@Proceedings{bocker_et_al:OASIcs.GCB.2012,
  title =	{{OASIcs, Volume 26, GCB'12, Complete Volume}},
  booktitle =	{German Conference on Bioinformatics 2012},
  series =	{Open Access Series in Informatics (OASIcs)},
  ISBN =	{978-3-939897-44-6},
  ISSN =	{2190-6807},
  year =	{2012},
  volume =	{26},
  editor =	{B\"{o}cker, Sebastian and Hufsky, Franziska and Scheubert, Kerstin and Schleicher, Jana and Schuster, Stefan},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2012},
  URN =		{urn:nbn:de:0030-drops-37269},
  doi =		{10.4230/OASIcs.GCB.2012},
  annote =	{Keywords: Life and Medical Sciences}
}
@InProceedings{bocker_et_al:OASIcs.GCB.2012.i,
  author =	{B\"{o}cker, Sebastian and Hufsky, Franziska and Scheubert, Kerstin and Schleicher, Jana and Schuster, Stefan},
  title =	{{Frontmatter, Table of Contents, Preface, Programm Committee, Supportes and Sponsors, Index of Authors}},
  booktitle =	{German Conference on Bioinformatics 2012},
  pages =	{i--xiv},
  series =	{Open Access Series in Informatics (OASIcs)},
  ISBN =	{978-3-939897-44-6},
  ISSN =	{2190-6807},
  year =	{2012},
  volume =	{26},
  editor =	{B\"{o}cker, Sebastian and Hufsky, Franziska and Scheubert, Kerstin and Schleicher, Jana and Schuster, Stefan},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2012.i},
  URN =		{urn:nbn:de:0030-drops-37121},
  doi =		{10.4230/OASIcs.GCB.2012.i},
  annote =	{Keywords: Frontmatter, Table of Contents, Preface, Programm Committee, Supportes and Sponsors, Index of Authors}
}
@InProceedings{hoppe_et_al:OASIcs.GCB.2012.1,
  author =	{Hoppe, Andreas and Holzh\"{u}tter, Hermann-Georg},
  title =	{{ModeScore: A Method to Infer Changed Activity of Metabolic Function from Transcript Profiles}},
  booktitle =	{German Conference on Bioinformatics 2012},
  pages =	{1--11},
  series =	{Open Access Series in Informatics (OASIcs)},
  ISBN =	{978-3-939897-44-6},
  ISSN =	{2190-6807},
  year =	{2012},
  volume =	{26},
  editor =	{B\"{o}cker, Sebastian and Hufsky, Franziska and Scheubert, Kerstin and Schleicher, Jana and Schuster, Stefan},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2012.1},
  URN =		{urn:nbn:de:0030-drops-37134},
  doi =		{10.4230/OASIcs.GCB.2012.1},
  annote =	{Keywords: Metabolic network, expression profile, metabolic function}
}
@InProceedings{hufsky_et_al:OASIcs.GCB.2012.12,
  author =	{Hufsky, Franziska and B\"{o}cker, Sebastian},
  title =	{{Comparing Fragmentation Trees from Electron Impact Mass Spectra with Annotated Fragmentation Pathways}},
  booktitle =	{German Conference on Bioinformatics 2012},
  pages =	{12--22},
  series =	{Open Access Series in Informatics (OASIcs)},
  ISBN =	{978-3-939897-44-6},
  ISSN =	{2190-6807},
  year =	{2012},
  volume =	{26},
  editor =	{B\"{o}cker, Sebastian and Hufsky, Franziska and Scheubert, Kerstin and Schleicher, Jana and Schuster, Stefan},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2012.12},
  URN =		{urn:nbn:de:0030-drops-37146},
  doi =		{10.4230/OASIcs.GCB.2012.12},
  annote =	{Keywords: metabolomics, GC-MS, computational mass spectrometry, fragmentation trees}
}
@InProceedings{ludwig_et_al:OASIcs.GCB.2012.23,
  author =	{Ludwig, Marcus and Hufsky, Franziska and Elshamy, Samy and B\"{o}cker, Sebastian},
  title =	{{Finding Characteristic Substructures for Metabolite Classes}},
  booktitle =	{German Conference on Bioinformatics 2012},
  pages =	{23--38},
  series =	{Open Access Series in Informatics (OASIcs)},
  ISBN =	{978-3-939897-44-6},
  ISSN =	{2190-6807},
