High Throughput Sequencing of Non-Model Organisms

High-throughput sequencing (HTS) depends on newly invented technologies in decoding DNA and RNA at large numbers of parallel samples. HTS can be applied to a variety of non-model organisms since limited priorknowledge of their respective genomes are required. HTS is performed at nextgeneration sequencing (NGS) platforms that are based on different technologies performing short-, medium-, or long-read sequencing. This course focus on hands-on skills in HTS of non-model eukaryotic organisms and consists of a practical labbased module, a bioinformatic module, and a theoretic lecture module. The practical module includes protocols in preparing and running short-read fragment library on the Illumina NextSeq. Long-read Nanopore sequencing and/or medium-read IonTorrent sequencing may also be demonstrated and discussed.

The NGS sequencing platforms generate big datasets, which are further processed and interpretated using bioinformatic approaches. The bioinformatic module covers basic computational resources and skills needed for HTS, including mapping and query of the obtained transcriptome and genome sequence data. The lecture module covers mainly technological and methodical topics such as developments in HTS technologies and platforms, population genomics, single molecule and single cell sequencing, and large-scale HTS project approaches. Each students gives an oral presentation in plenum of a selected research paper, and a written assignment. Total workload is estimated to approximately 150 hours.

High-throughput sequencing (HTS) depends on newly invented technologies in decoding DNA and RNA at large numbers of parallel samples. HTS can be applied to a variety of non-model organisms since limited priorknowledge of their respective genomes are required. HTS is performed at nextgeneration sequencing (NGS) platforms that are based on different technologies performing short-, medium-, or long-read sequencing. This course focus on hands-on skills in HTS of non-model eukaryotic organisms and consists of a practical labbased module, a bioinformatic module, and a theoretic lecture module. The practical module includes protocols in preparing and running short-read fragment library on the Illumina NextSeq. Long-read Nanopore sequencing and/or medium-read IonTorrent sequencing may also be demonstrated and discussed.

The NGS sequencing platforms generate big datasets, which are further processed and interpretated using bioinformatic approaches. The bioinformatic module covers basic computational resources and skills needed for HTS, including mapping and query of the obtained transcriptome and genome sequence data. The lecture module covers mainly technological and methodical topics such as developments in HTS technologies and platforms, population genomics, single molecule and single cell sequencing, and large-scale HTS project approaches. Each students gives an oral presentation in plenum of a selected research paper, and a written assignment. Total workload is estimated to approximately 150 hours.