This course will cover bioinformatics methods for analyzing transcriptomic RNA sequencing data generated with the short read (RNA-seq) and long read (PacBio, ONT) sequencing. In its four modules, the course addresses the core transcriptomics questions: What are the genes and transcripts expressed in a given sample or condition of an experiment?, What are their expression levels?, and What are the differences in gene expression and splicing patterns between conditions? It provides hands-on instruction on how to use popular and/or emerging tools such as STAR, PsiCLASS, DESeq2, rMATS, MntJULiP, Minimap2 and IsoQuant. This is an intermediate level course, and assumes basic knowledge on using command line bioinformatics tools in a Unix-type environment.
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This is an amazing and comprehensive transcriptomics course! It helped me gain knowledge on differential alternative splicing, and expand my differential gene expression analysis toolkit on both short- and long-read RNA-seq data. The well-structured lectures, exercises, and insightful materials made this an invaluable learning journey. I am looking forward to applying these skills in my current and future projects!
the resource person should have practised well, before giving the lecture. Too much of "umm"s and "mmm"s in the lecture, making it difficult to follow through, even though the content is good
The professor does not explain anything properly. She uses specific commands and directories in her system without explaining what she did and uses genome references without even saying that we have to get it from online or does not link to anything