gobics.de [Burkhard's Publication List]

Burkhard Morgenstern, full publication list For citations etc. see ResearcherID and Google Scholar

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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, 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.
  
• A.K. Lau, C.-A. Leimeister, S. Dörrer, C. Bleidorn, B. Morgenstern (2019)
  Read-SpaM: assembly-free and alignment-free comparison of bacterial genomes with low sequencing coverage
  bioRxiv, doi:10.1101/550632v4
  
• S. Röhling, T. Dencker, B. Morgenstern (2019)
  The number of k-mer matches between two DNA sequences as a function of k
  bioRxiv, doi:10.1101/527515v2
  
• B. Morgenstern (2019)
  Fake scientists on editorial boards can significantly enhance the visibility of junk journals.
  In: Mario Biagioli and Alexandra Lippman (Eds.)
  Metrics and Misconduct: New Ecologies of Academic Research. MIT Press, to appear.
  
• 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

2018

• T. Dencker, C.-A. Leimeister, M. Gerth, C. Bleidorn, S. Snir, B. Morgenstern (2018)
  Multi-SpaM: a Maximum-Likelihood approach to Phylogeny reconstruction bas ed on Multiple Spaced-Word Matches
  In: M. Blanchette, A. Ouangraoua (Eds.), Comparative Genomics, LNBI 11183, Springer, Proc. RECOMB-CG 2018.
  Preprint available at: arXiv:1803.09222 [q-bio.PE]
  

2017

• B. Morgenstern, S. Schöbel, C.-A. Leimeister (2017)
  Phylogeny reconstruction based on the length distribution of k-mismatch common substrings
  Algorithms for Molecular Biology 12, 27
• C.-A. Leimeister, S. Sohrabi-Jahromi, B. Morgenstern (2017)
  Fast and Accurate Phylogeny Reconstruction using Filtered Spaced-Word Matches
  German Conference on Bioinformatics (GCB17), highlight talk
• C.-A. Leimeister, S. Sohrabi-Jahromi, B. Morgenstern (2017)
  Fast and Accurate Phylogeny Reconstruction using Filtered Spaced-Word Matches
  Bioinformatics 33, 971-979

2016

• C.-A. Leimeister, L. Hahn, B. Morgenstern (2016)
  Fast alignment-free phylogeny reconstruction using spaced words
  Invited talk, SeqBio 2016, Nantes
• L. Hahn, C.-A. Leimeister, R. Ounit, S. Lonardi, B. Morgenstern (2016)
  rasbhari: optimizing spaced seeds for database searching, read mapping and alignment-free sequence comparison
  PLOS Computational Biology 12, e1005107
  

2015

• C.-A. Leimeister, M. Boden, Lindner, S. Horwege, B. Morgenstern (2015)
  Fast alignment-free sequence comparison using spaced-word frequencies
  German Conference on Bioinformatics (GCB15), highlight talk
• C. Schmitt-Engel, D. Schultheis, J. Schwirz, N. Ströhlein, N. Troelenberg, U. Majumdar, V.A. Dao, D. Grossmann, T. Richter, M. Tech, J. Dönitz, L. Gerischer, M. Theis, I. Schild, J. Trauner, N. Koniszewski, E. Küster, S. Kittelmann, Y. Hu, S. Lehmann, J. Siemanowski, J. Ulrich, K. Panfilio, R. Schröder, B. Morgenstern, M. Stanke, F. Buchholz, M. Frasch, S. Roth, E. Wimmer, M. Schoppmeier, M. Klingler, and G. Bucher (2015)
  The iBeetle large scale RNAi screen reveals novel gene functions for insect development and physiology
  Nature Communications 6, 7822
• B. Morgenstern, B. Zhu, S. Horwege, C.-A Leimeister (2015)
  Estimating evolutionary distances between genomic sequences from spaced-word matches
  Algorithms for Molecular Biology 10, 5
• A. Kaever, M. Landesfeind, K. Feussner, A. Mosblech, I. Heilmann, B. Morgenstern, I. Feussner, P. Meinicke (2015)
  MarVis-Pathway: integrative and exploratory pathway analysis of non-targeted metabolomics data
  Metabolomics 11, 764-777