  year =	{2012},
  volume =	{26},
  editor =	{B\"{o}cker, Sebastian and Hufsky, Franziska and Scheubert, Kerstin and Schleicher, Jana and Schuster, Stefan},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2012.23},
  URN =		{urn:nbn:de:0030-drops-37157},
  doi =		{10.4230/OASIcs.GCB.2012.23},
  annote =	{Keywords: metabolites, substructure prediction, mass spectrometry, FT-BLAST}
}
@InProceedings{chernyavsky_et_al:OASIcs.GCB.2012.39,
  author =	{Chernyavsky, Ilya and Alexandrov, Theodore and Maass, Peter and Nikolenko, Sergey I.},
  title =	{{A Two-Step Soft Segmentation Procedure for MALDI Imaging Mass Spectrometry Data}},
  booktitle =	{German Conference on Bioinformatics 2012},
  pages =	{39--48},
  series =	{Open Access Series in Informatics (OASIcs)},
  ISBN =	{978-3-939897-44-6},
  ISSN =	{2190-6807},
  year =	{2012},
  volume =	{26},
  editor =	{B\"{o}cker, Sebastian and Hufsky, Franziska and Scheubert, Kerstin and Schleicher, Jana and Schuster, Stefan},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2012.39},
  URN =		{urn:nbn:de:0030-drops-37163},
  doi =		{10.4230/OASIcs.GCB.2012.39},
  annote =	{Keywords: MALDI imaging mass spectrometry, hyperspectral image segmentation, probabilistic graphical models, latent Dirichlet allocation, Markov random field}
}
@InProceedings{koster_et_al:OASIcs.GCB.2012.49,
  author =	{K\"{o}ster, Johannes and Rahmann, Sven},
  title =	{{Building and Documenting Workflows with Python-Based Snakemake}},
  booktitle =	{German Conference on Bioinformatics 2012},
  pages =	{49--56},
  series =	{Open Access Series in Informatics (OASIcs)},
  ISBN =	{978-3-939897-44-6},
  ISSN =	{2190-6807},
  year =	{2012},
  volume =	{26},
  editor =	{B\"{o}cker, Sebastian and Hufsky, Franziska and Scheubert, Kerstin and Schleicher, Jana and Schuster, Stefan},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2012.49},
  URN =		{urn:nbn:de:0030-drops-37179},
  doi =		{10.4230/OASIcs.GCB.2012.49},
  annote =	{Keywords: workflow engine, dependency graph, knapsack problem, Python, high-throughput sequencing, next-generation sequencing}
}
@InProceedings{rottger_et_al:OASIcs.GCB.2012.57,
  author =	{R\"{o}ttger, Richard and Kreutzer, Christoph and Vu, Thuy Duong and Wittkop, Tobias and Baumbach, Jan},
  title =	{{Online Transitivity Clustering of Biological Data with Missing Values}},
  booktitle =	{German Conference on Bioinformatics 2012},
  pages =	{57--68},
  series =	{Open Access Series in Informatics (OASIcs)},
  ISBN =	{978-3-939897-44-6},
  ISSN =	{2190-6807},
  year =	{2012},
  volume =	{26},
  editor =	{B\"{o}cker, Sebastian and Hufsky, Franziska and Scheubert, Kerstin and Schleicher, Jana and Schuster, Stefan},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2012.57},
  URN =		{urn:nbn:de:0030-drops-37189},
  doi =		{10.4230/OASIcs.GCB.2012.57},
  annote =	{Keywords: Transitivity Clustering, Large Scale clustering, Missing Values, Web Interface}
}
@InProceedings{pesch_et_al:OASIcs.GCB.2012.69,
  author =	{Pesch, Robert and B\"{o}ck, Matthias and Zimmer, Ralf},
  title =	{{ConReg: Analysis and Visualization of Conserved Regulatory Networks in Eukaryotes}},
  booktitle =	{German Conference on Bioinformatics 2012},
  pages =	{69--81},
  series =	{Open Access Series in Informatics (OASIcs)},
  ISBN =	{978-3-939897-44-6},
  ISSN =	{2190-6807},
  year =	{2012},
  volume =	{26},
  editor =	{B\"{o}cker, Sebastian and Hufsky, Franziska and Scheubert, Kerstin and Schleicher, Jana and Schuster, Stefan},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2012.69},
  URN =		{urn:nbn:de:0030-drops-37194},
  doi =		{10.4230/OASIcs.GCB.2012.69},
  annote =	{Keywords: web application, evolutionary biology, regulatory networks, text-mining}
}
@InProceedings{daddario_et_al:OASIcs.GCB.2012.82,
  author =	{D'Addario, Marianna and Kriege, Nils and Rahmann, Sven},
  title =	{{Designing q-Unique DNA Sequences with Integer Linear Programs and Euler Tours in De Bruijn Graphs}},
  booktitle =	{German Conference on Bioinformatics 2012},
  pages =	{82--92},
  series =	{Open Access Series in Informatics (OASIcs)},
  ISBN =	{978-3-939897-44-6},
  ISSN =	{2190-6807},
  year =	{2012},
  volume =	{26},
  editor =	{B\"{o}cker, Sebastian and Hufsky, Franziska and Scheubert, Kerstin and Schleicher, Jana and Schuster, Stefan},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2012.82},
  URN =		{urn:nbn:de:0030-drops-37200},
  doi =		{10.4230/OASIcs.GCB.2012.82},
  annote =	{Keywords: DNA sequence design, De Bruijn graph, quotient graph, reverse complement, Euler graph, Euler tour}
}
@InProceedings{kottenhagen_et_al:OASIcs.GCB.2012.93,
  author =	{Kottenhagen, Nina and Gramzow, Lydia and Horn, Fabian and Pohl, Martin and Thei{\ss}en, G\"{u}nter},
  title =	{{Polyglutamine and Polyalanine Tracts Are Enriched in Transcription Factors of Plants}},
  booktitle =	{German Conference on Bioinformatics 2012},
  pages =	{93--107},
  series =	{Open Access Series in Informatics (OASIcs)},
  ISBN =	{978-3-939897-44-6},
  ISSN =	{2190-6807},
  year =	{2012},
  volume =	{26},
  editor =	{B\"{o}cker, Sebastian and Hufsky, Franziska and Scheubert, Kerstin and Schleicher, Jana and Schuster, Stefan},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2012.93},
  URN =		{urn:nbn:de:0030-drops-37217},
  doi =		{10.4230/OASIcs.GCB.2012.93},
  annote =	{Keywords: tandem repeats, molecular evolution, GO annotation}
}
@InProceedings{schafer_et_al:OASIcs.GCB.2012.108,
  author =	{Sch\"{a}fer, Tim and May, Patrick and Koch, Ina},
  title =	{{Computation and Visualization of Protein Topology Graphs Including Ligand Information}},
  booktitle =	{German Conference on Bioinformatics 2012},
  pages =	{108--118},
  series =	{Open Access Series in Informatics (OASIcs)},
  ISBN =	{978-3-939897-44-6},
  ISSN =	{2190-6807},
  year =	{2012},
  volume =	{26},
  editor =	{B\"{o}cker, Sebastian and Hufsky, Franziska and Scheubert, Kerstin and Schleicher, Jana and Schuster, Stefan},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2012.108},
  URN =		{urn:nbn:de:0030-drops-37226},
  doi =		{10.4230/OASIcs.GCB.2012.108},
  annote =	{Keywords: protein structure, graph theory, ligand, secondary structure, protein ligang graph}
}
@InProceedings{esmaielbeiki_et_al:OASIcs.GCB.2012.119,
  author =	{Esmaielbeiki, Reyhaneh and Nebel, Jean-Christophe},
  title =	{{Unbiased Protein Interface Prediction Based on Ligand Diversity Quantification}},
  booktitle =	{German Conference on Bioinformatics 2012},
  pages =	{119--130},
  series =	{Open Access Series in Informatics (OASIcs)},
  ISBN =	{978-3-939897-44-6},
  ISSN =	{2190-6807},
  year =	{2012},
  volume =	{26},
  editor =	{B\"{o}cker, Sebastian and Hufsky, Franziska and Scheubert, Kerstin and Schleicher, Jana and Schuster, Stefan},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/OASIcs.GCB.2012.119},
  URN =		{urn:nbn:de:0030-drops-37235},
  doi =		{10.4230/OASIcs.GCB.2012.119},
  annote =	{Keywords: Protein-protein interaction, protein interface prediction, homology modeling}
}