This course provides a review of basic concepts in molecular biology, genetics, and genomics. Students will explore topics such as prokaryotic and eukaryotic genome structure and organization, Mendelian genetics, recombination, linkage and linkage disequilibrium, and genome-wide association studies. The course will also cover a review of genome projects, comparative genomics, genome variation, single nucleotide polymorphisms and genotyping; gene expression and the transcriptome, transcriptional regulation, gene regulatory networks; translation and translational regulation; proteomics approaches; and integrative genomics.

An introduction to approaches for the structural and functional annotation of genome content. Students will explore a variety of topics, including ab initio gene/coding sequence discovery; signals and signal sensors (including regulatory sequences); non-protein coding genes and other structural features of genome sequences; similarity searches (orthologs, paralogs, xenologs); clustering of genes by sequence similarity; clusters of orthologous genes; phylogenetic classification of genes; gene ontologies, gene set enrichment analyses; NGS functional assays; integrated genomics circuits; and annotation databases.

This course focuses on the analysis of transcriptomics data, and specifically on the analysis of gene and transcript-level expression. Material covered includes transcript and gene expression estimation from RNA-seq data (short and long-read), basic experimental design and statistical methods for differential expression analysis, discovery of novel transcripts via reference-guided and de novo assembly, and the analysis of single-cell gene expression data (e.g., single-cell expression quantification, dimensionality reduction, clustering, pseudotime analysis). Prerequisite: BIOI 604. Core.

Provides an overview of some major topics and research areas bioinformatics and genomics, and includes material from basic foundations through advanced concepts.