2014

• D Brown, B. Morgenstern (Eds.)
  Algorithms in Bioinformatics
  Proc. 14th International Workshop on Algorithms in Bioinformatics, WABI 2014
  Lecture Notes in Bioinformatics 8701
  Springer Verlag
• B. Morgenstern, B. Zhu, S. Horwege, C.-A. Leimeister (2014)
  Estimating evolutionary distances from spaced-word matches
  In: Proceedings WABI 2014, Lecture Notes in Bioinformatics 8701, pp. 161-173
  Springer Verlag
• C.-A. Leimeister, B. Morgenstern (2014)
  kmacs: the k-Mismatch Average Common Substring Approach to alignment-free sequence comparison
  Bioinformatics 30, 2000-2008
• C.-A. Leimeister, M. Boden, S. Horwege, S. Lindner, B. Morgenstern (2014)
  Fast alignment-free sequence comparison using spaced-word frequencies
  Bioinformatics 30, 1991-1999
• S. Horwege, S. Lindner, M. Boden, K. Hatje, M. Kollmar, C.-A. Leimeister, B. Morgenstern (2014)
  Spaced words and kmacs: fast alignment-free sequence comparison based on inexact word matches
  Nuc. Acids Research 42, W7-W11
• A. Kaever, M. Landesfeind, K. Feussner, B. Morgenstern, I. Feussner, P. Meinicke (2014)
  Meta-Analysis of Pathway Enrichment: Combining Independent and Dependent Omics Data Sets
  PLoS ONE, 9(2): e89297
• B. Morgenstern (2014)
  Multiple sequence alignment with DIALIGN (book chapter)
  In: Multiple Sequence Alignment Methods, pp. 191-202.
  Humana Press
• G. Wörheide, T. Nosenko, F. Schreiber, B. Morgenstern (2014)
  Progress and perspectives of the deep non-bilaterian phylogeny, with focus on sponges (book chapter)
  In: Deep Metazoan Phylogeny: The Backbone of the Tree of Life, pp. 9-22.
  De Gruyter

2013

• T. Beißbarth, M. Kollmar, A. Leha, B. Morgenstern, A.-K. Schultz, S. Waack, E. Wingender (Eds.):
  Proc. German Conference on Bioinformatics 2013, GCB 2013
  OASICS ISBN 978-3-939897-59-0, Schloss Dagstuhl - Leibniz-Zentrum für Informatik 2013
• M. Boden, M. Schöneich, S. Horwege, S. Lindner, C. Leimeister, B. Morgenstern (2013)
  Alignment-free sequence comparison with spaced k-mers
  Proceedings German Conference on Bioinformatics (GCB'13), 21-31 (regular paper).
• L. Al Ait, Z. Yamak, B. Morgenstern (2013)
  DIALIGN at GOBICS - multiple sequence alignment using various sources of external information
  Nuc. Acids Research 41, W3-W7

2012

• L. Al Ait, E. Corel, B. Morgenstern (2012)
  Using protein-domain information for multiple sequence alignment
  Proceedings IEEE 12th Int. Conf. on BioInformatics and BioEngineering (BIBE 12), pp. 164-168
• A.-K. Schultz, I. Bulla, M. Abdou-Chekaraou, E. Gordien, B. Morgenstern, F. Zoulim, P. Dény, M. Stanke (2012)
  jpHMM: Recombination analysis in viruses with circular genomes such as the hepatitis B virus
  Nuc. Acids Res. 40, W193-W198

