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UNUniversitätsklinikum Erlangen

PhD Position – Shaping the Colorectal Niche(m/w/x)

Erlangen
Part-timeOn-site
AI/ML
Data Science

You will drive innovative colorectal cancer research by investigating how bacterial vesicles influence tumor initiation through advanced organoid modeling, molecular assays, and computational analysis.

Requirements

  • Master's degree in related scientific discipline
  • Experience in advanced 3D cell culture
  • Ideally handling patient-derived organoids
  • Experience in microbiology or bacterial culture
  • Ideally biochemical techniques for vesicle isolation
  • Background in computational biology or bioinformatics
  • Interest in analyzing large NGS datasets
  • Proficiency in molecular biology standard methods
  • Proficiency in imaging techniques
  • Excellent English communication skills
  • Team spirit and structured working style

Tasks

  • Cultivate patient-derived colon and tumor organoids
  • Generate specialized apical-out and apical-in organoid models
  • Isolate extracellular vesicles using ultracentrifugation techniques
  • Work with wild and bioengineered bacterial strains
  • Quantify genotoxic effects using high-resolution confocal immunofluorescence
  • Characterize nanoparticles via TEM, NTA, and functional assays
  • Perform bulk RNA and single-cell whole-genome sequencing
  • Analyze proteomics and metabolomics data using bioinformatics pipelines

Education

Master's degree

Languages

EnglishBusiness Fluent

Tools & Technologies

3D cell culturepatient-derived organoidsultracentrifugationNext-Generation SequencingRNA-seqsingle-cell WGSmetagenomicsmachine learning algorithmsqPCRconfocal microscopyIHC
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