Published in: OASIcs, Volume 131, The Expanding World of Compressed Data: A Festschrift for Giovanni Manzini's 60th Birthday (2025)
Lore Depuydt, Jan Fostier, Simon Gottlieb, Gregory Kucherov, Knut Reinert, and Luca Renders. Search Schemes for Approximate Pattern Matching: An Overview. In The Expanding World of Compressed Data: A Festschrift for Giovanni Manzini's 60th Birthday. Open Access Series in Informatics (OASIcs), Volume 131, pp. 9:1-9:16, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2025)
@InProceedings{depuydt_et_al:OASIcs.Manzini.9,
author = {Depuydt, Lore and Fostier, Jan and Gottlieb, Simon and Kucherov, Gregory and Reinert, Knut and Renders, Luca},
title = {{Search Schemes for Approximate Pattern Matching: An Overview}},
booktitle = {The Expanding World of Compressed Data: A Festschrift for Giovanni Manzini's 60th Birthday},
pages = {9:1--9:16},
series = {Open Access Series in Informatics (OASIcs)},
ISBN = {978-3-95977-390-4},
ISSN = {2190-6807},
year = {2025},
volume = {131},
editor = {Ferragina, Paolo and Gagie, Travis and Navarro, Gonzalo},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.Manzini.9},
URN = {urn:nbn:de:0030-drops-239172},
doi = {10.4230/OASIcs.Manzini.9},
annote = {Keywords: FM-index, bidirectional index, approximate pattern matching, search scheme}
}
Published in: LIPIcs, Volume 88, 17th International Workshop on Algorithms in Bioinformatics (WABI 2017)
17th International Workshop on Algorithms in Bioinformatics (WABI 2017). Leibniz International Proceedings in Informatics (LIPIcs), Volume 88, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2017)
@Proceedings{schwartz_et_al:LIPIcs.WABI.2017,
title = {{LIPIcs, Volume 88, WABI'17, Complete Volume}},
booktitle = {17th International Workshop on Algorithms in Bioinformatics (WABI 2017)},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-050-7},
ISSN = {1868-8969},
year = {2017},
volume = {88},
editor = {Schwartz, Russell and Reinert, Knut},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2017},
URN = {urn:nbn:de:0030-drops-78120},
doi = {10.4230/LIPIcs.WABI.2017},
annote = {Keywords: Nonnumerical Algorithms and Problems, Pattern Matching, Algorithms, Life and Medical Sciences}
}
Published in: LIPIcs, Volume 88, 17th International Workshop on Algorithms in Bioinformatics (WABI 2017)
17th International Workshop on Algorithms in Bioinformatics (WABI 2017). Leibniz International Proceedings in Informatics (LIPIcs), Volume 88, pp. 0:i-0:xiv, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2017)
@InProceedings{schwartz_et_al:LIPIcs.WABI.2017.0,
author = {Schwartz, Russell and Reinert, Knut},
title = {{Front Matter, Table of Contents, Preface, List of Authors}},
booktitle = {17th International Workshop on Algorithms in Bioinformatics (WABI 2017)},
pages = {0:i--0:xiv},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-050-7},
ISSN = {1868-8969},
year = {2017},
volume = {88},
editor = {Schwartz, Russell and Reinert, Knut},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2017.0},
URN = {urn:nbn:de:0030-drops-76348},
doi = {10.4230/LIPIcs.WABI.2017.0},
annote = {Keywords: Front Matter, Table of Contents, Preface, List of Authors}
}
Published in: LIPIcs, Volume 88, 17th International Workshop on Algorithms in Bioinformatics (WABI 2017)
Jongkyu Kim and Knut Reinert. Vaquita: Fast and Accurate Identification of Structural Variation Using Combined Evidence. In 17th International Workshop on Algorithms in Bioinformatics (WABI 2017). Leibniz International Proceedings in Informatics (LIPIcs), Volume 88, pp. 13:1-13:14, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2017)
