Systems Biology University of Freiburg
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Bernhard Steiert

Bernhard Steiert

Institute of Physics
University of Freiburg
 
Physics high-rise, room 209
Hermann-Herder-Str. 3
79104 Freiburg i.Br.
Germany
 
bernhard.steiert -at- fdm.uni-freiburg.de
phone: +49 761 203 7632

 

 

 
Alternative address:
 
ZBSA, room 02.043
Habsburgerstr. 49
79104 Freiburg i.Br.
Germany
 
 
phone: +49 761 203 97202

 

 
Research interests:
- Application of concepts from physics and mathematics to understand and influence processes in the life sciences
- Numerical and statistical methodology for nonlinear modeling, parameter estimation and uncertainty analysis
- Processing and analysis of quantitative biological data
- Signaling pathways in the erythropoietic system
- Prediction of clinical effects from signal processing on molecular level
- Modeling of erythroid and cancer cells to discover drug target candidates

Projects involved in:
- SBEpo
- LungSys II
- Virtual Liver Network

Publications:
- Maiwald T, Hass H, Steiert B, Vanlier J, Engesser R, Raue A, Kipkeew F, Bock HH, Kaschek D, Kreutz C, Timmer J (2016)
Driving the model to its limit: profile likelihood based model reduction
PLoS ONE 11(9): e0162366. doi:10.1371/journal.pone.0162366
- Steiert B, Timmer J, Kreutz C (2016)
L1 regularization facilitates detection of cell type-specific parameters in dynamical systems
Bioinformatics (2016) 32(17): i718-i726. doi:10.1093/bioinformatics/btw461
- Merkle R, Steiert B, Salopiata F, Depner S, Raue A, Iwamoto N, Schelker M, Hass H, Wäsch M, Böhm ME, Mücke O, Lipka DB, Plass C, Lehmann WD, Kreutz C, Timmer J, Schilling M, Klingmüller U (2016)
Identification of Cell Type-Specific Differences in Erythropoietin Receptor Signaling in Primary Erythroid and Lung Cancer Cells
PLoS Comput Biol 12(8): e1005049. doi:10.1371/journal.pcbi.1005049
- Raue A, Steiert B, Schelker M, Kreutz C, Maiwald T, Hass H, Vanlier J, Tönsing C, Adlung L, Engesser R, Mader W, Heinemann T, Hasenauer J, Schilling M, Höfer T, Klipp E, Theis F, Klingmüller U, Schoberl B, Timmer J (2015)
Data2Dynamics: a modeling environment tailored to parameter estimation in dynamical systems
Bioinformatics (2015) 31(21): 3558-3560. doi:10.1093/bioinformatics/btv405
- Karr JR, Williams AH, Zucker JD, Raue A, Steiert B, Timmer J, Kreutz C, DREAM8 Parameter Estimation Challenge Consortium, Wilkinson S, Allgood BA, Bot BM, Hoff BR, Kellen MR, Covert MW, Stolovitzky GA, Meyer P (2015)
Summary of the DREAM8 Parameter Estimation Challenge: Toward Parameter Identification for Whole-Cell Models
PLoS Comput Biol 11(5): e1004096. doi:10.1371/journal.pcbi.1004096
- Meyer P, Cokelaer T, Chandran D, Kim K, Loh P, Tucker G, Lipson M, Berger B, Kreutz C, Raue A, Steiert B, Timmer J, Bilal E, Sauro H, Stolovitzky G, Saez-Rodriguez J (2014)
Network Topology and Parameter Estimation: From Experimental Design Methods to Gene Regulatory Network Kinetics using a Community based Approach
BMC Systems Biology 2014, 8:13. doi:10.1186/1752-0509-8-13
- Steiert B, Raue A, Timmer J, Kreutz C (2012)
Experimental Design for Parameter Estimation of Gene Regulatory Networks
PLoS ONE 7(7): e40052. doi:10.1371/journal.pone.0040052

Conferences:
10/2016PosterSeventh American Conference on Pharmacometrics (ACoP7)
09/2016TalkECCB2016: European Conference on Computational Biology
04/2016TalkSBMC2016: 6th Conference of Systems Biology of Mammalian Cells
03/2016TutorialAdvanced Lecture Course on Systems Biology
06/2015TutorialBasel Computational Biology Conference
09/2014TutorialECCB2014: European Conference on Computational Biology
05/2014AttendanceConference of Systems Biology of Mammalian Cells: SBMC2014
11/2013AttendanceRECOMB/ISCB conference on Regulatory and Systems Genomics, with DREAM Challenges
06/2013TalkInternational Conference on Systems Biology of Human Disease 2013
03/2013AttendanceDAGStat 2013
11/2012TalkRECOMB Conference on Regulatory and Systems Genomics, with DREAM Challenges
07/2012PosterConference of Systems Biology of Mammalian Cells: SBMC2012
01/2012PosterInternational Symposium on Quantitative Biology and Cytokine Signaling
10/2011PosterRECOMB::DREAM 2011
08/2011PosterInternational Conference on Systems Biology in Heidelberg/Mannheim
03/2011PosterHelmholtz Alliance on Systems Biology Spring School
02/2011AttendanceFEBS-SystemsX-SysBio2011: From Molecules To Function

Awards:
10/2013Best performer in DREAM8 challenge Whole-cell Parameter Estimation
10/2012Best performer in DREAM7 challenge Network Topology and Parameter Inference
10/2011Best performer in DREAM6 challenge Estimation of Model Parameters

Teaching:
04/2016 - 09/2016Jens TimmerTheoretical physics IV - Quantum mechanics
10/2015 - 03/2016Thomas FilkTheoretical physics I - Analysis for physicists
04/2015 - 09/2015Heinz-Peter BreuerTheoretical physics II - Classical mechanics and special relativity
10/2014 - 03/2015Heinz-Peter BreuerTheoretical physics III - Electrodynamics and special relativity
04/2014 - 09/2014Jens TimmerElective course - Dynamical systems in biology
04/2013 - 09/2013Heinz-Peter BreuerTheoretical physics II - Classical mechanics and special relativity

Curriculum Vitae:
since 03/2017PostDoc in physics in the group of Prof. Dr. Jens Timmer
08/2012 - 03/2017Doctoral candidate in physics in the group of Prof. Dr. Jens Timmer
10/2013 - 03/2014Visiting PhD student in the group of Prof. Dr. Peter Sorger at Harvard Medical School
01/2011 - 07/2012Diploma candidate in physics in the group of Prof. Dr. Jens Timmer
04/2009 - 10/2009Internship at Porsche Engineering
01/2008 - 07/2012Graduate student in physics at University of Freiburg
10/2005 - 01/2008Undergraduate student in physics at University of Freiburg
07/2005Abitur at Richard-Fehrenbach Gewerbeschule Freiburg
04/1986Born in Freiburg, Baden-Württemberg

Links:
Data 2 Dynamics Software
Internal wiki of Timmer group