The Year Before Last

1. Abreu VAC, Almeida S, Tiwari S, Hassan SS, Mariano D, Silva A, Baumbach J, Azevedo V, Röttger R: CMRegNet -- An Interspecies Reference Database for Corynebacterial and Mycobacterial Regulatory Networks. BMC Genomics 2015, 16.
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@article{AbreuBMCGenomics2015, TITLE = {{CMRegNet} -- An Interspecies Reference Database for Corynebacterial and Mycobacterial Regulatory Networks}, AUTHOR = {Abreu, Vinicius A. C. and Almeida, Sintia and Tiwari, Sandeep and Hassan, Syed Shah and Mariano, Diego and Silva, Artur and Baumbach, Jan and Azevedo, Vasco and R{\"o}ttger, Richard}, LANGUAGE = {eng}, ISSN = {1471-2164}, URL = {http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4464113&tool=pmcentrez&rendertype=abstract}, DOI = {10.1186/s12864-015-1631-0}, PUBLISHER = {BioMed Central}, ADDRESS = {London}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, JOURNAL = {BMC Genomics}, VOLUME = {16}, NUMBER = {1}, EID = {452}, }
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%0 Journal Article %A Abreu, Vinicius A. C. %A Almeida, Sintia %A Tiwari, Sandeep %A Hassan, Syed Shah %A Mariano, Diego %A Silva, Artur %A Baumbach, Jan %A Azevedo, Vasco %A Röttger, Richard %+ External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T CMRegNet -- An Interspecies Reference Database for Corynebacterial and Mycobacterial Regulatory Networks : %! {CMRegNet} -- An Interspecies Reference Database for Corynebacterial and Mycobacterial Regulatory Networks %G eng %U http://hdl.handle.net/11858/00-001M-0000-0027-ACBB-E %F OTHER: accessionPMC4464113 %F OTHER: pmcidPMC4464113 %F OTHER: pmc-uid4464113 %F OTHER: publisher-id1631 %R 10.1186/s12864-015-1631-0 %U http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4464113&tool=pmcentrez&rendertype=abstract %7 2015-06-11 %D 2015 %8 11.06.2015 %J BMC Genomics %V 16 %N 1 %Z sequence number: 452 %I BioMed Central %C London %@ false
2. Ahmad M, Helms V, Lengauer T, Kalinina OV: Enthalpy-entropy Compensation upon Molecular Conformational Changes. Journal of Chemical Theory and Computation 2015, 11.
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@article{Lengauer2015, TITLE = {Enthalpy-entropy Compensation upon Molecular Conformational Changes}, AUTHOR = {Ahmad, Mazen and Helms, Volkhard and Lengauer, Thomas and Kalinina, Olga V.}, LANGUAGE = {eng}, DOI = {10.1021/ct501161t}, PUBLISHER = {American Chemical Society}, ADDRESS = {Washington, D.C.}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, JOURNAL = {Journal of Chemical Theory and Computation}, VOLUME = {11}, NUMBER = {4}, PAGES = {1410--1418}, }
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%0 Journal Article %A Ahmad, Mazen %A Helms, Volkhard %A Lengauer, Thomas %A Kalinina, Olga V. %+ External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T Enthalpy-entropy Compensation upon Molecular Conformational Changes : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0024-E34E-B %R 10.1021/ct501161t %7 2015 %D 2015 %J Journal of Chemical Theory and Computation %O J. Chem. Theory Comput. %V 11 %N 4 %& 1410 %P 1410 - 1418 %I American Chemical Society %C Washington, D.C.
3. Ahmad M, Helms V, Lengauer T, Kalinina OV: How Molecular Conformational Changes Affect Changes in Free Energy. Journal of Chemical Theory and Computation 2015, 11.
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@article{AhmadJCTC2015, TITLE = {How Molecular Conformational Changes Affect Changes in Free Energy}, AUTHOR = {Ahmad, Mazen and Helms, Volkhard and Lengauer, Thomas and Kalinina, Olga V.}, LANGUAGE = {eng}, DOI = {10.1021/acs.jctc.5b00235}, PUBLISHER = {American Chemical Society}, ADDRESS = {Washington, D.C.}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, JOURNAL = {Journal of Chemical Theory and Computation}, VOLUME = {11}, NUMBER = {7}, PAGES = {2945--2957}, }
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%0 Journal Article %A Ahmad, Mazen %A Helms, Volkhard %A Lengauer, Thomas %A Kalinina, Olga V. %+ External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T How Molecular Conformational Changes Affect Changes in Free Energy : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0028-4CAF-6 %R 10.1021/acs.jctc.5b00235 %7 2015 %D 2015 %J Journal of Chemical Theory and Computation %O J. Chem. Theory Comput. %V 11 %N 7 %& 2945 %P 2945 - 2957 %I American Chemical Society %C Washington, D.C.
4. Aldinucci M, Bracciali A, Marschall T, Patterson M, Pisanti N, Torquati M: High-Performance Haplotype Assembly. In Computational Intelligence Methods for Bioinformatics and Biostatistics (CIBB 2014). Springer; 2015. [Lecture Notes in Computer Science, vol. 8623]
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@inproceedings{MarschallLNBI15, TITLE = {High-Performance Haplotype Assembly}, AUTHOR = {Aldinucci, Marco and Bracciali, Andrea and Marschall, Tobias and Patterson, Murray and Pisanti, Nadia and Torquati, Massimo}, LANGUAGE = {eng}, ISBN = {978-3-319-24461-7}, DOI = {10.1007/978-3-319-24462-4_21}, PUBLISHER = {Springer}, YEAR = {2014}, MARGINALMARK = {$\bullet$}, DATE = {2015}, BOOKTITLE = {Computational Intelligence Methods for Bioinformatics and Biostatistics (CIBB 2014)}, PAGES = {245--258}, SERIES = {Lecture Notes in Computer Science}, VOLUME = {8623}, ADDRESS = {Cambridge, UK}, }
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%0 Conference Proceedings %A Aldinucci, Marco %A Bracciali, Andrea %A Marschall, Tobias %A Patterson, Murray %A Pisanti, Nadia %A Torquati, Massimo %+ External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations External Organizations %T High-Performance Haplotype Assembly : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0029-5D10-1 %R 10.1007/978-3-319-24462-4_21 %D 2015 %B 11th International Meeting on Computational Intelligence Methods for Bioinformatics and Biostatistics %Z date of event: 2014-06-26 - 2014-06-28 %C Cambridge, UK %B Computational Intelligence Methods for Bioinformatics and Biostatistics %P 245 - 258 %I Springer %@ 978-3-319-24461-7 %B Lecture Notes in Computer Science %N 8623
5. Amabile G, Di Ruscio A, Müller F, Welner RS, Yang H, Ebralidze AK, Zhong H, Levantini E, Qi L, Martinelli G, Brummelkamp T, Le Beau MM, Figueroa ME, Bock C, Tenen DG: Dissecting the Role of Aberrant DNA Methylation in Human Leukaemia. Nature Communications 2015, 6.
