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Type | Seminar (2 SWS) |
ECTS | 4.0 |
Lecturer | Burkhard Rost, Julien Gagneur et al |
Time | Monday, 12:00 - 13:30 |
Room | MI 01.09.034 |
Language | English |
Application / Registration
Application is organised centrally for all bioinformatics seminars. After you have been assigned to our seminar, we will distribute the topics.
Topics related to the research interests of the group: protein sequence analysis, sequence based predictions, protein structure prediction and analysis; interaction networks.
The Pre-meeting will be held on Jul 30th at 1 p.m. in Room MI 01.09.034
The rules and hints for preparation of the seminar discussed in the pre-meeting are also summarised in our Checklist and on these slides (updated Jul 31th).
The order is preliminary and will be adjusted soon. All talks will talk place during the lecture period. The timing will be announced soon.
Date | Topic | Supervisor | Students |
---|---|---|---|
19.11. | Protein localization prediction from evolutionary profiles | Schelling | Kaindl, Slawinska |
26.11. | Protein disorder — a breakthrough invention of evolution? | Heinzinger | Eska, Schütze |
3.12. | Transmembrane Proteins/PolyPhobius | Bernhofer | Descho, Ganswindt |
10.12. | Human 5′ UTR design and variant effect prediction from a massively parallel translation assay | Gagneur | Karollus, Wu |
17.12. |
-- cancelled -- Deep learning sequence-based ab initio prediction of variant effects on expression and disease risk |
Gagneur | Li, Roller |
Maria Schelling
Identification of a protein’s subcellular localization is an important step towards elucidating its function. In this seminar, a machine-learning-based methods for predicting localization in prokaryotes and eukaryotes shall be presented. The methods incorporate a hierarchical ontology of subcellular localization classes. The predictions are derived from evolutionary infromation (Loctree2/3) as well as from the powerful sequence homology-based BLAST (Loctree3).
Literature:
Michael Heinzinger
The regions in proteins that do not adopt regular three-dimensional structures in isolation are called disordered regions. In this seminar the functional and structural aspects of disordered proteins shall be discussed. Though only one literature source is provided, the student is expected to use and refer to in his presentation to additional sources for a detailed understanding of protein disorder.
Literature:
Michael Bernhofer
PolyPhobius uses hidden markov models (HMMs) to predict transmembrane helices in protein sequences. This talk shall introduce transmembrane proteins, HMMs and sequence-based transmembrane helix prediction at the example of PolyPhobius.
Literature: