E5444 Analysis of
sequencing data
Lesson 2 – Projectsdescription
Projects description
Group project
• During the semester - Group project (2-3
persons) – max 20 points – finished before the
start of the exam period
• Aim: Analysis of NGS data from raw data to
interpretation
• Data: Downloaded from databases or your own
• The projects will be defended last two weeks
of the semester
• The project has to score minimum 10 points
• PROJECTS MUST BE SELECTED before
13.10.2023
Project
• Type of samples:
• Bacteria/fungi/mouse/human/plant/metage
nome
• Type of sequencing:
• WGS, WMGS, RNAseq, variant calling,
ITS/16S
• Possible aims and numbers of samples:
• identification of strains (5-10) by WGS –
taxonomy/phylogeny
• differentially expressed genes (min 10 per
group) by RNAseq / functions/pathways
• identification of mutations by targeted
sequencing of mutations (min 10 per
group)
• identification of taxonomical composition
/functional annotation (min 10 per group)
Data
• Own data or publicly available data
• Published article, with clear methodology and
sample preparation
• Instrument:
• Illumina (MiSeq, HiSeq, NextSeq,
NovaSeq)
• Strategy:
• RNA Seq, WGS, WES, WMGS, 16S/ITS
• Layout:
• Single, Paired
• Organism:
• Human, Mouse/Rat, Bacteria, Fungi, Plant
• Processing:
• Raw read files