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@article{MullerBock2015, TITLE = {Dissecting the Role of Aberrant {DNA} Methylation in Human Leukaemia}, AUTHOR = {Amabile, Giovanni and Di Ruscio, Annalisa and M{\"u}ller, Fabian and Welner, Robert S. and Yang, Henry and Ebralidze, Alexander K. and Zhong, Hong and Levantini, Elena and Qi, Lihua and Martinelli, Giovanni and Brummelkamp, Thijn and Le Beau, Michelle M. and Figueroa, Maria E. and Bock, Christoph and Tenen, Daniel G.}, LANGUAGE = {eng}, ISSN = {2041-1723}, DOI = {10.1038/ncomms8091}, PUBLISHER = {Nature Publishing Group}, ADDRESS = {London}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, JOURNAL = {Nature Communications}, VOLUME = {6}, EID = {7091}, }
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%0 Journal Article %A Amabile, Giovanni %A Di Ruscio, Annalisa %A Müller, Fabian %A Welner, Robert S. %A Yang, Henry %A Ebralidze, Alexander K. %A Zhong, Hong %A Levantini, Elena %A Qi, Lihua %A Martinelli, Giovanni %A Brummelkamp, Thijn %A Le Beau, Michelle M. %A Figueroa, Maria E. %A Bock, Christoph %A Tenen, Daniel G. %+ External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations %T Dissecting the Role of Aberrant DNA Methylation in Human Leukaemia : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0027-AD30-B %R 10.1038/ncomms8091 %7 2015 %D 2015 %J Nature Communications %O Nat. Commun. %V 6 %Z sequence number: 7091 %I Nature Publishing Group %C London %@ false
6. Andreassen OA, Desikan RS, Wang Y, Thompson WK, Schork AJ, Zuber V, Doncheva NT, Ellinghaus E, Albrecht M, Mattingsdal M, Franke A, Lie BA, Mills I, Aukrust P, McEvoy LK, Djurovic S, Karlsen TH, Dale AM: Abundant Genetic Overlap between Blood Lipids and Immune-Mediated Diseases Indicates Shared Molecular Genetic Mechanisms. PLoS ONE 2015, 10.
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@article{Andreassen2015, TITLE = {Abundant Genetic Overlap between Blood Lipids and Immune-Mediated Diseases Indicates Shared Molecular Genetic Mechanisms}, AUTHOR = {Andreassen, Ole A. and Desikan, Rahul S. and Wang, Yunpeng and Thompson, Wesley K. and Schork, Andrew J. and Zuber, Verena and Doncheva, Nadezhda Tsankova and Ellinghaus, Eva and Albrecht, Mario and Mattingsdal, Morten and Franke, Andre and Lie, Benedicte A. and Mills, Ian and Aukrust, P{\aa}l and McEvoy, Linda K. and Djurovic, Srdjan and Karlsen, Tom H. and Dale, Anders M.}, LANGUAGE = {eng}, ISSN = {1932-6203}, URL = {http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4390360&tool=pmcentrez&rendertype=abstract}, DOI = {10.1371/journal.pone.0123057}, PUBLISHER = {Public Library of Science}, ADDRESS = {San Francisco, CA}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, JOURNAL = {PLoS ONE}, VOLUME = {10}, NUMBER = {4}, EID = {e0123057}, }
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%0 Journal Article %A Andreassen, Ole A. %A Desikan, Rahul S. %A Wang, Yunpeng %A Thompson, Wesley K. %A Schork, Andrew J. %A Zuber, Verena %A Doncheva, Nadezhda Tsankova %A Ellinghaus, Eva %A Albrecht, Mario %A Mattingsdal, Morten %A Franke, Andre %A Lie, Benedicte A. %A Mills, Ian %A Aukrust, Pål %A McEvoy, Linda K. %A Djurovic, Srdjan %A Karlsen, Tom H. %A Dale, Anders M. %+ External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations %T Abundant Genetic Overlap between Blood Lipids and Immune-Mediated Diseases Indicates Shared Molecular Genetic Mechanisms : %G eng %U http://hdl.handle.net/11858/00-001M-0000-002A-3AB7-1 %2 PMC4390360 %F OTHER: pmc-uid4390360 %R 10.1371/journal.pone.0123057 %U http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4390360&tool=pmcentrez&rendertype=abstract %7 2015-04-08 %D 2015 %8 08.04.2015 %J PLoS ONE %V 10 %N 4 %Z sequence number: e0123057 %I Public Library of Science %C San Francisco, CA %@ false
7. Baumbach J, Guo J, Ibragimov R: Covering Tree with Stars. Journal of Combinatorial Optimization 2015, 29.
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@article{BaumbachJCombOptim2015, TITLE = {Covering Tree with Stars}, AUTHOR = {Baumbach, Jan and Guo, Jiong and Ibragimov, Rashid}, LANGUAGE = {eng}, ISSN = {1382-6905}, DOI = {10.1007/s10878-013-9692-y}, PUBLISHER = {Springer}, ADDRESS = {New York, NY}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, JOURNAL = {Journal of Combinatorial Optimization}, VOLUME = {29}, NUMBER = {1}, PAGES = {141--152}, }
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%0 Journal Article %A Baumbach, Jan %A Guo, Jiong %A Ibragimov, Rashid %+ External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T Covering Tree with Stars : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0026-BEEF-7 %R 10.1007/s10878-013-9692-y %7 2015 %D 2015 %J Journal of Combinatorial Optimization %V 29 %N 1 %& 141 %P 141 - 152 %I Springer %C New York, NY %@ false
8. Bellitto T, Marschall T, Schönhuth A, Klau GW: Next Generation Cluster Editing. PeerJ PrePrints (Proc GCB 2015) 2015, 3.
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@article{MarschallPeer15, TITLE = {Next Generation Cluster Editing}, AUTHOR = {Bellitto, Thomas and Marschall, Tobias and Sch{\"o}nhuth, Alexander and Klau, Gunnar W.}, LANGUAGE = {eng}, DOI = {10.7287/peerj.preprints.1301v1}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, JOURNAL = {PeerJ PrePrints (Proc. GCB)}, VOLUME = {3}, EID = {e1599}, BOOKTITLE = {German Conference on Bioinformatics (GCB 2015)}, }
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%0 Journal Article %A Bellitto, Thomas %A Marschall, Tobias %A Schönhuth, Alexander %A Klau, Gunnar W. %+ External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations %T Next Generation Cluster Editing : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0029-5E4D-6 %R 10.7287/peerj.preprints.1301v1 %7 2015-08-13 %D 2015 %8 13.08.2015 %* Review method: peer-reviewed %J PeerJ PrePrints %O GCB 2015 %V 3 %Z sequence number: e1599 %B German Conference on Bioinformatics %O GCB 2015 Dortmund, Germany, 27.09. - 30.09.2015
9. Bock C, Bortolussi L, Krüger T, Mikeev L, Wolf V: Model-based Whole-genome Analysis of DNA Methylation Fidelity. In Hybrid Systems Biology (HSB 2015). Springer; 2015. [Lecture Notes in Bioinformatics, vol. 9271]
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@inproceedings{BockHSB2015, TITLE = {Model-Based Whole-Genome Analysis of {DNA} Methylation Fidelity}, AUTHOR = {Bock, Christoph and Bortolussi, Luca and Kr{\"u}ger, Thilo and Mikeev, Linar and Wolf, Verena}, LANGUAGE = {eng}, ISBN = {978-3-319-26915-3}, DOI = {10.1007/978-3-319-26916-0_8}, PUBLISHER = {Springer}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, BOOKTITLE = {Hybrid Systems Biology (HSB 2015)}, EDITOR = {Abate, Alessandro and {\v S}afr{\'a}nek, David}, PAGES = {141--155}, SERIES = {Lecture Notes in Bioinformatics}, VOLUME = {9271}, ADDRESS = {Madrid, Spain}, }
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%0 Conference Proceedings %A Bock, Christoph %A Bortolussi, Luca %A Krüger, Thilo %A Mikeev, Linar %A Wolf, Verena %+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations External Organizations External Organizations %T Model-based Whole-genome Analysis of DNA Methylation Fidelity : %G eng %U http://hdl.handle.net/11858/00-001M-0000-002A-07ED-6 %R 10.1007/978-3-319-26916-0_8 %D 2015 %B 4th International Workshop on Hybrid Systems Biology %Z date of event: 2015-09-04 - 2015-09-05 %C Madrid, Spain %B Hybrid Systems Biology %E Abate, Alessandro; Šafránek , David %P 141 - 155 %I Springer %@ 978-3-319-26915-3 %B Lecture Notes in Bioinformatics %N 9271
10. Caprari S, Metzler S, Lengauer T, Kalinina OV: Sequence and Structure Analysis of Distantly-Related Viruses Reveals Extensive Gene Transfer between Viruses and Hosts and among Viruses. Viruses 2015, 7.