@InProceedings{kim_et_al:LIPIcs.WABI.2017.13,
author = {Kim, Jongkyu and Reinert, Knut},
title = {{Vaquita: Fast and Accurate Identification of Structural Variation Using Combined Evidence}},
booktitle = {17th International Workshop on Algorithms in Bioinformatics (WABI 2017)},
pages = {13:1--13:14},
series = {Leibniz International Proceedings in Informatics (LIPIcs)},
ISBN = {978-3-95977-050-7},
ISSN = {1868-8969},
year = {2017},
volume = {88},
editor = {Schwartz, Russell and Reinert, Knut},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.WABI.2017.13},
URN = {urn:nbn:de:0030-drops-76352},
doi = {10.4230/LIPIcs.WABI.2017.13},
annote = {Keywords: Structural variation}
}
Published in: Dagstuhl Reports, Volume 6, Issue 8 (2017)
Gene Myers, Mihai Pop, Knut Reinert, and Tandy Warnow. Next Generation Sequencing (Dagstuhl Seminar 16351). In Dagstuhl Reports, Volume 6, Issue 8, pp. 91-130, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2017)
@Article{myers_et_al:DagRep.6.8.91,
author = {Myers, Gene and Pop, Mihai and Reinert, Knut and Warnow, Tandy},
title = {{Next Generation Sequencing (Dagstuhl Seminar 16351)}},
pages = {91--130},
journal = {Dagstuhl Reports},
ISSN = {2192-5283},
year = {2017},
volume = {6},
number = {8},
editor = {Myers, Gene and Pop, Mihai and Reinert, Knut and Warnow, Tandy},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/DagRep.6.8.91},
URN = {urn:nbn:de:0030-drops-68395},
doi = {10.4230/DagRep.6.8.91},
annote = {Keywords: Cancer, DNA Sequence Assembly, Expression Profiles, Next Generation Sequencing, Sequence analysis, Software Engineering (Tools \& Libraries)}
}
Published in: Dagstuhl Seminar Proceedings, Volume 8101, Computational Proteomics (2008)
Knut Reinert, Christian Huber, Kathrin Marcus, Michal Linial, and Oliver Kohlbacher. 08101 Abstracts Collection – Computational Proteomics. In Computational Proteomics. Dagstuhl Seminar Proceedings, Volume 8101, pp. 1-34, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2008)
@InProceedings{reinert_et_al:DagSemProc.08101.1,
author = {Reinert, Knut and Huber, Christian and Marcus, Kathrin and Linial, Michal and Kohlbacher, Oliver},
title = {{08101 Abstracts Collection – Computational Proteomics}},
booktitle = {Computational Proteomics},
pages = {1--34},
series = {Dagstuhl Seminar Proceedings (DagSemProc)},
ISSN = {1862-4405},
year = {2008},
volume = {8101},
editor = {Christian Huber and Oliver Kohlbacher and Michal Linial and Katrin Marcus and Knut Reinert},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/DagSemProc.08101.1},
URN = {urn:nbn:de:0030-drops-17840},
doi = {10.4230/DagSemProc.08101.1},
annote = {Keywords: Bioinformatics, biomedicine, proteomics, analytical chemistry}
}
Published in: Dagstuhl Seminar Proceedings, Volume 5471, Computational Proteomics (2006)
Knut Reinert, Oliver Kohlbacher, Clemens Gröpl, Eva Lange, Ole Schulz-Trieglaff, Marc Sturm, and Nico Pfeifer. OpenMS - A Framework for Quantitative HPLC/MS-Based Proteomics. In Computational Proteomics. Dagstuhl Seminar Proceedings, Volume 5471, pp. 1-7, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2006)
@InProceedings{reinert_et_al:DagSemProc.05471.13,
author = {Reinert, Knut and Kohlbacher, Oliver and Gr\"{o}pl, Clemens and Lange, Eva and Schulz-Trieglaff, Ole and Sturm, Marc and Pfeifer, Nico},
title = {{OpenMS - A Framework for Quantitative HPLC/MS-Based Proteomics}},
booktitle = {Computational Proteomics},
pages = {1--7},
series = {Dagstuhl Seminar Proceedings (DagSemProc)},
ISSN = {1862-4405},
year = {2006},
