@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}
}