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@article{Caprari2015, TITLE = {Sequence and Structure Analysis of Distantly-Related Viruses Reveals Extensive Gene Transfer between Viruses and Hosts and among Viruses}, AUTHOR = {Caprari, Silvia and Metzler, Saskia and Lengauer, Thomas and Kalinina, Olga V.}, LANGUAGE = {eng}, ISSN = {1999-4915}, DOI = {10.3390/v7102882}, PUBLISHER = {MDPI}, ADDRESS = {Basel}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, JOURNAL = {Viruses}, VOLUME = {7}, NUMBER = {10}, PAGES = {5388--5409}, }
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%0 Journal Article %A Caprari, Silvia %A Metzler, Saskia %A Lengauer, Thomas %A Kalinina, Olga V. %+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T Sequence and Structure Analysis of Distantly-Related Viruses Reveals Extensive Gene Transfer between Viruses and Hosts and among Viruses : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0029-1A7E-5 %R 10.3390/v7102882 %2 PMC4632390 %7 2015 %D 2015 %J Viruses %V 7 %N 10 %& 5388 %P 5388 - 5409 %I MDPI %C Basel %@ false %U http://www.mdpi.com/1999-4915/7/10/2882
11. Charpentier C, Camacho R, Ruelle J, Eberle J, Gürtler L, Pironti A, Stürmer M, Brun-Vézinet F, Kaiser R, Descamps D, Obermeier M: HIV-2EU -- Supporting Standardized HIV-2 Drug-Resistance Interpretation in Europe: An Update. Clinical Infectious Diseases 2015, 61.
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@article{Charpentier2015, TITLE = {{HIV}-{2EU} -- {S}upporting Standardized {HIV}-2 Drug-Resistance Interpretation in {E}urope: {A}n Update}, AUTHOR = {Charpentier, Charlotte and Camacho, Ricardo and Ruelle, Jean and Eberle, Josef and G{\"u}rtler, Lutz and Pironti, Alejandro and St{\"u}rmer, Martin and Brun-V{\'e}zinet, Fran{\c c}oise and Kaiser, Rolf and Descamps, Diane and Obermeier, Martin}, LANGUAGE = {eng}, ISSN = {1058-4838}, DOI = {10.1093/cid/civ572}, PUBLISHER = {The University of Chicago Press}, ADDRESS = {Chicago, IL}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, JOURNAL = {Clinical Infectious Diseases}, VOLUME = {61}, NUMBER = {8}, PAGES = {1347--1349}, }
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%0 Journal Article %A Charpentier, Charlotte %A Camacho, Ricardo %A Ruelle, Jean %A Eberle, Josef %A Gürtler, Lutz %A Pironti, Alejandro %A Stürmer, Martin %A Brun-Vézinet, Françoise %A Kaiser, Rolf %A Descamps, Diane %A Obermeier, Martin %+ External Organizations External Organizations External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations External Organizations External Organizations External Organizations %T HIV-2EU -- Supporting Standardized HIV-2 Drug-Resistance Interpretation in Europe: An Update : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0028-F6CC-9 %R 10.1093/cid/civ572 %7 2015-07-17 %D 2015 %J Clinical Infectious Diseases %V 61 %N 8 %& 1347 %P 1347 - 1349 %I The University of Chicago Press %C Chicago, IL %@ false
12. Cheaib M, Dehghani Amirabad A, Nordström KJV, Schulz MH, Simon M: Epigenetic regulation of serotype expression antagonizes transcriptome dynamics in Paramecium tetraurelia. DNA Research 2015, 22.
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@article{Cheaib2015, TITLE = {Epigenetic regulation of serotype expression antagonizes transcriptome dynamics in {Paramecium} tetraurelia}, AUTHOR = {Cheaib, Miriam and Dehghani Amirabad, Azim and Nordstr{\"o}m, Karl J. V. and Schulz, Marcel Holger and Simon, Martin}, LANGUAGE = {eng}, ISSN = {1340-2838; 1756-1663}, URL = {http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4535620&tool=pmcentrez&rendertype=abstract}, DOI = {10.1093/dnares/dsv014}, PUBLISHER = {Oxford University Press}, ADDRESS = {Oxford}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015-08}, JOURNAL = {DNA Research}, VOLUME = {22}, NUMBER = {4}, PAGES = {293--305}, }
Endnote
%0 Journal Article %A Cheaib, Miriam %A Dehghani Amirabad, Azim %A Nordström, Karl J. V. %A Schulz, Marcel Holger %A Simon, Martin %+ External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations %T Epigenetic regulation of serotype expression antagonizes transcriptome dynamics in Paramecium tetraurelia : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0028-52A5-D %F OTHER: accessionPMC4535620 %F OTHER: pmcidPMC4535620 %F OTHER: pmc-uid4535620 %R 10.1093/dnares/dsv014 %F OTHER: publisher-iddsv014 %U http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4535620&tool=pmcentrez&rendertype=abstract %2 PMC4535620 %7 2015-07-31 %D 2015 %K heat-shock %J DNA Research %V 22 %N 4 %& 293 %P 293 - 305 %I Oxford University Press %C Oxford %@ false
13. Cijvat R, Manegold S, Kersten M, Klau GW, Schönhuth A, Marschall T, Zhang Y: Genome Sequence Analysis with MonetDB: A Case Study on Ebola virus diversity. In Joint Workshop on Data Management for Science (DMS 2015); 2015.
