@Proceedings{beibarth_et_al:OASIcs.GCB.2013,
title = {{OASIcs, Volume 34, GCB'13, Complete Volume}},
booktitle = {German Conference on Bioinformatics 2013},
series = {Open Access Series in Informatics (OASIcs)},
ISBN = {978-3-939897-59-0},
ISSN = {2190-6807},
year = {2013},
volume = {34},
editor = {Bei{\ss}barth, Tim and Kollmar, Martin and Leha, Andreas and Morgenstern, Burkhard and Schultz, Anne-Kathrin and Waack, Stephan and Wingender, Edgar},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2013},
URN = {urn:nbn:de:0030-drops-42563},
doi = {10.4230/OASIcs.GCB.2013},
annote = {Keywords: Life and Medical Sciences}
}
@InProceedings{beibarth_et_al:OASIcs.GCB.2013.i,
author = {Bei{\ss}barth, Tim and Kollmar, Martin and Leha, Andreas and Morgenstern, Burkhard and Schultz, Anne-Kathrin and Waack, Stephan and Wingender, Edgar},
title = {{Frontmatter, Table of Contents, Preface, Conference Organization}},
booktitle = {German Conference on Bioinformatics 2013},
pages = {i--xiii},
series = {Open Access Series in Informatics (OASIcs)},
ISBN = {978-3-939897-59-0},
ISSN = {2190-6807},
year = {2013},
volume = {34},
editor = {Bei{\ss}barth, Tim and Kollmar, Martin and Leha, Andreas and Morgenstern, Burkhard and Schultz, Anne-Kathrin and Waack, Stephan and Wingender, Edgar},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2013.i},
URN = {urn:nbn:de:0030-drops-42265},
doi = {10.4230/OASIcs.GCB.2013.i},
annote = {Keywords: Frontmatter, Table of Contents, Preface, Conference Organization}
}
@InProceedings{ahauer_et_al:OASIcs.GCB.2013.1,
author = {A{\ss}hauer, Kathrin Petra and Meinicke, Peter},
title = {{On the estimation of metabolic profiles in metagenomics}},
booktitle = {German Conference on Bioinformatics 2013},
pages = {1--13},
series = {Open Access Series in Informatics (OASIcs)},
ISBN = {978-3-939897-59-0},
ISSN = {2190-6807},
year = {2013},
volume = {34},
editor = {Bei{\ss}barth, Tim and Kollmar, Martin and Leha, Andreas and Morgenstern, Burkhard and Schultz, Anne-Kathrin and Waack, Stephan and Wingender, Edgar},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2013.1},
URN = {urn:nbn:de:0030-drops-42380},
doi = {10.4230/OASIcs.GCB.2013.1},
annote = {Keywords: metagenomics, metabolic profiling, taxonomic profiling, abundance estimation, mixture modeling}
}
@InProceedings{bernt_et_al:OASIcs.GCB.2013.14,
author = {Bernt, Matthias and Wieseke, Nicolas and Middendorf, Martin},
title = {{On Weighting Schemes for Gene Order Analysis}},
booktitle = {German Conference on Bioinformatics 2013},
pages = {14--23},
series = {Open Access Series in Informatics (OASIcs)},
ISBN = {978-3-939897-59-0},
ISSN = {2190-6807},
year = {2013},
volume = {34},
editor = {Bei{\ss}barth, Tim and Kollmar, Martin and Leha, Andreas and Morgenstern, Burkhard and Schultz, Anne-Kathrin and Waack, Stephan and Wingender, Edgar},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2013.14},
URN = {urn:nbn:de:0030-drops-42354},
doi = {10.4230/OASIcs.GCB.2013.14},
annote = {Keywords: Gene order analysis, maximum parsimony, weighting}
}
@InProceedings{boden_et_al:OASIcs.GCB.2013.24,
author = {Boden, Marcus and Sch\"{o}neich, Martin and Horwege, Sebastian and Lindner, Sebastian and Leimeister, Chris and Morgenstern, Burkhard},
title = {{Alignment-free sequence comparison with spaced k-mers}},
booktitle = {German Conference on Bioinformatics 2013},
pages = {24--34},
series = {Open Access Series in Informatics (OASIcs)},
ISBN = {978-3-939897-59-0},
ISSN = {2190-6807},
year = {2013},
volume = {34},
editor = {Bei{\ss}barth, Tim and Kollmar, Martin and Leha, Andreas and Morgenstern, Burkhard and Schultz, Anne-Kathrin and Waack, Stephan and Wingender, Edgar},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2013.24},
URN = {urn:nbn:de:0030-drops-42334},
doi = {10.4230/OASIcs.GCB.2013.24},
