Medizinische Universität Graz Austria/Österreich - Forschungsportal - Medical University of Graz
Gewählte Publikation:
Hablesreiter, R.
Establishment of an Analysis Pipelinefor RNA-seq Datasets.
[ Diplomarbeit/Master Thesis (UNI) ] Graz University of Technology; 2017. pp.80.
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- Autor*innen der Med Uni Graz:
- Betreuer*innen:
- Feichtinger Julia
- Altmetrics:
- Abstract:
- The main goal of my master thesis is the establishment of a RNA-Seq pipeline fortranscriptomics datasets with a focus on cancer samples compared to normal controls.TheCancerRNAseqpipeline initially removes successively adapter sequences, lowquality bases and RNA sequencing errors in a preprocessing step. Next, the alignmentof the preprocessed reads can be generated by TopHat2, STAR orHISAT2. Inthefinal step theCancerRNAseqpipeline calculates the significant differentially expressedgenes. The results are documented via graphical output and tables, respectively.TheCancerRNAseqpipeline was applied to four publicly available RNA-Seqcancer datasets (lung, breast, prostate and colorectal cancer). The resulting genelists were compared to the BioXpress database and candidates forcancer therapysuch as TMPRSS4 could be detected.RNA-Seq is among others an important tool for biomarker screening, which can beused for diagnosis, prognosis, monitoring or finding the correct treatment option.