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@inproceedings{CijvatDMforLS2015, TITLE = {Genome Sequence Analysis with {MonetDB}: A Case Study on {Ebola} virus diversity}, AUTHOR = {Cijvat, Robin and Manegold, Stefan and Kersten, Martin and Klau, Gunnar W. and Sch{\"o}nhuth, Alexander and Marschall, Tobias and Zhang, Ying}, LANGUAGE = {eng}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, BOOKTITLE = {Joint Workshop on Data Management for Science (DMS 2015)}, EDITOR = {Dorok, Sebastian and K{\"o}nig-Ries, Brigitta and Lange, Matthias and Rahm, Erhard and Saake, Gunter and Seeger, Bernhard}, ADDRESS = {Hamburg, Germany}, }
Endnote
%0 Conference Proceedings %A Cijvat, Robin %A Manegold, Stefan %A Kersten, Martin %A Klau, Gunnar W. %A Schönhuth, Alexander %A Marschall, Tobias %A Zhang, Ying %+ External Organizations External Organizations External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations %T Genome Sequence Analysis with MonetDB: A Case Study on Ebola virus diversity : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0029-5E85-6 %D 2015 %B Joint Workshop on Data Management for Science %Z date of event: 2015-03-03 - 2015-03-03 %C Hamburg, Germany %B Joint Workshop on Data Management for Science %E Dorok, Sebastian; König-Ries, Brigitta; Lange, Matthias; Rahm, Erhard; Saake, Gunter; Seeger, Bernhard %U http://www.btw-2015.de/res/proceedings/Workshops/DMS/Cijvat-Genome_sequence_analysis_wi.pdf
14. Cijvat R, Manegold S, Kersten M, Klau GW, Schönhuth A, Marschall T, Zhang Y: Genome Sequence Analysis with MonetDB. Datenbank-Spektrum 2015, 15.
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@article{MarschallMonetDB15, TITLE = {Genome Sequence Analysis with {M}onet{DB}}, AUTHOR = {Cijvat, Robin and Manegold, Stefan and Kersten, Martin and Klau, Gunnar W. and Sch{\"o}nhuth, Alexander and Marschall, Tobias and Zhang, Ying}, LANGUAGE = {eng}, ISSN = {1618-2162}, DOI = {10.1007/s13222-015-0198-x}, PUBLISHER = {Springer}, ADDRESS = {Berlin}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, JOURNAL = {Datenbank-Spektrum}, VOLUME = {15}, NUMBER = {3}, PAGES = {185--191}, }
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%0 Journal Article %A Cijvat, Robin %A Manegold, Stefan %A Kersten, Martin %A Klau, Gunnar W. %A Schönhuth, Alexander %A Marschall, Tobias %A Zhang, Ying %+ External Organizations External Organizations External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations %T Genome Sequence Analysis with MonetDB : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0029-5B50-E %R 10.1007/s13222-015-0198-x %7 2015-10-12 %D 2015 %J Datenbank-Spektrum %V 15 %N 3 %& 185 %P 185 - 191 %I Springer %C Berlin %@ false
15. Deuber D: Visualisierung, Vergleich und Analyse genetischer Variationen. Universität des Saarlandes; 2015.
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@mastersthesis{DeuberBachelor2015, TITLE = {{Visualisierung, Vergleich und Analyse genetischer Variationen}}, AUTHOR = {Deuber, Dominic}, LANGUAGE = {deu}, SCHOOL = {Universit{\"a}t des Saarlandes}, ADDRESS = {Saarbr{\"u}cken}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015-07-31}, TYPE = {Bachelor's thesis}, }
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%0 Thesis %A Deuber, Dominic %+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T Visualisierung, Vergleich und Analyse genetischer Variationen : %G deu %U http://hdl.handle.net/11858/00-001M-0000-002C-47E5-E %I Universität des Saarlandes %C Saarbrücken %D 2015 %8 31.07.2015 %V bachelor %9 bachelor
16. Dietzen M, Kalinina OV, Taškova K, Kneissl B, Hildebrandt A-K, Jaenicke E, Decker H, Lengauer T, Hildebrandt A: Large Oligomeric Complex Structures Can Be Computationally Assembled by Efficiently Combining Docked Interfaces. Proteins: Structure, Function, and Bioinformatics 2015, 83.
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@article{Dietzenetal2015, TITLE = {Large Oligomeric Complex Structures Can Be Computationally Assembled by Efficiently Combining Docked Interfaces}, AUTHOR = {Dietzen, Matthias and Kalinina, Olga V. and Ta{\v s}kova, Katerina and Kneissl, Benny and Hildebrandt, Anna-Katharina and Jaenicke, Elmar and Decker, Heinz and Lengauer, Thomas and Hildebrandt, Andreas}, LANGUAGE = {eng}, ISSN = {0887-3585}, DOI = {10.1002/prot.24873}, PUBLISHER = {John Wiley \& Sons}, ADDRESS = {New York, NY}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, JOURNAL = {Proteins: Structure, Function, and Bioinformatics}, VOLUME = {83}, NUMBER = {10}, PAGES = {1887--1899}, }
Endnote
%0 Journal Article %A Dietzen, Matthias %A Kalinina, Olga V. %A Taškova, Katerina %A Kneissl, Benny %A Hildebrandt, Anna-Katharina %A Jaenicke, Elmar %A Decker, Heinz %A Lengauer, Thomas %A Hildebrandt, Andreas %+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations %T Large Oligomeric Complex Structures Can Be Computationally Assembled by Efficiently Combining Docked Interfaces : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0028-5273-E %R 10.1002/prot.24873 %7 2015 %D 2015 %J Proteins: Structure, Function, and Bioinformatics %V 83 %N 10 %& 1887 %P 1887 - 1899 %I John Wiley & Sons %C New York, NY %@ false
17. Döring M, Gasparoni G, Gries J, Nordström K, Lutsik P, Walter J, Pfeifer N: Identification and Analysis of Methylation Call Differences Between Bisulfite Microarray and Bisulfite Sequencing Data with Statistical Learning Techniques. BMC Bioinformatics (Proc ISCB 2014) 2015, 16(Suppl 3).
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@article{doering2015, TITLE = {Identification and Analysis of Methylation Call Differences Between Bisulfite Microarray and Bisulfite Sequencing Data with Statistical Learning Techniques}, AUTHOR = {D{\"o}ring, Matthias and Gasparoni, Gilles and Gries, Jasmin and Nordstr{\"o}m, Karl and Lutsik, Pavlo and Walter, J{\"o}rn and Pfeifer, Nico}, LANGUAGE = {eng}, ISSN = {1471-2105}, URL = {http://www.biomedcentral.com/1471-2105/16/S3/A7}, DOI = {10.1186/1471-2105-16-S3-A7}, PUBLISHER = {BioMed Central}, ADDRESS = {London}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, CONTENTS = {Background Methods Results Conclusion}, JOURNAL = {BMC Bioinformatics (Proc. ISCB)}, VOLUME = {16}, NUMBER = {Suppl 3}, EID = {A7}, BOOKTITLE = {Highlights from the Third International Society for Computational Biology (ISCB) European Student Council Symposium 2014}, }
Endnote
%0 Journal Article %A Döring, Matthias %A Gasparoni, Gilles %A Gries, Jasmin %A Nordström, Karl %A Lutsik, Pavlo %A Walter, Jörn %A Pfeifer, Nico %+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Affiliation External Affiliation External Affiliation External Affiliation External Affiliation Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T Identification and Analysis of Methylation Call Differences Between Bisulfite Microarray and Bisulfite Sequencing Data with Statistical Learning Techniques : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0024-C7F7-B %U http://www.biomedcentral.com/1471-2105/16/S3/A7 %R 10.1186/1471-2105-16-S3-A7 %7 2015-02-13 %D 2015 %8 13.02.2015 %Z Background Methods Results Conclusion %J BMC Bioinformatics %V 16 %N Suppl 3 %Z sequence number: A7 %I BioMed Central %C London %@ false %B Highlights from the Third International Society for Computational Biology (ISCB) European Student Council Symposium 2014 %O ISCB 2014
18. Ebert P, Müller F, Nordström K, Lengauer T, Schulz MH: A General Concept for Consistent Documentation of Computational Analyses. Database 2015, 2015.
