Universität Wien FIND

301214 UE Toolkit for in silico sequence analysis (2019W)

vormals UE IIIB

3.00 ECTS (2.00 SWS), SPL 30 - Biologie
Continuous assessment of course work

Summary

Registration/Deregistration

Registration information is available for each group.

Groups

Group 1

max. 18 participants
Language: English
LMS: Moodle

Registration/Deregistration

  • Registration is open from Th 05.09.2019 08:00 to Th 19.09.2019 18:00
  • Deregistration possible until Th 19.09.2019 18:00

Lecturers

Classes (iCal) - next class is marked with N

Verpflichtende Vorbesprechung: 3.10.2019, 9.00 Uhr
SR 1/BZB, Dr. Bohrgasse 9, 1030 Wien
Termin: 4. - 8.11.2019, 9.00 - 17.00 Uhr
Ort: BZB, EDV-Kursraum, Dr. Bohrgasse, 1030 Wien

Wenn die Lehrveranstaltung bereits im Bachelorstudium absolviert wurde, kann sie im Masterstudium (A 066830, A 066 834, A 066 877) nicht anerkannt werden.

Siehe auch Studentenseite der Departments:
http://molekularebiologie.univie.ac.at/

Thursday 03.10. 09:00 - 10:00 BZB/Seminarraum 1/2, 6.Ebene 6.501/6.504, Dr.-Bohr-Gasse 9, 1030 Wien
BZB/Seminarraum 1/2, 6.Ebene 6.501/6.504, Dr.-Bohr-Gasse 9, 1030 Wien
BZB/Seminarraum 1/2, 6.Ebene 6.501/6.504, Dr.-Bohr-Gasse 9, 1030 Wien
(Kickoff Class)
Monday 04.11. 09:00 - 17:00 BZB/EDV-Raum, 6.Ebene 6.105, Dr.-Bohrgasse 9, 1030 Wien
Tuesday 05.11. 09:00 - 17:00 BZB/EDV-Raum, 6.Ebene 6.105, Dr.-Bohrgasse 9, 1030 Wien
Wednesday 06.11. 09:00 - 17:00 BZB/EDV-Raum, 6.Ebene 6.105, Dr.-Bohrgasse 9, 1030 Wien
Thursday 07.11. 09:00 - 17:00 BZB/EDV-Raum, 6.Ebene 6.105, Dr.-Bohrgasse 9, 1030 Wien
Friday 08.11. 09:00 - 17:00 BZB/EDV-Raum, 6.Ebene 6.105, Dr.-Bohrgasse 9, 1030 Wien

Aims, contents and method of the course

This practical course teaches fundamental tools for computer work in molecular biosciences. The course includes:
• design of CRIPSR/Cas9-mediated genome editing
• in silico plasmid cloning
• design and analysis of quantitative PCR experiments
• search and analysis of DNA and protein sequences (NCBI, EBI, GENEBANK, ENSEMBL, UNIPROT)
• homology analysis and sequence comparison (BLAST, FASTA, EMBOSS)
• identification of protein domains (multiple sequence alignment, PROSITE)
• gene finding algorithms (EMBOSS)
• 3D protein structure (PDB, PDB viewers)
• navigation in literature databases (PUBMED)

Requirements: basic computer knowledge and Course III A: Laboratory Work in Molecular Biology

Assessment and permitted materials

Evaluation mode:
• Active participation (25%)
• Written report (25%)
• Exam (50%): Oral or written at the course end. Complex task including sequence assembly, gene finding and retrieval, sequence homology search, DNA translation, pairwise sequence alignment, multiple sequence alignment, mutation identification at DNA and protein level, protein domain analysis, cloning

Group 2

max. 18 participants
Language: English
LMS: Moodle

Registration/Deregistration

  • Registration is open from Th 05.09.2019 08:00 to Th 19.09.2019 18:00
  • Deregistration possible until Th 19.09.2019 18:00

Lecturers

Classes (iCal) - next class is marked with N

Verpflichtende Vorbesprechung: 3.10.2019, 9.00 Uhr
SR 1/BZB, Dr. Bohrgasse 9, 1030 Wien
Termin: 18. - 22.11.2019, 9.00 - 17.00 Uhr
Ort: BZB, EDV-Kursraum, Dr. Bohrgasse, 1030 Wien

Wenn die Lehrveranstaltung bereits im Bachelorstudium absolviert wurde, kann sie im Masterstudium (A 066830, A 066 834, A 066 877) nicht anerkannt werden.

Siehe auch Studentenseite der Departments: http://molekularebiologie.univie.ac.at/

Thursday 03.10. 09:00 - 10:00 BZB/Seminarraum 1/2, 6.Ebene 6.501/6.504, Dr.-Bohr-Gasse 9, 1030 Wien (Kickoff Class)
Tuesday 19.11. 09:00 - 17:00 BZB/EDV-Raum, 6.Ebene 6.105, Dr.-Bohrgasse 9, 1030 Wien
Wednesday 20.11. 09:00 - 17:00 BZB/EDV-Raum, 6.Ebene 6.105, Dr.-Bohrgasse 9, 1030 Wien
Thursday 21.11. 09:00 - 17:00 BZB/EDV-Raum, 6.Ebene 6.105, Dr.-Bohrgasse 9, 1030 Wien
Friday 22.11. 09:00 - 17:00 BZB/EDV-Raum, 6.Ebene 6.105, Dr.-Bohrgasse 9, 1030 Wien

Aims, contents and method of the course

This practical course teaches basic computing in molecular biosciences: search, retrieval and analysis of DNA and protein sequences, primer design, mutationanalysis and cloning, working with publicationdatabases, citations, graphical representation of Data and statistical analysis with the help of local as well as internet-based resources.

Exam: oral in small groups.

Requirements: basic computer knowledge and Course III A: Laboratory Work in Molecular Biology

Assessment and permitted materials

Compulsory attendance; the evaluation consists of different performances: active participation and results obtained, written report, theoretical knowledge including final exam (the percentage of the subgrades will be announced by the course leader); each of the subgrades must have a positive evaluation.

Information

Minimum requirements and assessment criteria

Examination topics

Reading list


Association in the course directory

MMB I-2, MMB II-2, MMB III-2, MMB W-2, MGE III-1, MGE III-2, MMEI III, WZB

Last modified: Tu 20.08.2019 15:28