Junior post-doctoral fellow

  • Universität Bern
  • Bern, Bern, Switzerland
  • 21/06/2021
Full time Data Science Data Analytics Big Data Data Management Statistics

Job Description

Colorectal cancer is a heterogeneous disease with a tumor microenvironment rich in different cell types, densities and frequencies. Tumor budding at the advancing edge of the cancer has been described as an important prognostic and potentially predictive factor, with features of Epithelial Mesenchymal Transition (EMT), but the characterization of the environment in which it persists has yet to be elucidated. In this project, we investigate the tumor microenvironment of colorectal cancers, using novel microfluidic fluorescence multiplexing technology. In a partnership with Lunaphore technologies (www.lunaphore.ch), we will establish panels of protein markers to characterize this environment and establish analysis pipelines for performing cell phenotyping, spatial analysis and other cellular neighborhood explorations. We aim to combine morphology and protein analysis to achieve a more in-depth phenotypic characterization and translate these into novel insights of colorectal cancer biology and potentially new prognostic biomarkers.

Who are we? We are a dynamic and clinically-driven team of translational, clinical and computational scientists bridging applied and experimental research. As part of the Institute of Pathology, our Translational Research Unit (TRU) innovates in digital pathology and tissue visualization (www.ngtma.com) and benefits from a huge archive of digital images. Our growing research team in computational pathology focuses on morphological prediction of molecular subtypes, prognosis and combining multi-modal data to study colorectal cancers.

We are looking for a talented post-doc with

  • A PhD in the field of digital pathology / computational biology, biomedical sciences or related field
  • Strong background in histopathology
  • Experience developing / using machine learning algorithms and image analysis tools applied to histopathology images
  • Excellent communication skills in English (written and spoken)

Other advantages include:

  • Prior experimental laboratory experience
  • Experience using HALO and HALO AI software (Indica Labs)
  • Previous experience in image processing and programming in Python, Matlab, R, TensorFlow.

Our offerDuration of appointment: 2-years, with possibility for extension
Start: Entrance upon September 2021 (or by agreement)
Salary: Competitive and according to the Swiss National Science Foundation

What we can additionally offer: you will be embedded in an internationally competitive translational and inter-disciplinary team at the University of Bern, Switzerland. You will work closely with clinical pathologists within our Institute of Pathology. You will have interactions with other partners and collaborators involved in our research group, including IBM Research, ZHAW, ETH Zurich, HES-SO Valais, HES-SO Fribourg and the Institute of Pathology, Zurich.ApplicationPlease send your application beforeJuly 1st, 2021including a short letter of interest, curriculum vitae with description of your professional experience, a list of publications, a list of 2 references, and copies of the certificates of academic qualifications as a single pdf-file by Email to:

Prof. I. Zlobec inti.zlobec@pathology.unibe.ch