2011

• C.V.C. Truong, L.F. Groeneveld, B. Morgenstern, E. Groeneveld (2011)
  MolabIS - An Integrated Information System for Storing and Managing Molecular Genetics Data
  BMC Bioinformatics 2011, 12:425
• T. Unterthiner, A.-K. Schultz, J. Bulla, B. Morgenstern, M. Stanke, I. Bulla (2011)
  Detection of viral sequence fragments of HIV-1 subfamilies yet unknown
  BMC Bioinformatics 2011, 12:93
• N. Rachfall, I. Heinemeyer, B. Morgenstern, O. Valerius, G. Braus (2011)
  5'TRU: Identification and analysis of translationally regulative 5'untranslated regions in amino acid starved yeast cells
  Mol Cell Proteomics 10: M110.003350.
• T. Lingner, A.R. Kataya, G.E. Antonicelli, A. Benichou, K. Nilssen, X.-Y. Chen, T. Siemsen, B. Morgenstern, P. Meinicke, and S. Reumann (2011)
  Identification of New Plant Peroxisomal Targeting Signals by a Combination of Machine Learning Methods and In Vivo Subcellular Targeting Analyses
  Plant Cell 23:1556-1572.

2010

• A.R. Subramanian, S. Hiran, R. Steinkamp, P. Meinicke, E. Corel, B.Morgenstern (2010)
  DIALIGN-TX and multiple protein alignment using secondary structure information at GOBICS
  Nucleic Acids Res. 38, W19-W22
• I. Bulla, A.-K. Schultz, F. Schreiber, M. Zhang, T. Leitner, B. Korber, B. Morgenstern, M. Stanke (2010)
  HIV Classification using Coalescent Theory
  Bioinformatics 26, 1409-1415.
• K. Hoff, M. Tech, T. Lingner, R. Daniel, B. Morgenstern, P. Meinicke (2010)
  Gene prediction in metagenomic fragments with Orphelia: a large scale machine learning approach (book chapter)
  To appear.
• K. Pick, F. Schreiber, D. Erpenbeck, D.J. Jackson, P. Wrede, M. Wiens, A. Alié, B. Morgenstern, M. Manuel, G. Wörheide (2010)
  Broader phylogenomic sampling improves the accuracy of non-bilaterian relationships
  Mol. Biol. Evol. 27, 1983-1987.
• M. Zhang, B. Foley, A.-K. Schultz, J. Macke, I. Bulla, M. Stanke, B. Morgenstern, B. Korber and T. Leitner (2010)
  The role of recombination in the emergence of a complex and dynamic HIV epidemic
  Retrovirology 7:25
• E. Corel, F. Pitschi, B. Morgenstern (2010)
  A min-cut Algorithm for the Consistency Problem in Multiple Sequence Alignment
  Bioinformatics 26, 1015-1021. (PDF)

