Proseminar : Introduction to Bioinformatics

Lecturer

Rolf Backofen, Florian Eggenhofer, Pavan Videm

Dates

• Inital meeting: 06.11 at 14:00 via Zoom (see here for installation)

  https://uni-freiburg.zoom.us/j/89057005343
  Meeting ID: 890 5700 5343
  Passcode: *fg2BsvKr
  

• Seminar Part I on Biological Introduction to RNA-related topics: on 17.12, from 10:00 to 16:00 via Zoom

  https://uni-freiburg.zoom.us/j/84142568861
  Meeting ID: 841 4256 8861
  Passcode: yKU4.P@bV
  

• Seminar Part II on RNA-related book chapter: on 10.02.2021 from 13:00 to 16:00 via Zoom

  https://uni-freiburg.zoom.us/j/63023646664
  Meeting ID: 630 2364 6664
  Passcode: xCbzu70Je
  

• Seminar Part II on RNA-related book chapter: on 11.02.2021 from 13:00 to 16:00 via Zoom

  https://uni-freiburg.zoom.us/j/62854015970
  Meeting ID: 628 5401 5970
  Passcode: 1K5Vv4Y8C
  

Organisation

• English or German
• Hand in presentation and a summary before the seminar begins
• Biology introduction
• Group talks: 15-30 minutes, with small handouts, and a quiz for your peers
• Active participation for all talks
• Give 25-30 min presentations (= talk + discussion), topic should be presented clearly and concisely
• Slides Introduction
• Topics - Part I: Biology
• Finalized Chapter-Topic Assignments
• Seminar part II schedule

Chapters

• Chapter 1: Free Energy Minimization to Predict RNA Secondary Structures and Computational RNA Design
  Given to: Heinzinger, Julius handout
  


• Chapter 2: RNA Secondary Structure Prediction from Multi-aligned Sequences
  Given to: Schell, Daniel Michael handout
  


• Chapter 3: A Simple Protocol for the Inference of RNA Global Pairwise Alignments
  Given to: Zoabi, Rand handout
  


• Chapter 8: Quality Control of RNA-Seq Experiments
  Given to: Jessl, Florian Alexander handout
  


• Chapter 9: Accurate Mapping of RNA-Seq Data
  Given to: Bouz El-Jedi, Tamer handout
  


• Chapter 11: Transcriptome Assembly and Alternative Splicing Analysis
  Given to: Albert, Hans handout
  


• Chapter 13: Prediction of miRNA Targets
  Given to: Rassler, Daniela handout
  


• Chapter 19: The ViennaRNA Web Services
  Given to: Marchat, Victor handout
  


• Chapter 22: Rfam: Annotating Families of Non-Coding RNA Sequences
  Given to: Hernandez Abreu, Javier handout
  


• Chapter 23: ASPicDB: A Database Web Tool for Alternative Splicing Analysis
  Given to: Lipski, Aljoscha handout
  


• Chapter 25: Computational Design of Artificial RNA Molecules for Gene Regulation
  Given to: Heisner, Tillmann handout
  


• All papers are taken from the RNA Bioinformatics book.
  RNA Bioinformatics
  

  File:RNA Bioinformatics