gobics.de [Burkhard Morgenstern]

My spam-protected E-mail is:
bmorgen AT gwdg DOT de

Phone:	+49 551 39-21165
Secretary:	+49 551 39-14966

Follow @burkhard_mstern
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Our new software tools for alignment-free sequence comparison and seed optimization:
Prot-SpaM, Multi-SpaM, Filtered Spaced-Word Matches, Slope-SpaM, kmacs and rasbhari.

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Visit our journal: Algorithms for Molecular Biology

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Recent Publications (for publication metrics and related nonsense, see Google Scholar, publons, Research Gate)

• M. Hosseini, D. Pratas, B Morgenstern, A.J. Pinho (2020)
  Smash++: an alignment-free and memory-efficient tool to find genomic rearrangements
  GigaScience 9, giaa048
• M. Leonard, A. Kühn, R. Harting, I. Maurus, A. Nagel, J. Starke, H. Kusch, O. Valerius, K. Feussner, I. Feussner, A. Kaever, M. Landesfeind, B. Morgenstern, D. Becher, M. Hecker, S. Braus-Stromeyer, J. Kronstad, G. Braus (2020)
  V. longisporum elicits media-dependent secretome responses with a further capacity to distinguish between plant-related environments
  bioRxiv, doi:10.1101/2020.02.11.943803
• S. Röhling, A. Linne, J. Schellhorn, M. Hosseini, T. Dencker, B. Morgenstern (2020)
  The number of k-mer matches between two DNA sequences as a function of k and applications to estimate phylogenetic distances
  PLOS ONE 15, e0228070
• B. Morgenstern (2020)
  Sequence Comparison without Alignment: The SpaM approaches
  In: K. Katoh (ed.) Multiple Sequence Alignment (to appear)
  Book series Methods in Molecular Biology, Springer. Preprint available here
• T. Dencker, C.-A. Leimeister, M. Gerth, C. Bleidorn, S. Snir, B. Morgenstern (2020)
  Multi-SpaM: a Maximum-Likelihood approach to Phylogeny reconstruction using Multiple Spaced-word Matches
  and Quartet Trees
  NAR Genomics and Bioinformatics 2, lqz013
• B. Morgenstern (2020)
  Fake scientists on editorial boards can significantly enhance the visibility of junk journals.
  In: Mario Biagioli and Alexandra Lippman (Eds.)
  Gaming the Metrics: Misconduct and Manipulation in Academic Research, MIT Press, pp. 201-211.
  Book freely available as PDF, follow link "Open Access" in the middle of this page. Slides of my talk available here
  
• A. Chakraborty, B. Morgenstern, S. Bandyopadhyay (2019)
  S-conLSH: Alignment-free gapped mapping of noisy long reads
  bioRxiv, doi:10.1101/801118v1
  
• A.K. Lau, S. Dörrer, C.-A. Leimeister, C. Bleidorn, B. Morgenstern (2019)
  Read-SpaM: assembly-free and alignment-free comparison of bacterial genomes with low sequencing coverage
  BMC Bioinformatics 20, 638 (Proceedings RECOMB-CG 2019)
• B. Morgenstern (2019)
  Der Metrik-Wahn
  Laborjournal 7-8, 22-25
• A. Zielezinski, H.Z. Girgis, G. Bernard, C.-A. Leimeister, K. Tang, T. Dencker, A.K. Lau, S. Röhling, J. Choi, M.S. Waterman, M. Comin, S.-H. Kim, S. Vinga, J.S. Almeida, C.X. Chan, B. James, F. Sun, B. Morgenstern, W.M. Karlowski (2019)
  Benchmarking of alignment-free sequence comparison methods
  Genome Biology 20, 144
  
• C.-A. Leimeister, T. Dencker, B. Morgenstern (2019)
  Accurate multiple alignment of distantly related genome sequences using Filtered Spaced Word Matches as anchor points
  Bioinformatics 35, 211-218
• C.-A. Leimeister, J. Schellhorn, S. Dörrer, M. Gerth, C. Bleidorn, B. Morgenstern (2019)
  Prot-SpaM: Fast alignment-free phylogeny reconstruction based on whole-proteome sequences
  GigaScience 8, giy148.
  

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Short CV

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