How to cite

All of our tools are highly intertwined and can be called within each other in order to provide the possibility to use the same data in several analyses or combine and compare the results. Please make sure to cite all used features with the corresponding publications. In the following table you can see which feature belongs to which server.

Web service Feature
DrugTargetInspector Drug target view
GeneTrail2 Enrichment analysis
NetworkTrail Network analysis
RegulatorTrail Regulator effect analysis

Publications

Web services

DrugTargetInspector
Lara Schneider, Daniel Stöckel, Tim Kehl, Andreas Gerasch, Nicole Ludwig, Petra Leidinger, Hanno Huwer, Stefan Tenzer, Oliver Kohlbacher, Andreas Hildebrandt, Michael Kaufmann, Manfred Gessler, Andreas Keller, Eckart Meese, Norbert Graf, and Hans-Peter Lenhof DrugTargetInspector: An assistance tool for patient treatment stratification International Journal of Cancer 2015 doi: 10.1002/ijc.29897 BibTeX
@article{schneider2015drugtargetinspector,
  title={DrugTargetInspector: An assistance tool for patient treatment stratification},
  author={Schneider, Lara and St{\"o}ckel, Daniel and Kehl, Tim and Gerasch, Andreas and Ludwig, Nicole and Leidinger, Petra and Huwer, Hanno and Tenzer, Stefan and Kohlbacher, Oliver and Hildebrandt, Andreas and Kaufmann, Michael and Gessler, Manfred and Keller, Andreas and Meese, Eckart and Graf, Norbert and Lenhof, Hans-Peter},
  journal={International Journal of Cancer},
  year={2015},
  doi={10.1002/ijc.29897},
  publisher={Wiley Online Library}
}
GeneTrail2
Daniel Stöckel, Tim Kehl, Patrick Trampert, Lara Schneider, Christina Backes, Nicole Ludwig, Andreas Gerasch, Michael Kaufmann, Manfred Gessler, Norbert Graf, Eckart Meese, Andreas Keller, Hans-Peter Lenhof Multi-omics Enrichment Analysis using the GeneTrail2 Web Service Bioinformatics 2016 doi: 10.1093/bioinformatics/btv770 BibTeX
@article{stoeckel2016genetrail2,
  title={Multi-omics Enrichment Analysis using the GeneTrail2 Web Service},
  author={St{\"o}ckel, Daniel and Kehl, Tim and Trampert, Patrick and Schneider, Lara and Backes, Christina and Ludwig, Nicole and Gerasch, Andreas and Kaufmann, Michael and Gessler, Manfred and Graf, Norbert and Meese, Eckart and Keller, Andreas and Lenhof, Hans-Peter},
  journal={Bioinformatics},
  year={2016},
  doi={10.1093/bioinformatics/btv770},
  publisher={Oxford University Press}
}
NetworkTrail
Daniel Stöckel, Oliver Müller, Tim Kehl, Andreas Gerasch, Christina Backes, Alexander Rurainski, Andreas Keller, Michael Kaufmann, and Hans-Peter Lenhof NetworkTrail — a web service for identifying and visualizing deregulated subnetworks Bioinformatics 2013 doi: 10.1093/bioinformatics/btt204 BibTeX
@article{stockel2013networktrail,
  title={NetworkTrail — a web service for identifying and visualizing deregulated subnetworks},
  author={St{\"o}ckel, Daniel and M{\"u}ller, Oliver and Kehl, Tim and Gerasch, Andreas and Backes, Christina and Rurainski, Alexander and Keller, Andreas and Kaufmann, Michael and Lenhof, Hans-Peter},
  journal={Bioinformatics},
  volume={29},
  number={13},
  pages={1702--1703},
  year={2013},
  doi={10.1093/bioinformatics/btt204},
  publisher={Oxford University Press}
}
RegulatorTrail
Tim Kehl, Lara Schneider, Florian Schmidt, Daniel Stöckel, Nico Gerstner, Christina Backes, Eckart Meese, Andreas Keller, Marcel Schulz, and Hans-Peter Lenhof RegulatorTrail — a web service for the identification of key regulators Nucleic Acid Research 2017 doi: 10.1093/nar/gkx350

Databases

miRPathDB: a new dictionary on microRNAs and target pathways
Christina Backes, Tim Kehl, Daniel Stöckel, Tobias Fehlmann, Lara Schneider, Eckard Meese, Hans-Peter Lenhof, Andreas Keller. miRPathDB: a new dictionary on microRNAs and target pathways. Nucleic Acids Research. 2016. 10.1093/nar/gkw926 BibTeX
@article{stoeckel2016genetrail2,
  title={miRPathDB: a new dictionary on microRNAs and target pathways},
  author={Backes, Christina and Kehl, Tim and St{\"o}ckel, Daniel and Fehlmann, Tobias and Schneider, Lara and Meese, Eckard and Lenhof, Hans-Peter and Keller, Andreas},
  journal={Nucleic Acids Research},
  year={2016},
  doi={10.1093/nar/gkw926},
  publisher={Oxford University Press}
}

Publications using GeneTrail2, NetworkTrail, and DrugTargetInspector

Which publications are using GeneTrail2, NetworkTrail, and DrugTargetInspector? Here is a list of publications that we know of. Have you written a publication using one of our tools? We are excited to hear from you!

  • Anne Hecksteden, Petra Leidinger, Christina Backes, Stefanie Rheinheimer, Mark Pfeiffer, Alexander Ferrauti, Michael Kellmann, Farbod Sedaghat, Benjamin Meder, Eckart Meese, Tim Meyer and Andreas Keller miRNAs and sports: tracking training status and potentially confounding diagnoses Journal of Translational Medicine Jul. 2016 doi: 10.1186/s12967-016-0974-x
  • Markus List, Nicolas Alcaraz, Martin Dissing-Hansen, Henrik J. Ditzel, Jan Mollenhauer, and Jan Baumbach KeyPathwayMinerWeb: online multi-omics network enrichment Nucleic Acids Research Apr. 2016 doi: 10.1093/nar/gkw373
  • Maarten Hamberg, Christina Backes, Tobias Fehlmann, Martin Hart, Benjamin Meder, Eckart Meese, and Andreas Keller miRTargetLink — miRNAs, Genes and Interaction Networks Int. J. Mol. Sci. Apr. 2016 doi: 10.3390/ijms17040564
  • Xuanyao Liu, Chakravarthi Kanduri, Jaana Oikkonen, Kai Karma, Pirre Raijas, Liisa Ukkola-Vuoti, Yik-Ying Teo, and Irma Järveläa Detecting signatures of positive selection associated with musical aptitude in the human genome Scientific Reports Feb. 2016 doi: 10.1038/srep21198