# Bioinformatics Seminar (MTAT.03.242)

### Topic in this semester:

** “Computational approaches for unravelling the principles of gene regulation”**

### Course info

- The first meeting will take place on September 8.
**Seminars:**Friday 10:15 - 12:00, Ülikooli 17 (Paabel) -**219****Contacts:**Ahto Salumets (ahto.salumets [at] ut.ee), Liis Kolberg (liis.kolberg [at] ut.ee), Kaur Alasoo (kaur.alasoo [at] ut.ee), room 311 in J. Liivi 2- BIIT (Bioinformatics, Algorithmics, and Data Mining group) group website : http://biit.cs.ut.ee/

Bioinformatics is an interdisciplinary field that combines computer science, biology, statistics and mathematics for understanding biological data.

### Aims of the course:

The broad aim of the seminar is to provide basic introduction into the biological questions, introduce common measurement techniques and data types and demonstrate how combining rich data with clever computational approaches can lead to new scientific insight.

The seminar is open for students from **all backgrounds**. However, for those familiar with the field, here are some keywords that might (or might not) be covered during the semester:

**Experimental:** transcription factors, enhancers, gene expression, chromatin accessibility, ChIP-seq, ATAC-seq.

**Computational:** clustering, principal component analysis, k-mers, missing data, differential expression, deep learning.

As a bonus you will get a great experience in functional reading of a scientific paper and improve your presentation and teaching skills.

### Presentations

The preliminary list of topics is available on the Topics tab, but students are welcome to also propose their own topics that fall under the broad theme of gene regulation.

The aim of every presentation is to cover the chosen topic and improve your teaching skills. Every presentation does not have to be just slides + talk only. Make it interactive, include discussions, "hands on" opportunities, surveys, etc.

The length of each presentation is expected to be ~60 min.

### Requirements to pass the course:

The seminar is a non-differentiated course (pass/fail). You need to collect **70 points out of 100** in order to pass the course.

- Presenting an article/topic gives maximum
**50 points**. The presentation points are scaled according to listener feedback which evaluates both clearness and presentation skills (i.e if listener feedback is on average 0.9, then you get 50*0.9=45 points). The presenter has to grade the homeworks of other students in order to get the points. - Attending all the seminars gives
**20 points**(depends on the total number of seminars, i.e if there are 15 seminars altogether, then you get ~1.34 points per seminar) - Submitting all homeworks by the deadlines gives
**30 points**(the number of homeworks depend on the number of registered students)

Current state of the points can be seen here

### Guest lectures

Depending on the number of students, we will invite guest lecturers to give you the broad overview of the state-of-the-art research of the bioinformatics field.