and Interpretation Overview of variant analysis, including variant calling, annotation, and interpretation tools such as GATK and ANNOVAR.
Module #8 Structural Variants and CNV Analysis Introduction to structural variants, copy number variation, and tools such as SVistant and cn.MOPS.
Module #9 Epigenomics and ChIP-Seq Analysis Overview of epigenomics, ChIP-seq data analysis, and tools such as MACS2 and HOMER.
Module #10 Pathway Analysis and Network Visualization Introduction to pathway analysis, network visualization, and tools such as ReactomePA and Cytoscape.
Module #11 Protein-Protein Interaction Networks Overview of protein-protein interaction networks, including tools such as STRING and APID.
Module #12 Protein Function Prediction and Modeling Introduction to protein function prediction, modeling, and tools such as Phyre2 and ROSETTA.
Module #13 Metagenomics and Microbiome Analysis Overview of metagenomics, microbiome analysis, and tools such as QIIME and MetaPhlAn.
Module #14 Systems Biology and Modeling Introduction to systems biology, modeling, and tools such as COPASI and PySCeS.
Module #15 Data Integration and Visualization Overview of data integration, visualization, and tools such as R, Python, and UCSC Genome Browser.
Module #16 Computational Drug Target Identification Introduction to computational drug target identification, including tools such as DrugBank and TargetHunter.
Module #17 Personalized Medicine and Genomic Medicine Overview of personalized medicine, genomic medicine, and tools such as ClinVar and PharmGKB.
Module #18 Ethical and Social Implications of Bioinformatics Discussion of ethical and social implications of bioinformatics, including data sharing, privacy, and intellectual property.
Module #19 Case Studies in Bioinformatics for Disease Research Real-world case studies of bioinformatics applications in disease research, including cancer, infectious diseases, and neurological disorders.
Module #20 Best Practices for Bioinformatics Analysis Discussion of best practices for bioinformatics analysis, including data quality control, reproducibility, and reporting.
Module #21 Cloud Computing for Bioinformatics Introduction to cloud computing for bioinformatics, including Amazon Web Services, Google Cloud Platform, and Microsoft Azure.
Module #22 Containerization and Reproducibility Overview of containerization using Docker, Singularity, and reproducibility in bioinformatics pipelines.
Module #23 High-Performance Computing for Bioinformatics Introduction to high-performance computing for bioinformatics, including parallel computing and distributed computing.
Module #24 Bioinformatics Workflow Management Overview of workflow management systems for bioinformatics, including Snakemake, Nextflow, and Apache Airflow.
Module #25 Advanced Topics in Bioinformatics Discussion of advanced topics in bioinformatics, including machine learning, artificial intelligence, and natural language processing.
Module #26 Collaboration and Communication in Bioinformatics Importance of collaboration and communication in bioinformatics, including tools for collaboration and knowledge sharing.
Module #27 Bioinformatics in the Clinic Overview of bioinformatics applications in clinical settings, including precision medicine and genomic medicine.
Module #28 Future Directions in Bioinformatics Discussion of future directions in bioinformatics, including emerging trends and technologies.
Module #29 Capstone Project:Bioinformatics for Disease Research Hands-on project applying bioinformatics tools and concepts to a disease research question.
Module #30 Course Wrap-Up & Conclusion Planning next steps in Bioinformatics Tools for Disease Research career