annote = {Keywords: Alignment-free sequence comparison, phylogeny reconstruction}
}
@InProceedings{ernst_et_al:OASIcs.GCB.2013.35,
author = {Ernst, Corinna and Rahmann, Sven},
title = {{PanCake: A Data Structure for Pangenomes}},
booktitle = {German Conference on Bioinformatics 2013},
pages = {35--45},
series = {Open Access Series in Informatics (OASIcs)},
ISBN = {978-3-939897-59-0},
ISSN = {2190-6807},
year = {2013},
volume = {34},
editor = {Bei{\ss}barth, Tim and Kollmar, Martin and Leha, Andreas and Morgenstern, Burkhard and Schultz, Anne-Kathrin and Waack, Stephan and Wingender, Edgar},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2013.35},
URN = {urn:nbn:de:0030-drops-42314},
doi = {10.4230/OASIcs.GCB.2013.35},
annote = {Keywords: pangenome, data structure, core genome, comparative genomics}
}
@InProceedings{frohlich_et_al:OASIcs.GCB.2013.46,
author = {Fr\"{o}hlich, Holger and Klau, Gunnar W.},
title = {{Reconstructing Consensus Bayesian Network Structures with Application to Learning Molecular Interaction Networks}},
booktitle = {German Conference on Bioinformatics 2013},
pages = {46--55},
series = {Open Access Series in Informatics (OASIcs)},
ISBN = {978-3-939897-59-0},
ISSN = {2190-6807},
year = {2013},
volume = {34},
editor = {Bei{\ss}barth, Tim and Kollmar, Martin and Leha, Andreas and Morgenstern, Burkhard and Schultz, Anne-Kathrin and Waack, Stephan and Wingender, Edgar},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2013.46},
URN = {urn:nbn:de:0030-drops-42273},
doi = {10.4230/OASIcs.GCB.2013.46},
annote = {Keywords: Bayesian Networks, Network Reverse Engineering, Minimum Feedback Arc Set, Maximum Acyclic Subgraph, Molecular Interaction Networks}
}
@InProceedings{hildebrandt_et_al:OASIcs.GCB.2013.56,
author = {Hildebrandt, Anna Katharina and Althaus, Ernst and Lenhof, Hans-Peter and Hung, Chien-Wen and Tholey, Andreas and Hildebrandt, Andreas},
title = {{Efficient Interpretation of Tandem Mass Tags in Top-Down Proteomics}},
booktitle = {German Conference on Bioinformatics 2013},
pages = {56--67},
series = {Open Access Series in Informatics (OASIcs)},
ISBN = {978-3-939897-59-0},
ISSN = {2190-6807},
year = {2013},
volume = {34},
editor = {Bei{\ss}barth, Tim and Kollmar, Martin and Leha, Andreas and Morgenstern, Burkhard and Schultz, Anne-Kathrin and Waack, Stephan and Wingender, Edgar},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2013.56},
URN = {urn:nbn:de:0030-drops-42304},
doi = {10.4230/OASIcs.GCB.2013.56},
annote = {Keywords: Mass spectrometry, TMT labeling, Top-down Proteomics}
}
@InProceedings{ibragimov_et_al:OASIcs.GCB.2013.68,
author = {Ibragimov, Rashid and Malek, Maximilian and Guo, Jiong and Baumbach, Jan},
title = {{GEDEVO: An Evolutionary Graph Edit Distance Algorithm for Biological Network Alignment}},
booktitle = {German Conference on Bioinformatics 2013},
pages = {68--79},
series = {Open Access Series in Informatics (OASIcs)},
ISBN = {978-3-939897-59-0},
ISSN = {2190-6807},
year = {2013},
volume = {34},
editor = {Bei{\ss}barth, Tim and Kollmar, Martin and Leha, Andreas and Morgenstern, Burkhard and Schultz, Anne-Kathrin and Waack, Stephan and Wingender, Edgar},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2013.68},
URN = {urn:nbn:de:0030-drops-42298},
doi = {10.4230/OASIcs.GCB.2013.68},
annote = {Keywords: Network Alignment, Graph Edit Distance, Evolutionary Algorithm, Protein-Protein Interactions}
}
@InProceedings{klingenberg_et_al:OASIcs.GCB.2013.80,
author = {Klingenberg, Heiner and Martinjak, Robin and Gl\"{o}ckner, Frank Oliver and Daniel, Rolf and Lingner, Thomas and Meinicke, Peter},
title = {{Dinucleotide distance histograms for fast detection of rRNA in metatranscriptomic sequences}},
booktitle = {German Conference on Bioinformatics 2013},
pages = {80--89},
