Kurskatalog forskarutbildning - HT18

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Titel Bioinformatics for cell biologists
Kursnummer 2219
Program Cellbiologi och genetik
Språk Engelska
Antal högskolepoäng 1.5
Noteringar Kursen uppfyller kraven för en allmänvetenskaplig kurs.

Datum 2018-09-24 -- 2018-09-28
Kursansvarig institution Institutionen för cell- och molekylärbiologi
Särskild behörighet -
Kursens syfte To increase the understanding of the basic principles of bioinformatics and to gain practical skills in bioinformatics analysis of sequence data.
Kursens lärandemål After the completed course, the students will be able to utilize basic bioinformatics resources and tools, apply and integrate current, advanced computational biology methods in their research, and to make use of publicly available genome-wide sequencing data sets.
Kursens innehåll The course covers the use of most common bioinformatics resources such as public data bases and tools for sequence analysis. Practical excercises and discussions bridge sequence analysis to cellular function.
Arbetsformer The learning activities on the course consist of lectures and practical computer excercises. In addition, the students will be supervised in the preparation of presentations on bioinformatics to benefit their own research.
Obligatoriska moment The computer excercises are obligatory. Absence from the obligatory moments is compensated according to the instructions of the course director.
Examination Formative examination with practical computer excercises. Summative oral examination in conjunction with the presentation of individual student projects.
Kurslitteratur och övriga läromedel Articles and online resources which will be recommended during the course.
Antal studenter 12 - 15
Urval av studenter Selection will be based on 1) the relevance of the course syllabus for the applicant's doctoral project (according to written motivation), 2) date for registration as a doctoral student (priority given to earlier registration date)
Övrig information The course is given as practical and theoretical course in basic cell biology oriented bioinformatics. The course is organized full time at Karolinska Institutet Solna campus. All course participants must bring their own laptop for the course practicalities with the following software pre-installed (or at least downloaded): Python, PyCharm, Java8, R and R studio. Links to all programs will be provided. Note that we will have very limited time to solve the installation problems. The focus will be on the following topics: Introduction to the sequencing techniques and samples preparation for the sequencing. Programming languages: VBA, Python, R with no prior knowledge of programming required. In the part 2 we will practice: alignments, variant calling, RNA-seq data analysis, making sense of gene lists. The main teachers will be Dr. Leonid Bystrykh and Dr. Victor Guryev from the University of Groningen, along with faculty from KI (Edyta Wójtowicz and Allegra Lord).
Ytterligare kursledare The main teachers will be Leonid Bystrykh and Victor Guryev from the University of Groeningen, along with faculty from KI (Edyta Wójtowicz and Allegra Lord).
Tidigare omdöme av kursen Not available
Kursansvarig Matti Nikkola
Institutionen för cell- och molekylärbiologi

Matti.Nikkola@ki.se
Kontaktpersoner Linda Lindell
Institutionen för cell- och molekylärbiologi
08-524 872 90
linda.lindell@ki.se

von Eulers väg 1

171 77
Stockholm