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Next generation sequencing

Nazwa przedmiotu: Sekwencjonowanie nowej generacji genomu ssaków (Next generation whole genome sequencing in mammals) [0501-NGWGSM-DX]
Typ Przedmiotu: Wykład monograficzny.
Rok Studiów, kierunek, semestr: III lic oraz I, II, mgr
Liczba punktów, ECTS: 30 h Pkt ECTS 3/Z
Metody oceny/sposób zaliczenia: w formie zaliczenia.
Treści merytoryczne przedmiotu:
1. Introduction: keeping up with mammalian genome.
2. Whole genome sequencing in mammals
3. High-Throughput Next generation sequencing (HT-NGS) platforms
4. First generation sequencing platform: Sanger DNA sequencing
5. Second generation sequencing platforms: Roche 454 FLX system
6. Illumina Solexa and SoLiD next generation genome sequencing
7. Third generation sequencing platforms: Single molecular sequencing: Helico high speed genome sequencing
8. Fourth generation sequencing platforms and future sequencing technologies: Ion Torrant semiconductor sequencer
9. Nimble gene–Roche genome capture sequencing and construction of microarray Chip.
10. Comparative genomics in HT-NGS platform
11. RNA-seq and transcriptome analysis
12. .ChIP- sequencing and epigenomics
13. Challenges in next generation sequencing and bioinformatics
14. Assembling of the mammalian genome
15. De novo sequencing in mammals
16. Gene annotation using Appollo genome browser
17. Mammalian genome database: Human genome database (HGD).
18. Application of genome database in animal genome
19. Challenges of genome database
20. Personalized genomics

MM-Lecture-1
Click here to download HT-NGWGS_Presentation_27-10-2009

Click here to

download Lecture-11

Click here to download SUBJECTS FOR teaching 2011

Presentation 1:
http://www.roche-applied-science.com/publications/multimedia/genome_sequ...
Presentation 2:
http://www.roche-applied-science.com/publications/multimedia/genome_sequ...
Presentation 3:
http://www.roche-applied-science.com/publications/multimedia/genome_sequ...
Presentation 4:
http://www.nimblegen.com/

Click here to download English text_Presentation_HT-WGS_2710-2009

lecture 1: Next-Generation Sequencing Technologies
http://www.youtube.com/watch?v=g0vGrNjpyA8
Lecture 2: DNA - The Next Generation
http://www.youtube.com/watch?v=TYRrXO_22No
Lecture 3: The Genomic Landscape circa 2010
http://www.youtube.com/watch?v=T5RMvkhkFgg
Lecture 4: Biological Sequence Analysis I
http://www.youtube.com/watch?v=Zq4tREtmG9c
Lecture 5: Biological Sequence Analysis II
http://www.youtube.com/watch?v=kIAF9XQ2Tws
Lecture 6: Human Genome Structural Variation, Disease, and Evolution
http://www.youtube.com/watch?v=KVJV_pg5zaM
Lecture 7: Genome-Wide Association Studies (March 09, 2010)
http://www.youtube.com/watch?v=b9GIBWqpinE
lecture 8: Introduction to Population Genetics
http://www.youtube.com/watch?v=ZPnLTmJfUu0
Lecture 9: Genetic Variation
http://www.youtube.com/watch?v=9cZkIZ1YtMs
Lecture 10:Mining Data from Genome Browsers
http://www.youtube.com/watch?v=7BN0T7AQqmY