2009

• C. Göbel, K. Feussner, A. Kaever, P. Meinicke, B. Morgenstern, I. Feussner (2009)
  Identification of metabolic changes after wounding in Arabidopsis thaliana by an unbiased UPLC-MS approach
  Chemistry and Physics of Lipids 160, S26
• F. Schreiber, K. Pick, D. Erpenbeck, G. Wörheide, B. Morgenstern (2009)
  OrthoSelect: a protocol for selecting orthologous groups in phylogenomics
  BMC Bioinformatics 10, 219
• F. Schreiber, G. Wörheide, B. Morgenstern (2009)
  OrthoSelect: A web server for selecting orthologous gene alignments from EST sequences
  Nucleic Acids Research 37, W185-W188.
• A.-K. Schultz, M. Zhang, I. Bulla, T. Leitner, B. Korber, B. Morgenstern, M. Stanke (2009)
  jpHMM: Improving the reliability of recombination prediction in HIV-1
  Nucleic Acids Research 37, W647-W651.
• C. Schmeisser, H. Liesegang, D. Krysciak, N. Bakkou, A. LeQuéré, A. Wollherr, I. Heinemeyer, B. Morgenstern, A. Pommerening-Röser, M. Flores, R. Palacios, S. Brenner, G. Gottschalk, R. Schmitz, W. Broughton, X. Perret, A. Strittmatter, W. Streit (2009)
  Rhizobium sp. NGR234 possesses a remarkable number of secretion systems
  Applied and Environmental Microbiology 75, 4035-4045.
• H. Philippe, R. Derelle, P. Lopez, K. Pick, C. Borchiellini, N. Boury-Esnault, J. Vacelet, E. Renard, E. Houliston, E. Quéinnec, C. Da Silva, P. Wincker, H. Le Guyader, S. Leys, D.J. Jackson, F. Schreiber , D. Erpenbeck, B. Morgenstern, G. Wörheide, and M. Manuel (2009)
  Phylogenomics restores traditional views on deep animal relationships
  Current Biology 19, 706-712.
• B. Morgenstern
  Local versus global alignment (book chapter)
  In: Sequence Alignment, pp. 39 - 53.
  University of California Press.
• D. Sommerfeld, T. Lingner, M. Stanke, B. Morgenstern, H. Richter
  AUGUSTUS at MediGRID: Adaption of a Bioinformatics Application to Grid Computing for Efficient Genome Analysis
  Future Generation Computer Systems 25, 337 - 345.

2008

• A. Dress, B. Morgenstern, H. Wagner
  Stability of Multiple Alignments and Phylogenetic Trees: An Analysis of ABC-Transporter Proteins
  Algorithms for Molecular Biology 3, 15.
• A. Weiberg, D. Pöhler, B. Morgenstern, P. Karlovsky
  Improved coverage of cDNA-AFLP by sequential digestion of immobilized cDNA
  BMC Genomics 9, 480.
• P. Meinicke, T. Lingner, A. Kaever, K. Feussner, C. Gobel, I. Feussner, P. Karlovsky, B. Morgenstern
  Metabolite-based clustering and visualization of mass spectrometry data using one-dimensional self-organizing maps
  Algorithms for Molecular Biology 3, 9.
• A.R. Subramanian, M. Kaufmann, B. Morgenstern
  DIALIGN-TX: greedy and progressive approaches for segment-based multiple sequence alignment
  Algorithms for Molecular Biology 3, 6.
• K. J. Hoff, M. Tech, T. Lingner, R. Daniel, B. Morgenstern, P. Meinicke
  Gene prediction in metagenomic fragments: a large scale machine learning approach
  BMC Bioinformatics 9, 217
• The Tribolium Genome Sequencing Consortium
  The genome of the beetle developmental model and pest Tribolium castaneum
  Nature 452, 949-955.
• A.-K. Schultz, M. Zhang, T. Leitner, B. Korber, B. Morgenstern, M. Stanke
  jpHMM: Erkennung von Rekombinationen bei HIV
  BIOforum 2/2008, 44-46.
  

2007

• L. Taher, P. Meinicke, B. Morgenstern
  On splice site prediction using weight array models: a comparison of smoothing techniques
  Journal of Physics: Conference Series 90, 012004
• X.H. Chen, A. Koumoutsi, R. Scholz, A. Eisenreich, K. Schneider, I. Heinemeyer, B. Morgenstern, B. Voss, W.R. Hess, O. Reva, H. Junge, B. Voigt, P. R. Jungblut, J. Vater, R. Süssmuth, H. Liesegang, A. Strittmatter, G. Gottschalk, R. Borriss
  Genomanalyse eines phytostimulatorischen Bacillus-Stammes
  Genomxpress 3.07, 11-13.
• X.H. Chen, A. Koumoutsi, H. Liesegang, A. Strittmatter, O. Reva, R. Scholz, A. Eisenreich, K. Schneider, J. Vater, I. Heinemeyer, B. Morgenstern, B. Voss, W.R. Hess, B. Voigt, P. R. Jungblut, H. Junge, R. Süssmuth, G. Gottschalk, R. Borriss
  Comparative analysis of the complete genome sequence of the plant growth promoting Bacillus amyloliquefaciens FZB42
  Nature Biotechnology 25, 1007 - 1014.
• B. Morgenstern
  Computational Genome Analysis by R.C. Deonier, S. Tavare and M.S. Waterman (book review)
  Biometrical Journal 49, 789.
• B. Morgenstern
  Multiple sequence alignment (book chapter)
  In: Bioinformatics (Methods Express Series), pp. 245 - 264
  Scion Publishing Ltd.
• B. Morgenstern
  Alignment of genomic sequences using DIALIGN (book chapter)
  In: Comparative Genomics, pp. 195 - 203.
  Humana Press