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@article{EbertDatabase2015, TITLE = {A General Concept for Consistent Documentation of Computational Analyses}, AUTHOR = {Ebert, Peter and M{\"u}ller, Fabian and Nordstr{\"o}m, Karl and Lengauer, Thomas and Schulz, Marcel Holger}, LANGUAGE = {eng}, ISSN = {1758-0463}, URL = {http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4460408&tool=pmcentrez&rendertype=abstract}, DOI = {10.1093/database/bav050}, PUBLISHER = {Oxford University Press}, ADDRESS = {Oxford}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, JOURNAL = {Database}, VOLUME = {2015}, EID = {bav050}, }
Endnote
%0 Journal Article %A Ebert, Peter %A Müller, Fabian %A Nordström, Karl %A Lengauer, Thomas %A Schulz, Marcel Holger %+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T A General Concept for Consistent Documentation of Computational Analyses : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0027-BD04-8 %F OTHER: accessionPMC4460408 %F OTHER: pmcidPMC4460408 %F OTHER: pmc-uid4460408 %R 10.1093/database/bav050 %F OTHER: publisher-idbav050 %U http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4460408&tool=pmcentrez&rendertype=abstract %7 2015-06-08 %D 2015 %8 08.06.2015 %J Database %O The Journal of Biological Databases and Curation %V 2015 %Z sequence number: bav050 %I Oxford University Press %C Oxford %@ false
19. Ebert P, Bock C: Improving Reference Epigenome Catalogs by Computational Prediction. Nature Biotechnology 2015, 33.
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@article{Ebert2015, TITLE = {Improving Reference Epigenome Catalogs by Computational Prediction}, AUTHOR = {Ebert, Peter and Bock, Christoph}, LANGUAGE = {eng}, ISSN = {1087-0156}, DOI = {10.1038/nbt.3194}, PUBLISHER = {Nature Publishing Group}, ADDRESS = {New York, NY}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, JOURNAL = {Nature Biotechnology}, VOLUME = {33}, NUMBER = {4}, PAGES = {354--355}, }
Endnote
%0 Journal Article %A Ebert, Peter %A Bock, Christoph %+ External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T Improving Reference Epigenome Catalogs by Computational Prediction : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0026-C911-B %R 10.1038/nbt.3194 %7 2015-04-07 %D 2015 %J Nature Biotechnology %V 33 %N 4 %& 354 %P 354 - 355 %I Nature Publishing Group %C New York, NY %@ false
20. Ebler J: Genotyping of Inversions and Tandem Duplications. Universität des Saarlandes; 2015.
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@mastersthesis{EblerBachelor2015, TITLE = {Genotyping of Inversions and Tandem Duplications}, AUTHOR = {Ebler, Jana}, LANGUAGE = {eng}, SCHOOL = {Universit{\"a}t des Saarlandes}, ADDRESS = {Saarbr{\"u}cken}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, TYPE = {Bachelor's thesis}, }
Endnote
%0 Thesis %A Ebler, Jana %+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T Genotyping of Inversions and Tandem Duplications : %G eng %U http://hdl.handle.net/11858/00-001M-0000-002C-47FD-9 %I Universität des Saarlandes %C Saarbrücken %D 2015 %V bachelor %9 bachelor
21. Farlik M, Sheffield NC, Nuzzo A, Datlinger P, Schönegger A, Klughammer J, Bock C: Single-Cell DNA Methylome Sequencing and Bioinformatic Inference of Epigenomic Cell-State Dynamics. Cell Reports 2015, 10.
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@article{BockCellReports2015, TITLE = {Single-Cell {DNA} Methylome Sequencing and Bioinformatic Inference of Epigenomic Cell-State Dynamics}, AUTHOR = {Farlik, Matthias and Sheffield, Nathan C. and Nuzzo, Angelo and Datlinger, Paul and Sch{\"o}negger, Andreas and Klughammer, Johanna and Bock, Christoph}, LANGUAGE = {eng}, DOI = {10.1016/j.celrep.2015.02.001}, PUBLISHER = {Elsevier}, ADDRESS = {Amsterdam}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, JOURNAL = {Cell Reports}, VOLUME = {10}, NUMBER = {8}, PAGES = {1386--1397}, }
Endnote
%0 Journal Article %A Farlik, Matthias %A Sheffield, Nathan C. %A Nuzzo, Angelo %A Datlinger, Paul %A Schönegger, Andreas %A Klughammer, Johanna %A Bock, Christoph %+ External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T Single-Cell DNA Methylome Sequencing and Bioinformatic Inference of Epigenomic Cell-State Dynamics : %! Single-Cell {DNA} Methylome Sequencing and Bioinformatic Inference of Epigenomic Cell-State Dynamics %G eng %U http://hdl.handle.net/11858/00-001M-0000-0026-BEE0-5 %R 10.1016/j.celrep.2015.02.001 %7 2015 %D 2015 %J Cell Reports %V 10 %N 8 %& 1386 %P 1386 - 1397 %I Elsevier %C Amsterdam %U http://www.sciencedirect.com/science/article/pii/S2211124715001096
22. Feldmann A, Pfeifer N: From Predicting to Analyzing HIV-1 Resistance to Broadly Neutralizing Antibodies. PeerJ Preprints 2015, 3.
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@article{Feldmann2015, TITLE = {From predicting to analyzing {HIV}-1 resistance to broadly neutralizing antibodies}, AUTHOR = {Feldmann, Anna and Pfeifer, Nico}, LANGUAGE = {eng}, DOI = {10.7287/peerj.preprints.1304v1}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, JOURNAL = {PeerJ Preprints}, VOLUME = {3}, EID = {e1304v1}, }
Endnote
%0 Journal Article %A Feldmann, Anna %A Pfeifer, Nico %+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T From Predicting to Analyzing HIV-1 Resistance to Broadly Neutralizing Antibodies : %G eng %U http://hdl.handle.net/11858/00-001M-0000-002C-4CC9-F %R 10.7287/peerj.preprints.1304v1 %7 2015-08-13 %D 2015 %8 13.08.2015 %J PeerJ Preprints %V 3 %Z sequence number: e1304v1
23. Fink T, Wolf A, Maurer F, Albrecht FW, Heim N, Wolf B, Hauschild AC, Bödeker B, Baumbach JI, Volk T, Sessler DI, Kreuer S: Volatile Organic Compounds during Inflammation and Sepsis in Rats: A Potential Breath Test Using Ion-mobility Spectrometry. Anesthesiology 2015, 122.
