Yleinen
General info for October 2019
Lectures:
- On Tuesdays 12:15-14:00 in T3, and
- On Fridays 12:15-14:00 in A136
- First lecture: October 29, 2019, starting at 12:15.
Exercises:
- On Fridays 14:15-16:00 in A046, Otakaari 1
- First exercise: November 1, 2019
- Week 49: the exercise is on Thursday 5.12. 12.15-14.00 at U257 ELISA
Teachers:
- Harri Lähdesmäki, email: harri.lahdesmaki@aalto.fi, office: B358
- Viivi Halla-aho, email: viivi.halla-aho@aalto.fi, office: A348
- Juhi Somani, email: juhi.somani@aalto.fi, office:
- Maria Osmala, email: maria.osmala@aalto.fi, office: A357
Learning outcome:
The course provides you with basic understanding of high-throughput data and computational methods that are commonly used for analysing the data in biological and biomedical problems. After the course you have skills to apply various computational methods in real biological problems and study the field further.
Notes:
The course is also accepted as a postgraduate course
Preliminary syllabus:
- Introduction, recap on hypothesis testing and multiple testing
- High-throughput sequencing technology
- Short sequencing read alignment
- Genotype calling and de novo assembly
- Gene expression analysis using RNA-sequencing
- Chromatin immunoprecipitation sequencing: protein-DNA interactions
- Epigenetic data analysis: histone modifications, chromatin accessibility, DNA methylation
- Single-cell genomics
- Metagenomics
- Enrichment analysis
Prerequisites:
- Basic knowledge of probability, statistics and applied math
- Basic programming skills
Requirements:
- Exercises: Participation in the exercise sessions is recommended (but not mandatory) but you need to submit written reports (minimum of 5 points)
- One assignment project.
- Final examination.
Grading:
- Exercises: 3 * 5 points, 15 points in total
- Assignment project: 15 points
- Exam: 30 points
- Total: max. 60 points
- Approx. 30 points required to pass the course
- Approx. 50 points will give you the maximum grade 5/5
List of materials:
- Lecture notes
- Material will be supplemented by scientific (review) articles