2006

• A.-K. Schultz, M. Zhang, T. Leitner, C. Kuiken, B. Korber, B. Morgenstern, M. Stanke
  A jumping profile Hidden Markov Model and applications to recombination sites in HIV and HCV genomes
  BMC Bioinformatics 7, 265.
• B. Morgenstern, S.J. Prohaska, D. Pöhler, P.F. Stadler
  Multiple sequence alignment with user-defined anchor points
  Algorithms for Molecular Biology 1,6.
• M. Stanke, A. Tzvetkova, B. Morgenstern
  AUGUSTUS+ at EGASP: using EST, protein and genomic alignments for improved gene prediction in the human genome.
  Genome Biology 7, S11.
• M. Tech, B. Morgenstern, P. Meinicke
  TICO: a Tool for Post Processing the Predictions of Prokaryotic Translation Initiation Sites
  Nucleic Acids Res. 34, W588 - W590.
• M. Zhang, A.-K. Schultz, C. Calef, C. Kuiken, T. Leitner, B. Korber, B. Morgenstern, M. Stanke
  jpHMM at GOBICS: a web server to detect genomic recombinations in HIV-1
  Nucleic Acids Res. 34, W463 - W465.
• M. Stanke , O. Keller, I. Gunduz, A. Hayes, S. Waack, B. Morgenstern
  AUGUSTUS: ab initio prediction of alternative transcripts
  Nucleic Acids Res. 34, W435 - W439.
• B. Morgenstern and P.F. Stadler
  Editorial: New journal: Algorithms for Molecular Biology
  Algorithms for Molecular Biology1,1.
• M. Stanke , O. Schöffmann, B. Morgenstern, S. Waack
  Gene prediction in eukaryotes with a generalized hidden Markov model that uses hints from external sources
  BMC Bioinformatics 7, 62.

2005

• M. Stanke and B. Morgenstern
  AUGUSTUS: Genvorhersage in Eukaryoten mit Hidden-Markov-Modellen und vergleichender Sequenzanalyse
  BIOforum 9/2005, 45 - 47.
• M. Zhang, A.-K. Schultz, B. Morgenstern, M. Stanke, B. Korber, T. Leitner
  Greater HIV Genome Diversities Inferred From Re-subtyping of HIV Database Sequences
  Proc. German Conference on Bioinformatics (Discovery Notes, Poster Abstracts), pp 5 - 7.
• M. Tech, N. Pfeifer, B. Morgenstern, P. Meinicke
  TICO: a tool for improving predictions of prokaryotic translation initiation sites
  Bioinformatics 21, 3568 - 3569.
• M. Stanke and B. Morgenstern
  AUGUSTUS: a web server for gene prediction in eukaryotes that allows user-defined constraints
  Nucleic Acids Res. 33, W465 - W467.
• A.R. Subramanian, J. Weyer-Menkhoff, M. Kaufmann, B. Morgenstern
  DIALIGN-T: An improved algorithm for segment-based multiple sequence alignment
  BMC Bioinformatics 6, 66.
• D. Pöhler, N. Werner, R. Steinkamp, B. Morgenstern
  Multiple Alignment of Genomic Sequences using CHAOS, DIALIGN and ABC
  Nucleic Acids Res. 33, W532 - W534.
• B. Morgenstern, N. Werner, S.J. Prohaska, R. Steinkamp, I. Schneider, A.R. Subramanian, P.F. Stadler, J. Weyer-Menkhoff
  Multiple sequence alignment with user-defined constraints at GOBICS
  Bioinformatics 21, 1271-1273.
• B. Morgenstern (2005)
  Gene structure prediction by genomic sequence alignment (book chapter)
  In: Genetics, Genomics, Proteomics and Bioinformatics
  John Wiley & Sons

