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Mr Prof. Dr. Jens Stoye

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3. Center for Biotechnology - CeBiTec / Research Group J. Stoye

Function

Head of Research Group "Genome Informatics"

 
E-Mail
jens.stoye@uni-bielefeld.de  
Homepage
Open
Phone
+49 521 106-3852  
Fax
+49 521 106-6495  
Phone No. of Secretary
+49 521 106-6882Secretary's Details
Office
UHG U10-147 Locations Map

4. Faculty of Technology / Bielefeld Institute for Bioinformatics Infrastructure (BIBI)

Function

Managing director BIBI,
Division manager Service Science in the Life Sciences
Spokesperson DILS

 

7. Center for Interdisciplinary Research / ZiF Boards / Board of Directors

Function

Member of the Board of Directors of ZiF, Academic Director

 
E-Mail
jens.stoye@uni-bielefeld.de  
Phone No. of Secretary
+49 521 106-2796Secretary's Details

Curriculum Vitae

Education:

  • 10/1991-05/1995 Diploma studies Informatics in the Natural Sciences, Faculty of Technology, Bielefeld University. Thesis title: Affix Trees (advisor: Prof. Robert Giegerich)
  • 05/1995-01/1997 PhD studies, Faculty of Technology, Bielefeld University. Thesis title: Divide-and-Conquer Multiple Sequence Alignment (advisors: Prof. Andreas Dress, Prof. Robert Giegerich)

Employment:

  • 05/1995-02/1997 Staff scientist at the Interdisciplinary Research Center on Structure Formation (FSPM), Bielefeld University
  • 03/1997-08/1997 Postdoc at the Research Training Group Structure Formation, FSPM, Bielefeld University
  • 09/1997-08/1998 Postdoc at the Department of Computer Science, University of California at Davis
  • 09/1998-02/2001 Postdoc at the Theoretical Bioinformatics division, German Cancer Research Center (DKFZ) Heidelberg
  • 03/2001-02/2002 Head of junior research group Algorithmic Bioinformatics at the Max Planck Institute for Molecular Genetics, Berlin
  • since 03/2002 Full university professor (C4) for Genome Informatics, Faculty of Technology, Bielefeld University

Academic service:

  • since 01/2004 Associate editor of IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
  • 01/2010-10/2013 Associate editor of BMC Bioinformatics
  • since 02/2019-11/2020 Section Editor "Sequence Analysis" of BMC Bioinformatics
  • since 04/2019 Editorial board member of NAR Genomics and Bioinformatics
  • since 11/2020 Senior Editoral board member of BMC Bioinformatics
  • since 04/2021 Editor "Computational Molecular Biology" of Discrete Applied Mathematics

Theses advised (by end of 2020):

  • 54 Bachelor Theses
  • 66 Master and Diploma Theses
  • 34 PhD Theses

Member of scientific advisory boards:

  • since 01/2020 SeqDigger – Search engine for genomic sequencing data (ANR project)
  • since 01/2021 OLISSIPO – Fostering Computational Biology Research and Innovation in Lisbon (EU H2020-WIDESPREAD-2020-5 project)

Member of conference steering committees:

  • since 09/2012 Workshop on Algorithms in Bioinformatics (WABI)
  • since 10/2014 Bioinformatics Research and Education Workshop (BREW)

Member of conference program committees:

