Algorithms in Bioinformatics

Bachelor Theses

Here is a listing of possible topics for projects. Please come and see us if you want to learn more about the topics. Further suggestions are welcome.

2020

  • Phylogenetic networks on SARS-CoV-2 genomes- Systematically investigate the application of phylogenetic tree and network methods - AVAILABLE
  • Application of AnnoTree in metagenomic analyses  - AVAILABLE
  • Systematic analysis of metagenomic analysis based on AnnoTree  - AVAILABLE
  • Determining plant-growth promoting genes in incomplete genomes  - AVAILABLE
  • Analysis of long read metagenomic samples - Comparison of methods published in Arumugam et al ‎2019 and EL Moss et al ‎2020 - AVAILABLE
  • Textmining for PGPT traits in publicly available literature and comparison to the novel PGPT-Ontology - AVAILABLE
  • Comparison of hybrid assemblers for short and long sequencing reads - AVAILABLE
  • Develop a Python API for MEGAN and use it to perform analysis of metagenome data - AVAILABLE

2019

  • Analysis of metagenomic long-read sequences from a biorector - Christop Weik
  • Distinguishing between human and microbial long reads - Philipp Koch
  • Using Mash, Dashing and other k-mer approaches to compute phylogenetic networks on bacteria - Benjamin Kästle 

2018

  • Analyse unterschiedlicher Zellpopulationen von und nach Therapie - done
  • Improved taxonomic profiles based on simulated binning - done
  • Completeness, contamination and annotation of long read metagenome datasets - done

2017

  • Analysis of antimicrobial resistance in microbiome sequencing data - done
  • Application of MetaCyc in microbiome analysis - done
  • Classification of phages and visualization -  done
  • Comparison of different KEGG-based microbiome analysis approaches - done

2016

  • Development of a MobileApp/Website for advising proper antibiotics usage - done
  • Phage identification in metagenomics - done
  • Fast computation of consensus splits - done
  • Structural variants of Bacteroides vulgatus - done
  • Ecoli assembly - done
  • NanoChain: An Empirical Nanopore Read Simulator - done

2015

  • Design and implementation of a web portal for microbiome data - done
  • Analysis of microbiome data in the context of Adipositas - done
  • Analysis of publicly available 16S human gut microbiome data - done
  • Deploying bioinformatics tools in the cloud using Docker -done
  • Steered Molecular Dynamics of 2fdt structure - done
  • Influence of Processing on 16S Analysis Data - done

2014

  • Visualisierung taxonomischer Daten mit Voronoi Trees - done
  • Fast comparison of metagenomic samples - done
  • Functional analysis using BioCyce - done
  • Genes associated with diabetes in the microbiome -done

2013

  • Comparision of metagenomic DNA, done
  • Clouding computing in bioinformatics, done
  • Android app for phylogenetic trees - done
  • Hybrid approach to analysis of 16S rRNA data - done

2012

  • Transskriptomanalyse von Krebszellen, done

2011

  • Vergleich von existierenden Metagenomics Pipelines -done
  • Analysis of ancient DNA - done

2010

  • Plattform für Next-Gen Transkriptomanalyse- done