2004

• P. Meinicke, M. Tech, B. Morgenstern, R. Merkl (2004)
  Oligo Kernels for datamining on biological sequences: A case study on prokaryotic translation initiation sites
  BMC Bioinformatics 5, 169.
• B. Morgenstern, S.J. Prohaska, N. Werner, J. Weyer-Menkhoff, I. Schneider, A.R. Subramanian, P.F. Stadler (2004)
  Multiple sequence alignment with user-defined constraints (preprint)
  Proceedings of the German Conference on Bioinformatics 2004
  Lecture Notes in Informatics P-53, 25-36.
• M. Schmollinger, K. Nieselt, M. Kaufmann, B. Morgenstern (2004)
  DIALIGN P: Fast pair-wise and multiple sequence alignment using parallel processors
  BMC Bioinformatics 5, 128.
• L. Taher, O. Rinner, S. Garg, A. Sczyrba, B. Morgenstern (2004)
  AGenDA: Gene Prediction by Cross-Species Sequence Comparison
  Nucleic Acids Res. 32, W305-W308.
• M. Stanke, R. Steinkamp, S. Waack, B. Morgenstern (2004)
  AUGUSTUS: a web server for gene finding in eukaryotes
  Nucleic Acids Res. 32, W309-W312.
• B. Morgenstern (2004)
  DIALIGN: Multiple DNA and Protein Sequence Alignment at BiBiServ
  Nucleic Acids Res. 32, W33-W36.
• M. Brudno, R. Steinkamp, B. Morgenstern (2004)
  The CHAOS/DIALIGN WWW server for Multiple Alignment of Genomic Sequences
  Nucleic Acids Res. 32, W41-W44.

2003

• M. Brudno, M. Chapman, B. Göttgens, S. Batzoglou, B. Morgenstern (2003)
  Fast and sensitive multiple alignment of large genomic sequences
  BMC Bioinformatics 4, 66.
• M. Sammeth, B. Morgenstern, J. Stoye (2003)
  Divide-and-Conquer Multiple Alignment with Segment-Based Constraints
  Bioinformatics 19, ii189-ii195 (ECCB 2003 special issue).
• L. Taher, O. Rinner, S. Garg, A. Sczyrba, M. Brudno, S. Batzoglou, B. Morgenstern (2003)
  AGenDA: Homology-based gene prediction
  Bioinformatics 19, 1575-1577.
• B. Morgenstern, S. Goel, A. Sczyrba, A. Dress (2003)
  AltAVisT: Comparing alternative multiple alignments
  Bioinformatics 19, 425-426. PDF

2002

• B. Morgenstern, O. Rinner, S. Abdeddaïm, D. Haase, K. Mayer, A. Dress, H.-W. Mewes (2002)
  Exon Discovery by Genomic Sequence Alignment.
  Bioinformatics 18, 777-787. PDF
• O. Rinner and B. Morgenstern (2002)
  AGenDA: Gene prediction by comparative sequence analysis.
  In Silico Biology 2, 195-205.
• M. Brudno and B. Morgenstern (2002)
  Fast and sensitive alignment of large genomic sequences. (Abstract)
  Proceedings IEEE Computer Society Bioinformatics Conference, Stanford University, pp. 138-147.
• H.-W. Mewes, D. Frishman, U. Güldener, G. Mannhaupt, K. Mayer, M. Mokrejs, B. Morgenstern, M. Münsterkötter, S. Rudd, and B. Weil (2002)
  MIPS: a database for genomes and protein sequences
  Nucleic Acids Res. 30, 31-34.
• B. Morgenstern (2002)
  A simple and space-efficient fragment-chaining algorithm for alignment of DNA and protein sequences.
  Appl. Math. Lett. 15, 11-16. PDF

