BMSC 8203: Bioinformatics Lectures

2020 lectures for Temple’s biomedical sciences graduate Bioinformatics class.

RNA-seq

2020-03-17

• slides Powerpoint, PDF
• TCC-GUI RNA-seq web app https://infinityloop.shinyapps.io/TCC-GUI/
• References
  • Nguyen 2019, on pathway analysis
  • Stark 2019, excellent RNA-seq review and overview
  • Stupnikov 2018, on impact of sequencing depth
  • Zhao 2018, on ribosomal RNA depletion strategies

Homework

• homework Word document, pdf

Epigenetics and Chromatin State

2020-03-24

• slides PDF
• References
  • BS-seq, Greenberg 2019, Karemaker 2018
  • ChIP-seq Nakato 2017
  • ATAC-seq Yan 2020, Cusanovich 2018

Homework

• homework Word document, pdf