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Dr. Daniel Stöckel

Employment: 
Researcher
Personal: 

My name is Daniel Stöckel. I was a PhD student on the chair of Professor Hans-Peter Lenhof. On this site you can find information on my research interests, publications and teaching conducted by me.

Education: 

I obtained my Abitur in 2005. In 2008 i finished my Bachelor of Science in Bioinformatics at the Saarland University and was admitted to the Graduate School Program. I obtained my Master of Science in Bioinformatics in early 2010.

Research: 

My research interests lie in the field of structural bioinformatics, especially molecular docking. Here I am working on the development of new scoring functions with a focus on data driven and hybrid approaches. I also collaborate with other members of my group in the field of network and transcription analysis.

Teaching: 

Tutoring

  • Programming I (WS 06/07)
  • Programming II (SS 07)
  • Softwarepraktikum (SS 07)
  • Mathematics for Computer Scientists - Tutorial for Bioinformaticians (WS 07/08)
  • Programming II (SS 08)
  • Bioinformatics II (SS 09)

Teaching Assistant

  • Bioinformatics I (WS 10/11)
  • Bioinformatics II (SS 11)
  • Bioinformatics I (WS 11/12)

My Publications

2017

[KSS+17] Kehl, T., Schneider, L., Schmidt, F., Stöckel, D., Gerstner, N., Backes, C., Meese, E., Keller, A., Schulz, M. H. and Lenhof, H.-P.: RegulatorTrail: a web service for the identification of key transcriptional regulators. Nucl. Acids Res. (2017). doi: 10.1093/nar/gkx350.
[BKS+16] Backes, C., Kehl, T., Stöckel, D., Fehlmann, T., Schneider, L., Meese, E., Lenhof, H.-P., and Keller, A.: miRPathDB: a new dictionary on microRNAs and target pathways. Nucl. Acids Res. (2016). doi: 10.1093/nar/gkw926.

2016

[SSK+16] Schneider, L., Stöckel, D., Kehl, T., Gerasch, A., Ludwig, N., Leidinger, P., Huwer, H., Tenzer, S., Kohlbacher, O., Hildebrandt, A., Kaufmann, M., Gessler, M., Keller, A., Meese, E., Graf, N., and Lenhof, H.-P.: DrugTargetInspector: An assistance tool for patient treatment stratification. Int J Cancer. 2016 Apr 1;138(7):1765-76. doi: 10.1002/ijc.29897.
[SKT+16] Stöckel, D., Kehl, T., Trampert, P., Schneider, L., Backes, C., Ludwig, N., Gerasch, A., Kaufmann, M., Gessler, M., Graf, N., Meese, E., Keller, A., Lenhof, H.P.,: Multi-omics Enrichment Analysis using the GeneTrail2 Web Service. Bioinformatics 2016; doi: 10.1093/bioinformatics/btv770

2015

[SST+15] Stöckel, D., Schmidt, F., Trampert, P., and Lenhof, H.-P.: CausalTrail: Testing hypothesis using causal Bayesian networks. F1000Research 2015, 4(ISCB Comm J):1520, doi: 10.12688/f1000research.7647.1
[MBK+15] Mueller, S.C., Backes, C. , Kalinina, O. V., Meder, B., Stöckel, D., Lenhof, H.-P., Meese, E. and Keller, A. BALL-SNP: combining genetic and structural information to identify candidate non-synonymous single nucleotide polymorphisms. Genome Medicine. 2015, 7:65, DOI:10.1186/s13073-015-0190-y
[GKN+15] Gerasch, A., Küntzer, J., Niermann, P., Stöckel, S., Kaufmann, M., Kohlbacher, O., Lenhof, H.-P., Network-based interactive navigation and analysis of large biological datasets, it - Information Technology. Volume 57, Issue 1, Pages 37–48, ISSN (Online) 2196-7032, ISSN (Print) 1611-2776, DOI: 10.1515/itit-2014-1076, January 2015
[SL15] Stöckel, D. and Lenhof, H.-P.: Detecting Dysregulated Processes and Pathways. Chapter 14, 309-324 in Nucleic Acids as Molecular Diagnostics. Edited by Andreas Keller and Eckart Meese (First Edition, Wiley-VCH Verlag, ISBN: 978-3-527-33556-5), 2015.

2014

[AKH+14] Hildebrandt, A. K., Stöckel D., Fischer, N. M., de la Garza, L., Krüger, J., Nickels, S., Röttig, M., Schärfe, C., Schumann, M., Thiel, P., Lenhof, H.-P., Kohlbacher, O., and Andreas Hildebrandt, ballaxy: web services for structural bioinformatics, Bioinformatics 2014, doi: 10.1093/bioinformatics/btu574

2013

[NSM+13] Nickels, S., Stöckel, D., Mueller, S.C., Lenhof, H.-P., Hildebrandt, A., and Dehof, A.K.: PresentaBALL – a Powerful Package for Presentations and Lessons in Structural Biology. BioVis - 3rd IEEE Symposium on Biological Data Visualization, 2013.
[SMK+13] Stöckel, D., Müller, O., Kehl, T., Gerasch, A., Backes, C., Rurainski, A., Keller, A., Kaufmann, M., and Lenhof, H.-P.: NetworkTrail - A web service for identifying and visualizing deregulated subnetworks. Bioinformatics 29 (13):1702-03, 2013.
[LBH+13] Li, D., Beisswenger, C., Herr, C., Hellberg, J., Han, G., Zakharkina, T., Voss, M., Wiewrodt, R., Bohle, R.M., Menger, M.D., Schmid, R.M., Stöckel, D., Lenhof, H.-P., and Bals, R.: Myeloid cell RelA/p65 promotes lung cancer proliferation through Wnt/β-catenin signaling in murine and human tumor cells. Oncogene, doi: 10.1038/onc.2013.75, 2013.

2012

[BDZ+12] Bogojeska, J., Stöckel, D., Zazzi, Z., Rolf, K., Francesca, I., Michal, R-Z., Lengauer, T. History-alignment models for bias-aware prediction of virological response to HIV combination therapy. AISTATS 2012.

2011

[BRK+11] Backes, C., Rurainski, A., Klau, G.W., Müller, O., Stöckel, D., Gerasch, A., Küntzer, J., Maisel, D., Ludwig, N., Hein, M., Keller, A., Burtscher, H., Kaufmann, M., Meese, E., and Lenhof, H.-P.: An integer linear programming approach for finding deregulated subgraphs in regulatory networks. Nucleic Acids Res., 40(6):e43, 2011.

2010

[HDR+10] Hildebrandt, A., Dehof, A.K., Rurainski, A., Bertsch, A., Schumann, M., Toussaint, N.C., Moll, A., Stöckel, D., Nickels, S., Müller, S.C., Lenhof, H.-P. & Kohlbacher, O.: BALL - Biochemical Algorithms Library 1.3. BMC Bioinformatics, 11:531, 2010.

Contact

Address:
Center for Bioinformatics
Saarland University
Saarland Informatics Campus
Building E 2.1
Room 402
P.O. Box 15 11 50
66041 Saarbrücken Germany
Email:
dstoeckel [AT] bioinf.uni-sb.de
Fax:
+49-681-302-64719
Phone:
+49-681-302-70896