2001

• B. Geier, G. Kastenmüller, M. Fellenberg, H.-W. Mewes, B. Morgenstern (2001)
  The HIB database of annotated UniGene clusters.
  Bioinformatics 17, 571-572. PDF
• S. Abdeddaïm and B. Morgenstern (2001)
  Speeding up the DIALIGN multiple alignment program by using the `Greedy Alignment of BIOlogical Sequences LIBrary' (GABIOS-LIB)
  Lecture Notes in Computer Science 2066, 1-11. PDF
• O. Rinner and B. Morgenstern (2001)
  Gene prediction by comparative sequence analysis. (Abstract)
  Proceedings German Conference on Bioinformatics (GCB'01), pp. 131-134.
• B. Morgenstern, O. Rinner, S. Abdeddaïm, D. Haase, K. Mayer, A. Dress, H.-W. Mewes (2001)
  Exon prediction by comparative sequence analysis.
  Human Genome Meeting 2001, Edinburgh, U.K. (Abstract)
  Programme and Abstract book, pp. 146-147.

2000

• B. Morgenstern (2000)
  A space-efficient algorithm for aligning large genomic sequences.
  Bioinformatics 16, 948-949.
• The Arabidopsis Genome Initiative (2000)
  Analysis of the genome sequence of the flowering plant Arabidopsis thaliana.
  Nature 408, 796-815.
• S. Abdeddaïm and B. Morgenstern (2000)
  Speeding up the DIALIGN multiple alignment program by using the `Greedy Alignment of BIOlogical Sequences LIBrary' (GABIOS-LIB)
  Proceedings Journées Ouvertes: Biologie, Informatique, Mathématiques (JOBIM'00), pp. 1-8.

1999

• B. Morgenstern and W.R. Atchley (1999)
  Evolution of bHLH transcription factors: modular evolution by domain shuffling?
  Mol. Biol. Evol. 16, 1654-1663.
• B. Morgenstern (1999)
  DIALIGN 2: improvement of the segment-to-segment approach to multiple sequence alignment.
  Bioinformatics 15, 211-218.
• H.-P. Lenhof, B. Morgenstern, K. Reinert (1999)
  An exact solution for the segment-to-segment multiple sequence alignment problem.
  Bioinformatics 15, 203-210.

1998

• A. Dress, B. Morgenstern, J. Stoye (1998)
  The Number of Standard and of Effective Multiple Alignments
  Appl. Math. Lett. 11(4), 43-49. preprint
• B. Morgenstern, K. Frech, A. Dress, T. Werner (1998)
  DIALIGN: Finding local similarities by multiple sequence alignment.
  Bioinformatics 14, 290-294.
• H.-P. Lenhof, B. Morgenstern, K. Reinert (1998)
  An exact solution for the segment-to-segment multiple sequence alignment problem.
  Proceedings German Conference on Bioinformatics (GCB'98)
• B. Morgenstern, W.R. Atchley, K. Hahn, A. Dress (1998)
  Segment-based scores for pairwise and multiple sequence alignments.
  Proceedings ISMB'98, pp. 115-121. PDF.

1997

• B. Morgenstern and T. Werner (1997)
  DIALIGN: Finding local similarities by multiple sequence alignment.
  Proceedings German Conference on Bioinformatics (GCB'97)

1996

• B. Morgenstern, A. Dress, T. Werner (1996)
  Multiple DNA and protein sequence alignment based on segment-to-segment comparison.
  Proc. Natl. Acad. Sci. USA 93, 12098-12103. PDF

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Last modified: May 2019