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@article{BaumbachVolatile2015, TITLE = {Volatile Organic Compounds during Inflammation and Sepsis in Rats: {A} Potential Breath Test Using Ion-mobility Spectrometry}, AUTHOR = {Fink, Tobias and Wolf, Alexander and Maurer, Felix and Albrecht, Frederic W. and Heim, Nathalie and Wolf, Beate and Hauschild, Anne C. and B{\"o}deker, Bertram and Baumbach, J{\"o}rg I. and Volk, Thomas and Sessler, Daniel I. and Kreuer, Sascha}, LANGUAGE = {eng}, ISSN = {0003-3022}, DOI = {10.1097/ALN.0000000000000420}, PUBLISHER = {American Society of Anesthesiologists}, ADDRESS = {Philadelphia, Pa.}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, JOURNAL = {Anesthesiology}, VOLUME = {122}, NUMBER = {1}, PAGES = {117--126}, }
Endnote
%0 Journal Article %A Fink, Tobias %A Wolf, Alexander %A Maurer, Felix %A Albrecht, Frederic W. %A Heim, Nathalie %A Wolf, Beate %A Hauschild, Anne C. %A Bödeker, Bertram %A Baumbach, Jörg I. %A Volk, Thomas %A Sessler, Daniel I. %A Kreuer, Sascha %+ External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations External Organizations External Organizations External Organizations %T Volatile Organic Compounds during Inflammation and Sepsis in Rats: A Potential Breath Test Using Ion-mobility Spectrometry : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0026-BF4B-2 %R 10.1097/ALN.0000000000000420 %7 2015 %D 2015 %J Anesthesiology %V 122 %N 1 %& 117 %P 117 - 126 %I American Society of Anesthesiologists %C Philadelphia, Pa. %@ false
24. Garg S: Towards Fewer Seeds for Network Discovery. In Modelling, Computation and Optimization in Information Systems and Management Sciences (MCO 2015). Springer; 2015. [Advances in Intelligent Systems and Computing, vol. 360]
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@inproceedings{GargMCO2015, TITLE = {Towards Fewer Seeds for Network Discovery}, AUTHOR = {Garg, Shilpa}, LANGUAGE = {eng}, ISSN = {2194-5357}, ISBN = {978-3-319-18166-0}, DOI = {10.1007/978-3-319-18167-7_8}, PUBLISHER = {Springer}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, BOOKTITLE = {Modelling, Computation and Optimization in Information Systems and Management Sciences (MCO 2015)}, EDITOR = {Thi, Hoai An Le and Dinh, Tao Pham and Nguyen, Ngoc Thanh}, PAGES = {81--89}, SERIES = {Advances in Intelligent Systems and Computing}, VOLUME = {360}, ADDRESS = {Metz, France}, }
Endnote
%0 Conference Proceedings %A Garg, Shilpa %+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T Towards Fewer Seeds for Network Discovery : %G eng %U http://hdl.handle.net/11858/00-001M-0000-002A-FC95-E %R 10.1007/978-3-319-18167-7_8 %D 2015 %B 3rd International Conference on Modelling, Computation and Optimization in Information Systems and Management Sciences %Z date of event: 2015-05-11 - 2015-05-13 %C Metz, France %B Modelling, Computation and Optimization in Information Systems and Management Sciences %E Thi, Hoai An Le; Dinh, Tao Pham; Nguyen, Ngoc Thanh %P 81 - 89 %I Springer %@ 978-3-319-18166-0 %B Advances in Intelligent Systems and Computing %N 360 %@ false
25. Gress A: Automated Mutation Associated Protein Structure Prediction. Universität des Saarlandes; 2015.
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@mastersthesis{Gress2015, TITLE = {Automated Mutation Associated Protein Structure Prediction}, AUTHOR = {Gress, Alexander}, LANGUAGE = {eng}, SCHOOL = {Universit{\"a}t des Saarlandes}, ADDRESS = {Saarbr{\"u}cken}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, }
Endnote
%0 Thesis %A Gress, Alexander %+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T Automated Mutation Associated Protein Structure Prediction : %G eng %U http://hdl.handle.net/11858/00-001M-0000-002C-287D-1 %I Universität des Saarlandes %C Saarbrücken %D 2015 %V master %9 master
26. Grund S, Gkioule C, Termos T, Pfeifer N, Kobbe G, Verheyen J, Adams O: Primarily Oseltamivir-resistant Influenza A (H1N1pdm09) Virus Evolving into a Multidrug-resistant Virus Carrying H275Y and I223R Neuraminidase Substitutions. Antiviral Therapy 2015, 20.
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@article{Grund2015, TITLE = {Primarily Oseltamivir-resistant Influenza {A} ({H1N1pdm09}) Virus Evolving into a Multidrug-resistant Virus Carrying {H275Y} and {I223R} Neuraminidase Substitutions}, AUTHOR = {Grund, Sebastian and Gkioule, Charikleia and Termos, Tahani and Pfeifer, Nico and Kobbe, Guido and Verheyen, Jens and Adams, Ortwin}, LANGUAGE = {eng}, ISSN = {1359-6535}, DOI = {10.3851/IMP2811}, PUBLISHER = {International Medical Press}, ADDRESS = {London}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, JOURNAL = {Antiviral Therapy}, VOLUME = {20}, PAGES = {97--100}, }
Endnote
%0 Journal Article %A Grund, Sebastian %A Gkioule, Charikleia %A Termos, Tahani %A Pfeifer, Nico %A Kobbe, Guido %A Verheyen, Jens %A Adams, Ortwin %+ External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations External Organizations %T Primarily Oseltamivir-resistant Influenza A (H1N1pdm09) Virus Evolving into a Multidrug-resistant Virus Carrying H275Y and I223R Neuraminidase Substitutions : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0028-5380-8 %R 10.3851/IMP2811 %7 2014-06-18 %D 2015 %J Antiviral Therapy %V 20 %& 97 %P 97 - 100 %I International Medical Press %C London %@ false
27. Hauschild A-C, Maurer F, Fink T, Baumbach JI, Kreuer S, Eckel SP, Baumbach J: Analysis of Volatile Organic Compounds during Sepsis in Rats. In Metaboliten in Prozessabluft und Ausatemluft; 2015.
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@inproceedings{HauschildMetaboliten2015, TITLE = {Analysis of Volatile Organic Compounds during Sepsis in Rats}, AUTHOR = {Hauschild, Anne-Christin and Maurer, Felix and Fink, Tobias and Baumbach, J{\"o}rg Ingo and Kreuer, Sascha and Eckel, Sandrah P. and Baumbach, Jan}, LANGUAGE = {eng}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, BOOKTITLE = {Metaboliten in Prozessabluft und Ausatemluft}, PAGES = {23--23}, ADDRESS = {Reutlingen, Germany}, }
Endnote
%0 Conference Proceedings %A Hauschild, Anne-Christin %A Maurer, Felix %A Fink, Tobias %A Baumbach, Jörg Ingo %A Kreuer, Sascha %A Eckel, Sandrah P. %A Baumbach, Jan %+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations %T Analysis of Volatile Organic Compounds during Sepsis in Rats : %G eng %U http://hdl.handle.net/11858/00-001M-0000-002A-06C9-B %D 2015 %B 6. Symposium Metaboliten in Prozessabluft und Ausatemluft %Z date of event: 2015-09-22 - 2015-09-23 %C Reutlingen, Germany %B Metaboliten in Prozessabluft und Ausatemluft %P 23 - 23 %U http://www.bs-analytik.de/pdf/150508_BoA_Anwedertreffen_v5.pdf
28. Hauschild A-C, Frisch T, Baumbach JI, Baumbach J: Carotta: Revealing Hidden Confounder Markers in Metabolic Breath Profiles. Metabolites 2015, 5.