series = {Open Access Series in Informatics (OASIcs)},
ISBN = {978-3-939897-59-0},
ISSN = {2190-6807},
year = {2013},
volume = {34},
editor = {Bei{\ss}barth, Tim and Kollmar, Martin and Leha, Andreas and Morgenstern, Burkhard and Schultz, Anne-Kathrin and Waack, Stephan and Wingender, Edgar},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2013.80},
URN = {urn:nbn:de:0030-drops-42324},
doi = {10.4230/OASIcs.GCB.2013.80},
annote = {Keywords: Metatranscriptomics, metagenomics, rRNA detection, distance histograms}
}
@InProceedings{leha_et_al:OASIcs.GCB.2013.90,
author = {Leha, Andreas and Jung, Klaus and Bei{\ss}barth, Tim},
title = {{Utilization of ordinal response structures in classification with high-dimensional expression data}},
booktitle = {German Conference on Bioinformatics 2013},
pages = {90--100},
series = {Open Access Series in Informatics (OASIcs)},
ISBN = {978-3-939897-59-0},
ISSN = {2190-6807},
year = {2013},
volume = {34},
editor = {Bei{\ss}barth, Tim and Kollmar, Martin and Leha, Andreas and Morgenstern, Burkhard and Schultz, Anne-Kathrin and Waack, Stephan and Wingender, Edgar},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2013.90},
URN = {urn:nbn:de:0030-drops-42340},
doi = {10.4230/OASIcs.GCB.2013.90},
annote = {Keywords: Classification, High-Dimensional Data, Ordinal Response, Expression Data}
}
@InProceedings{lemnian_et_al:OASIcs.GCB.2013.101,
author = {Lemnian, Ioana M. and Eggeling, Ralf and Grosse, Ivo},
title = {{Extended Sunflower Hidden Markov Models for the recognition of homotypic cis-regulatory modules\}}},
booktitle = {German Conference on Bioinformatics 2013},
pages = {101--109},
series = {Open Access Series in Informatics (OASIcs)},
ISBN = {978-3-939897-59-0},
ISSN = {2190-6807},
year = {2013},
volume = {34},
editor = {Bei{\ss}barth, Tim and Kollmar, Martin and Leha, Andreas and Morgenstern, Burkhard and Schultz, Anne-Kathrin and Waack, Stephan and Wingender, Edgar},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2013.101},
URN = {urn:nbn:de:0030-drops-42361},
doi = {10.4230/OASIcs.GCB.2013.101},
annote = {Keywords: Hidden Markov Models, cis-regulatory modules, de-novo motif discovery}
}
@InProceedings{lowes_et_al:OASIcs.GCB.2013.110,
author = {L\"{o}wes, Benedikt and Giegerich, Robert},
title = {{Avoiding Ambiguity and Assessing Uniqueness in Minisatellite Alignment}},
booktitle = {German Conference on Bioinformatics 2013},
pages = {110--124},
series = {Open Access Series in Informatics (OASIcs)},
ISBN = {978-3-939897-59-0},
ISSN = {2190-6807},
year = {2013},
volume = {34},
editor = {Bei{\ss}barth, Tim and Kollmar, Martin and Leha, Andreas and Morgenstern, Burkhard and Schultz, Anne-Kathrin and Waack, Stephan and Wingender, Edgar},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2013.110},
URN = {urn:nbn:de:0030-drops-42285},
doi = {10.4230/OASIcs.GCB.2013.110},
annote = {Keywords: minisatellite alignment, dynamic programming, ambiguity}
}
@InProceedings{martin_et_al:OASIcs.GCB.2013.125,
author = {Martin, Marcel and Rahmann, Sven},
title = {{Aligning Flowgrams to DNA Sequences}},
booktitle = {German Conference on Bioinformatics 2013},
pages = {125--135},
series = {Open Access Series in Informatics (OASIcs)},
ISBN = {978-3-939897-59-0},
ISSN = {2190-6807},
year = {2013},
volume = {34},
editor = {Bei{\ss}barth, Tim and Kollmar, Martin and Leha, Andreas and Morgenstern, Burkhard and Schultz, Anne-Kathrin and Waack, Stephan and Wingender, Edgar},
publisher = {Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
address = {Dagstuhl, Germany},
URL = {https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2013.125},
URN = {urn:nbn:de:0030-drops-42379},
doi = {10.4230/OASIcs.GCB.2013.125},
annote = {Keywords: flowgram, sequencing, alignment algorithm, scoring scheme}
}
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