volume = {5471},
editor = {Christian G. Huber and Oliver Kohlbacher and Knut Reinert},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/DagSemProc.05471.13},
URN = {urn:nbn:de:0030-drops-5463},
doi = {10.4230/DagSemProc.05471.13},
annote = {Keywords: Proteomics, C++, Differential expression}
}
Published in: Dagstuhl Seminar Proceedings, Volume 5471, Computational Proteomics (2006)
Christian G. Huber, Oliver Kohlbacher, and Knut Reinert. 05471 Abstract Collection – Computational Proteomics. In Computational Proteomics. Dagstuhl Seminar Proceedings, Volume 5471, pp. 1-15, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2006)
@InProceedings{huber_et_al:DagSemProc.05471.1,
author = {Huber, Christian G. and Kohlbacher, Oliver and Reinert, Knut},
title = {{05471 Abstract Collection – Computational Proteomics}},
booktitle = {Computational Proteomics},
pages = {1--15},
series = {Dagstuhl Seminar Proceedings (DagSemProc)},
ISSN = {1862-4405},
year = {2006},
volume = {5471},
editor = {Christian G. Huber and Oliver Kohlbacher and Knut Reinert},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/DagSemProc.05471.1},
URN = {urn:nbn:de:0030-drops-5569},
doi = {10.4230/DagSemProc.05471.1},
annote = {Keywords: Proteomics, mass spectrometry, MALDI, HPLC-MS, differential expression, clinical proteomics, quantitation, identification}
}
Published in: Dagstuhl Seminar Proceedings, Volume 5471, Computational Proteomics (2006)
Christian G. Huber, Oliver Kohlbacher, and Knut Reinert. 05471 Executive Summary – Computational Proteomics. In Computational Proteomics. Dagstuhl Seminar Proceedings, Volume 5471, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2006)
@InProceedings{huber_et_al:DagSemProc.05471.2,
author = {Huber, Christian G. and Kohlbacher, Oliver and Reinert, Knut},
title = {{05471 Executive Summary – Computational Proteomics}},
booktitle = {Computational Proteomics},
series = {Dagstuhl Seminar Proceedings (DagSemProc)},
ISSN = {1862-4405},
year = {2006},
volume = {5471},
editor = {Christian G. Huber and Oliver Kohlbacher and Knut Reinert},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/DagSemProc.05471.2},
URN = {urn:nbn:de:0030-drops-5406},
doi = {10.4230/DagSemProc.05471.2},
annote = {Keywords: Proteomics, mass spectrometry, MALDI, HPLC-MS, differential expression, clinical proteomics, quantitation, identification}
}
Published in: Dagstuhl Seminar Proceedings, Volume 5471, Computational Proteomics (2006)
Nathanaël Delmotte, Bettina Mayr, Andreas Leinenbach, Knut Reinert, Oliver Kohlbacher, Christoph Klein, and Christian G. Huber. Evaluation of LC-MS data for the absolute quantitative analysis of marker proteins. In Computational Proteomics. Dagstuhl Seminar Proceedings, Volume 5471, pp. 1-5, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2006)
@InProceedings{delmotte_et_al:DagSemProc.05471.6,
author = {Delmotte, Nathana\"{e}l and Mayr, Bettina and Leinenbach, Andreas and Reinert, Knut and Kohlbacher, Oliver and Klein, Christoph and Huber, Christian G.},
title = {{Evaluation of LC-MS data for the absolute quantitative analysis of marker proteins}},
booktitle = {Computational Proteomics},
pages = {1--5},
series = {Dagstuhl Seminar Proceedings (DagSemProc)},
ISSN = {1862-4405},
year = {2006},
volume = {5471},
editor = {Christian G. Huber and Oliver Kohlbacher and Knut Reinert},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/DagSemProc.05471.6},
URN = {urn:nbn:de:0030-drops-5397},
doi = {10.4230/DagSemProc.05471.6},
annote = {Keywords: RP-HPLC, monolith, Mascot, Myoglobin, Absolute quantitation, Serum}
}