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@article{HauschildMetabolites2015, TITLE = {Carotta: {R}evealing Hidden Confounder Markers in Metabolic Breath Profiles}, AUTHOR = {Hauschild, Anne-Christin and Frisch, Tobias and Baumbach, J{\"o}rg Ingo and Baumbach, Jan}, LANGUAGE = {eng}, ISSN = {2218-1989}, URL = {http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4495376&tool=pmcentrez&rendertype=abstract}, DOI = {10.3390/metabo5020344}, PUBLISHER = {MDPI}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, JOURNAL = {Metabolites}, VOLUME = {5}, NUMBER = {2}, PAGES = {344--363}, }
Endnote
%0 Journal Article %A Hauschild, Anne-Christin %A Frisch, Tobias %A Baumbach, Jörg Ingo %A Baumbach, Jan %A contributor: Kaleta, Christoph %+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations External Organizations %T Carotta: Revealing Hidden Confounder Markers in Metabolic Breath Profiles : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0028-1B69-D %F OTHER: accessionPMC4495376 %F OTHER: pmcidPMC4495376 %F OTHER: pmc-uid4495376 %R 10.3390/metabo5020344 %F OTHER: publisher-idmetabolites-05-00344 %U http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4495376&tool=pmcentrez&rendertype=abstract %7 2015-06-10 %D 2015 %8 10.06.2015 %K breath analysis %J Metabolites %V 5 %N 2 %& 344 %P 344 - 363 %I MDPI %@ false
29. Hauschild A-C, Baumbach JI, Baumbach J: Bioinformatics Methods for Breath Analysis and Biomarker Detection. In Breath Research Topics from IABR 2015 Summit; 2015.
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@inproceedings{HauschildIABR2015, TITLE = {Bioinformatics Methods for Breath Analysis and Biomarker Detection}, AUTHOR = {Hauschild, Anne-Christin and Baumbach, J{\"o}rg Ingo and Baumbach, Jan}, LANGUAGE = {eng}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, BOOKTITLE = {Breath Research Topics from IABR 2015 Summit}, EDITOR = {Baddour, Rafid}, ADDRESS = {Vienna, Austria}, }
Endnote
%0 Conference Proceedings %A Hauschild, Anne-Christin %A Baumbach, Jörg Ingo %A Baumbach, Jan %+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T Bioinformatics Methods for Breath Analysis and Biomarker Detection : %G eng %U http://hdl.handle.net/11858/00-001M-0000-002A-14B6-6 %D 2015 %B International Association of Breath Researchers 2015 Summit Conference %Z date of event: 2015-09-14 - 2015-09-16 %C Vienna, Austria %B Breath Research Topics from IABR 2015 Summit %E Baddour, Rafid
30. He X, Cicek AE, Wang Y, Schulz MH, Le H-S, Bar-Joseph Z: De Novo ChIP-seq Analysis. Genome Biology 2015, 16.
Abstract
ABSTRACT: Methods for the analysis of chromatin immunoprecipitation sequencing (ChIP-seq) data start by aligning the short reads to a reference genome. While often successful, they are not appropriate for cases where a reference genome is not available. Here we develop methods for de novo analysis of ChIP-seq data. Our methods combine de novo assembly with statistical tests enabling motif discovery without the use of a reference genome. We validate the performance of our method using human and mouse data. Analysis of fly data indicates that our method outperforms alignment based methods that utilize closely related species.
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@article{He2015, TITLE = {{\textit{De novo}} {ChIP}-seq analysis}, AUTHOR = {He, Xin and Cicek, A. Ercument and Wang, Yuhao and Schulz, Marcel H. and Le, Hai-Son and Bar-Joseph, Ziv}, LANGUAGE = {eng}, ISSN = {1474-760X}, DOI = {10.1186/s13059-015-0756-4}, PUBLISHER = {BioMed Central Ltd.}, ADDRESS = {London}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, ABSTRACT = {ABSTRACT: Methods for the analysis of chromatin immunoprecipitation sequencing (ChIP-seq) data start by aligning the short reads to a reference genome. While often successful, they are not appropriate for cases where a reference genome is not available. Here we develop methods for de novo analysis of ChIP-seq data. Our methods combine de novo assembly with statistical tests enabling motif discovery without the use of a reference genome. We validate the performance of our method using human and mouse data. Analysis of fly data indicates that our method outperforms alignment based methods that utilize closely related species.}, JOURNAL = {Genome Biology}, VOLUME = {16}, NUMBER = {1}, EID = {205}, }
Endnote
%0 Journal Article %A He, Xin %A Cicek, A. Ercument %A Wang, Yuhao %A Schulz, Marcel H. %A Le, Hai-Son %A Bar-Joseph, Ziv %+ External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations %T De Novo ChIP-seq Analysis : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0028-DD0C-3 %R 10.1186/s13059-015-0756-4 %7 2015-09-23 %D 2015 %8 23.09.2015 %X ABSTRACT: Methods for the analysis of chromatin immunoprecipitation sequencing (ChIP-seq) data start by aligning the short reads to a reference genome. While often successful, they are not appropriate for cases where a reference genome is not available. Here we develop methods for de novo analysis of ChIP-seq data. Our methods combine de novo assembly with statistical tests enabling motif discovery without the use of a reference genome. We validate the performance of our method using human and mouse data. Analysis of fly data indicates that our method outperforms alignment based methods that utilize closely related species. %J Genome Biology %V 16 %N 1 %Z sequence number: 205 %I BioMed Central Ltd. %C London %@ false %U http://www.genomebiology.com/2015/16/1/205
31. Karp PD, Berger B, Kovats D, Lengauer T, Linial M, Sabeti P, Hide W, Rost B: ISCB Ebola Award for Important Future Research on the Computational Biology of Ebola Virus. F1000Research 2015, 4.
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@article{LengauerF1000Research2015, TITLE = {{ISCB Ebola Award} for Important Future Research on the Computational Biology of {Ebola} Virus}, AUTHOR = {Karp, Peter D. and Berger, Bonnie and Kovats, Diane and Lengauer, Thomas and Linial, Michal and Sabeti, Pardis and Hide, Winston and Rost, Burkhard}, LANGUAGE = {eng}, ISSN = {2046-1402}, URL = {http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4457108&tool=pmcentrez&rendertype=abstract}, DOI = {10.12688/f1000research.6038.1}, PUBLISHER = {F1000Research}, ADDRESS = {London, UK}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, JOURNAL = {F1000Research}, VOLUME = {4}, EID = {12}, }
Endnote
%0 Journal Article %A Karp, Peter D. %A Berger, Bonnie %A Kovats, Diane %A Lengauer, Thomas %A Linial, Michal %A Sabeti, Pardis %A Hide, Winston %A Rost, Burkhard %+ External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations External Organizations External Organizations %T ISCB Ebola Award for Important Future Research on the Computational Biology of Ebola Virus : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0027-BD0D-5 %F OTHER: accessionPMC4457108 %F OTHER: pmcidPMC4457108 %F OTHER: pmc-uid4457108 %R 10.12688/f1000research.6038.1 %U http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4457108&tool=pmcentrez&rendertype=abstract %7 2015-01-15 %D 2015 %8 15.01.2015 %J F1000Research %V 4 %Z sequence number: 12 %I F1000Research %C London, UK %@ false
32. Karp PD, Berger B, Kovats D, Lengauer T, Linial M, Sabeti P, Hide W, Rost B: Message from the ISCB: ISCB Ebola award for important future research on the computational biology of Ebola virus. Bioinformatics 2015, 31.
