Courses
Bioinformatics analysis and annotation of variants in NGS data
Submitted by Dr Verena Ras -
Module:
N/A
Material type:
Exercises, Slides, Tutorial
Course Level:
Description:
This workshop provides an introduction to the computational analyses of NGS data from pre-processing to the identification and annotation of genomic variants and the functional effects of those variants, as well as the use of pharmocogenomic databases.
Prerequisites
Participants are encouraged to work through the following resources to enable them to gain the most from the workshop:
- https://wiki.galaxyproject.org/Learn/GalaxyNGS101
- https://usegalaxy.org/u/galaxyproject/p/galaxy-variant-101
- https://wiki.galaxyproject.org/Learn/Screencasts
- http://www.1000genomes.org/using-1000-genomes-data
- http://www.h3abionet.org/tools-and-resources/sops/human-variant-calling
- ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/technical/working/20120229_tutorial_docs/G1K_web_based_tutorial_exercises_20120217.pdf
- ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/technical/working/20120229_tutorial_docs/G1K_web_based_tutorial_answers_20120217.pdf
- https://www.clinicalgenome.org/data-sharing/clinvar/clinvar-multimedia-tools/
- http://www.ensembl.org/info/docs/tools/vep/online/VEP_web_documentation.pdf
Prerequisites
Participants are encouraged to work through the following resources to enable them to gain the most from the workshop:
- https://wiki.galaxyproject.org/Learn/GalaxyNGS101
- https://usegalaxy.org/u/galaxyproject/p/galaxy-variant-101
- https://wiki.galaxyproject.org/Learn/Screencasts
- http://www.1000genomes.org/using-1000-genomes-data
- http://www.h3abionet.org/tools-and-resources/sops/human-variant-calling
- ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/technical/working/20120229_tutorial_docs/G1K_web_based_tutorial_exercises_20120217.pdf
- ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/technical/working/20120229_tutorial_docs/G1K_web_based_tutorial_answers_20120217.pdf
- https://www.clinicalgenome.org/data-sharing/clinvar/clinvar-multimedia-tools/
- http://www.ensembl.org/info/docs/tools/vep/online/VEP_web_documentation.pdf
Organiser:
H3ABioNet, African Pharmacogenomics Research Consortium, Computational Biology Division - University of Cape Town
Lecturer/ Author:
Amel Ghouila, Gerrit Botha, Colleen Saunders, Luiz Olavo Bonino, Nyarai Soko, Suresh Maslamoney, Sumir Panji, Collet Dandara, Nicola Mulder
Year created:
2017
Year of latest Update:
2017
Classification:
Omics >> Genomics › Pharmacogenomics
Computational Biology >> Function Analysis › Functional genomics
Informatics >> Bioinformatics
Playlist(s):
N/A
Keyword(s):
Genetics, Genomics, Nucleic acids analysis, NGS