Provides a review of basic concepts in molecular biology, genetics, and genomics. Topics include the following: prokaryotic and eukaryotic genome structure and organization (including 3D architecture); Mendelian genetics, recombination, linkage and linkage disequilibrium, genome-wide association studies; 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; 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.