  • GCB: 2000 (co-chair), 2004 (co-chair), 2010, 2011, 2012, 2013, 2014
  • WABI: 2002, 2003, 2004, 2005, 2007, 2008, 2009, 2010, 2011, 2012, 2013 (co-chair), 2014, 2015, 2016, 2017, 2018, 2019, 2020
  • ISMB: 2003, 2004, 2009, 2010, 2012, 2013, 2014, 2015, 2016, 2017, 2018, 2019, 2020
  • RECOMB: 2004, 2006, 2008, 2009, 2012, 2017, 2018, 2019, 2020
  • ECCB: 2004, 2005, 2009, 2012, 2013, 2014, 2015, 2016, 2017, 2019, 2020
  • RECOMB-CG: 2005, 2007, 2008, 2009, 2010, 2011, 2012, 2013, 2014, 2015 (co-chair), 2016, 2017, 2018, 2019
  • IWBRA/ISBRA: 2006, 2007, 2008, 2009, 2010, 2011
  • CPM: 2006, 2010, 2012 (co-chair), 2013, 2014, 2015, 2019
  • SPIRE: 2006, 2010, 2011, 2017, 2020
  • ALENEX: 2007
  • IEEE BIBM: 2007, 2013, 2019
  • SHORT-SIG/HiTSeq: 2009 (co-chair), 2010 (co-chair), 2011 (co-chair), 2017
  • LATA: 2011, 2012, 2017
  • ACM-BCB: 2011, 2012, 2013, 2019
  • RECOMB-Seq: 2012, 2013, 2016
  • ESA: 2012
  • RECOMB-AB: 2012
  • Others: CompLife 2005, ISBB 2006, ICCABS 2010, ITMAB 2011, FAW-AAIM 2013, BSB 2013, BSB 2018, APBC 2019

Member of conference organizing committees:

  • GCB: 2000, 2004, 2014 (chair)

Best paper award:

  • CPM 2008: HP Distance via Double Cut and Join (A. Bergeron, J. Mixtacki, J. Stoye)

Invited speaker:

  • JOBIM 2006: Index Structures in Biological Sequence Analysis: From Simplicity to Complexity and Back
  • JOBIM 2009: Computational Short Read Metagenomics
  • BSB 2012: Genome Rearrangement by Double Cut and Join
  • ALGO 2012: Algorithms for Genome Rearrangement by Double Cut and Join
  • MAGE 2013: The potential of family-free genome comparison
  • SocBiN 2014: Family-free genome comparison
  • BSB 2020: Searching for Genomic Variants in Multiple Genomes at Once

Administration:

  • 10/2002-09/2014 Vice-Speaker of the Board of Directors, German Bioinformatics Society (GI-Fachgruppe BIOINF)
  • 10/2002-09/2014 and since 10/2018 Member of the Faculty Assembly of the Faculty of Technology, Bielefeld University
  • 12/2002-12/2015 Speaker of the Institute for Bioinformatics, Center for Biotechnology (CeBiTec), Bielefeld University
  • since 01/2004 Member of the Board of Directors, Center for Biotechnology (CeBiTec), Bielefeld University
  • 10/2002-03/2007 Head of Examination Board, Diploma program Informatics in the Natural Sciences, Faculty of Technology, Bielefeld University
  • 10/2007-09/2012 Head of Selection Board and Head of Examination Board, Master program Informatics in the Natural Sciences, Faculty of Technology, Bielefeld University
  • 04/2007-09/2009 Dean of the Faculty of Technology, Bielefeld University
  • 10/2009-09/2010 Vice-dean of the Faculty of Technology, Bielefeld University
  • 10/2010-09/2013 Dean of the Faculty of Technology, Bielefeld University
  • since 10/2013 Speaker of the International DFG Research Training Group Computational Methods for the Analysis of the Diversity and Dynamics of Genomes, Faculty of Technology, Bielefeld University
  • since 01/2014 Member of the DAAD Selection Committee for Postdoc Fellowships
  • 04/2015-02/2018 Special Visiting Researcher, UFF Niterói, Brazil
  • since 12/2015 Speaker of the Research Area Large Scale Genomics and Big Data Bioinformatics, Center for Biotechnology (CeBiTec), Bielefeld University
  • since 06/2017 Member of Selection Board and Member of Examination Board, Master program Informatics in the Natural Sciences, Faculty of Technology, Bielefeld University
  • since 10/2017 Member of the Board of Directors, Center for Interdisciplinary Research (ZiF), Bielefeld University
  • since 06/2019 Member of the Board of Directors, Bielefeld Institute for Bioinformatics Infrastructure (BIBI), Bielefeld University
  • since 06/2019 Managing Director of the Bielefeld Institute for Bioinformatics Infrastructure (BIBI), Bielefeld University
  • since 04/2020 Head of Selection Board, Master program Informatics in the Natural Sciences, Faculty of Technology, Bielefeld University
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