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Root number
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467713 |
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Semester
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HS2023 |
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Type of course
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Lecture |
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Allocation to subject
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Bioinformatics |
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Type of exam
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Written exam |
| Title |
RNA-sequencing |
| Description |
• RNA-seq (bulk): Perform a “standard” differential gene expression workflow in a model organism. This involves mapping of reads to the reference genome with a splice-aware aligner, counting reads per gene, performing tests for differential expression and some visualisation. Optionally: Gene set enrichment analysis; Isoform-specific analysis.
• Transcriptome assembly and long noncoding RNAs: To be able to create a reference-guided transcriptome assembly from a raw RNA-seq dataset; to assess its quality and completeness; to identify lncRNAs in the assembly; to compare it to another annotation; to quantify expression of its genes and transcripts;
• Ribosome profiling (translatomics): Assess the quality of ribosome profiling datasets; get an overview on the most critical features and artefacts found in published datasets; compare ribosome profiling to standard RNA seq; define translation efficiency; perform codon-specific analyses; identify features in translation dynamics
Form of implementation: face-to-face teaching |
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ILIAS-Link (Learning resource for course)
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Registrations are transmitted from CTS to ILIAS (no admission in ILIAS possible).
ILIAS
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Link to another web site
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| Lecturers |
Dr.
Panagiotis Chouvardas, Clinic of Medical Oncology ✉
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Prof. Dr.
Sebastian Andreas Leidel, Department of Chemistry, Biochemistry and Pharmaceutical Sciences (DCBP) ✉
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Dr.
Puneet Sharma, Department of Chemistry, Biochemistry and Pharmaceutical Sciences (DCBP)
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Dr.
Alexander Nater, Bioinformatics and Computational Biology ✉
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ECTS
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3 |
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Recognition as optional course possible
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Yes |
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Grading
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1 to 6 |
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| Dates |
Thursday 16:15-18:00 Weekly
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Tuesday 24/10/2023 09:15-17:00
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Thursday 26/10/2023 14:15-18:00
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Wednesday 31/1/2024 08:00-10:00
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| Rooms |
Kursraum 033, Hauptgebäude H4
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Seminarraum 117, Hauptgebäude H4
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Hörraum 205, Hauptgebäude H4
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Seminarraum 206, Hauptgebäude H4
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Seminarraum S 201, UniS
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Hörraum C159, Zellbiologie
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| Students please consult the detailed view for complete information on dates, rooms and planned podcasts. |
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Öffentlicher Bereich
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