Welcome to the eilslabs

The eilslabs form a joint research group between the division "Theoretical Bioinformatics" at the German Cancer Research Center (dkfz) and the department Bioinformatics and Functional Genomics at the Institute of Pharmacy and Molecular Biotechnology (IPMB) at Heidelberg University. The group is headed by Prof. Roland Eils.

 


Tracking of Neuroblastoma Cells

Identification of Genes Causing Mitosis-Linked-Cell Death upon Knockdown in Neuroblastoma Cells via an Integrative Systems Biology Approach

A series of publication describes efforts of a collaborative project between the Network Modeling group (Rainer König), the Biomedical Computer Vision group (Karl Rohr) and the Data Management group (Chris Lawerenz, Jürgen Eils) of the eilslabs together with the Division of Tumor Genetics at the DKFZ (Frank Westermann). Together, the researchers were able to develop a new method for quantifying time-lapse image data of neuroblastoma cells to determine cell fate upon gene knockdown.

The project combined the optimization of the RNAi screening process and the development of a new image analysis tracking approach suitable for high-throughput data processing (carried out by Nathalie Harder). The following bioinformatics analysis (carried out by Richa Batra) used a novel method to identify cell fate upon knockdown based on population response to the perturbation. Finally, genes that cause mitosis-linked-cell death upon knockdown were identified (published in PLoS One). One of these genes was validated and its role in neuroblastoma tumor biology was further explored and published in Cancer Letters.

Related Publications:

  • Bioinformatics: Batra, R., Harder, N., Gogolin, S., Diessl, N., Soons, Z., Jäger-Schmidt, C., Lawerenz, C., Eils, R., Rohr, K., Westermann, F., and König, R. (2012). Time-Lapse Imaging of Neuroblastoma Cells to Determine Cell Fate upon Gene Knockdown. PloS One 7, e50988. http://dx.plos.org/10.1371/journal.pone.0050988.
  • Biology: Gogolin, S., Batra, R., Harder, N., Ehemann, V., Paffhausen, T., Diessl, N., Sagulenko, V., Gade, S., Nolte, I., Rohr, K., König, R. and Westermann, F. (2012). MYCN-mediated overexpression of mitotic spindle regulatory genes and loss of p53-p21 function jointly support the survival of tetraploid neuroblastoma cells. Cancer Letters http://dx.doi.org/10.1016/j.canlet.2012.11.028.
  • Image Analysis: Harder, N., Batra, R., Gogolin, S., Diessl, N., Eils, R., Westermann, F., König, R., and Rohr, K.  (2011). Large-Scale Tracking for Cell Migration and Proliferation Analysis and Experimental Optimization of High-Throughput Screens. In Microscopic Image Analysis with Applications in Biology (MIAAB) Conference, (Heidelberg),. http://www.miaab.org/miaab-2011-heidelberg-papers/miaab-2011-h-harder.pdf.