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@article{LengauerBioinformatics2015, TITLE = {Message from the {ISCB}: {ISCB} {Ebola} award for important future research on the computational biology of {Ebola} virus}, AUTHOR = {Karp, Peter D. and Berger, Bonnie and Kovats, Diane and Lengauer, Thomas and Linial, Michal and Sabeti, Pardis and Hide, Winston and Rost, Burkhard}, ISSN = {1367-4803}, DOI = {10.1093/bioinformatics/btv019}, PUBLISHER = {Oxford University Press}, ADDRESS = {Oxford}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, JOURNAL = {Bioinformatics}, VOLUME = {31}, NUMBER = {4}, PAGES = {616--617}, }
Endnote
%0 Journal Article %A Karp, Peter D. %A Berger, Bonnie %A Kovats, Diane %A Lengauer, Thomas %A Linial, Michal %A Sabeti, Pardis %A Hide, Winston %A Rost, Burkhard %+ external external external Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society external external external external %T Message from the ISCB: ISCB Ebola award for important future research on the computational biology of Ebola virus : %U http://hdl.handle.net/11858/00-001M-0000-0026-A0E1-3 %F ISI: 000350059600029 %R 10.1093/bioinformatics/btv019 %D 2015 %J Bioinformatics %V 31 %N 4 %& 616 %P 616 - 617 %I Oxford University Press %C Oxford %@ false
33. Karp PD, Berger B, Kovats D, Lengauer T, Linial M, Sabeti P, Hide W, Rost B: ISCB Ebola Award for Important Future Research on the Computational Biology of Ebola Virus. PLoS Computational Biology 2015, 11.
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@article{KarpPLoS2015, TITLE = {{ISCB} {Ebola Award} for Important Future Research on the Computational Biology of {E}bola Virus}, AUTHOR = {Karp, Peter D. and Berger, Bonnie and Kovats, Diane and Lengauer, Thomas and Linial, Michal and Sabeti, Pardis and Hide, Winston and Rost, Burkhard}, LANGUAGE = {eng}, ISSN = {1553-734X; 1553-7358}, URL = {http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4310586&tool=pmcentrez&rendertype=abstract}, DOI = {10.1371/journal.pcbi.1004087}, PUBLISHER = {Public Library of Science}, ADDRESS = {San Francisco, CA}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, JOURNAL = {PLoS Computational Biology}, VOLUME = {11}, NUMBER = {1}, EID = {e1004087}, }
Endnote
%0 Journal Article %A Karp, Peter D. %A Berger, Bonnie %A Kovats, Diane %A Lengauer, Thomas %A Linial, Michal %A Sabeti, Pardis %A Hide, Winston %A Rost, Burkhard %+ External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations External Organizations External Organizations %T ISCB Ebola Award for Important Future Research on the Computational Biology of Ebola Virus : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0024-E54D-E %2 PMC4310586 %F OTHER: publisher-idPCOMPBIOL-D-14-02242 %R 10.1371/journal.pcbi.1004087 %U http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4310586&tool=pmcentrez&rendertype=abstract %7 2015-01-29 %D 2015 %8 29.01.2015 %J PLoS Computational Biology %V 11 %N 1 %Z sequence number: e1004087 %I Public Library of Science %C San Francisco, CA %@ false
34. Klughammer J, Datlinger P, Printz D, Sheffield NC, Farlik M, Hadler J, Fritsch G, Bock C: Differential DNA Methylation Analysis without a Reference Genome. Cell 2015, 11.
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@article{Klughammer2015, TITLE = {Differential {DNA} Methylation Analysis without a Reference Genome}, AUTHOR = {Klughammer, Johanna and Datlinger, Paul and Printz, Dieter and Sheffield, Nathan C. and Farlik, Matthias and Hadler, Johanna and Fritsch, Gerhard and Bock, Christoph}, LANGUAGE = {eng}, ISSN = {0092-8674}, DOI = {10.1016/j.celrep.2015.11.024}, PUBLISHER = {Cell Press}, ADDRESS = {Cambridge, Mass.}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, JOURNAL = {Cell}, VOLUME = {11}, PAGES = {2621--2633}, }
Endnote
%0 Journal Article %A Klughammer, Johanna %A Datlinger, Paul %A Printz, Dieter %A Sheffield, Nathan C. %A Farlik, Matthias %A Hadler, Johanna %A Fritsch, Gerhard %A Bock, Christoph %+ External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T Differential DNA Methylation Analysis without a Reference Genome : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0029-5762-8 %R 10.1016/j.celrep.2015.11.024 %7 2015 %D 2015 %J Cell %V 11 %& 2621 %P 2621 - 2633 %I Cell Press %C Cambridge, Mass. %@ false %U http://www.sciencedirect.com/science/article/pii/S2211124715013248
35. Kouri V, Khouri R, Alemán Y, Abrahantes Y, Vercauteren J, Pineda-Peña A-C, Theys K, Megens S, Moutschen M, Pfeifer N, Van Weyenbergh J, Pérez AB, Pérez J, Pérez L, Van Laethem K, Vandamme A-M: CRF19_cpx is an Evolutionary Fit HIV-1 Variant Strongly Associated With Rapid Progression to AIDS in Cuba. EBioMedicine 2015, 2.
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@article{Kouri2015, TITLE = {{CRF19\_cpx} is an Evolutionary Fit {HIV}-1 Variant Strongly Associated With Rapid Progression to {AIDS} in {Cuba}}, AUTHOR = {Kouri, Vivian and Khouri, Ricardo and Alem{\'a}n, Yoan and Abrahantes, Yeissel and Vercauteren, Jurgen and Pineda-Pe{\~n}a, Andrea-Clemencia and Theys, Kristof and Megens, Sarah and Moutschen, Michel and Pfeifer, Nico and Van Weyenbergh, Johan and P{\'e}rez, Ana B. and P{\'e}rez, Jorge and P{\'e}rez, Lissette and Van Laethem, Kristel and Vandamme, Anne-Mieke}, LANGUAGE = {eng}, URL = {http://www.ebiomedicine.com/article/S2352-3964(15)00038-9/abstract}, DOI = {10.1016/j.ebiom.2015.01.015}, PUBLISHER = {Elsevier}, ADDRESS = {Amsterdam}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, JOURNAL = {EBioMedicine}, VOLUME = {2}, NUMBER = {3}, PAGES = {244--254}, }
Endnote
%0 Journal Article %A Kouri, Vivian %A Khouri, Ricardo %A Alemán, Yoan %A Abrahantes, Yeissel %A Vercauteren, Jurgen %A Pineda-Peña, Andrea-Clemencia %A Theys, Kristof %A Megens, Sarah %A Moutschen, Michel %A Pfeifer, Nico %A Van Weyenbergh, Johan %A Pérez, Ana B. %A Pérez, Jorge %A Pérez, Lissette %A Van Laethem, Kristel %A Vandamme, Anne-Mieke %+ External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations %T CRF19_cpx is an Evolutionary Fit HIV-1 Variant Strongly Associated With Rapid Progression to AIDS in Cuba : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0024-D01E-C %U http://www.ebiomedicine.com/article/S2352-3964(15)00038-9/abstract %R 10.1016/j.ebiom.2015.01.015 %7 2015-01-28 %D 2015 %8 28.01.2015 %J EBioMedicine %V 2 %N 3 %& 244 %P 244 - 254 %I Elsevier %C Amsterdam %U http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4484819/pdf/main.pdf
36. Lang B: Evaluation of Clique-Enumeration Algorithms with Application to Haplotype Reconstruction. Universität des Saarlandes; 2015.
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@mastersthesis{LangBachelor2015, TITLE = {Evaluation of Clique-Enumeration Algorithms with Application to Haplotype Reconstruction}, AUTHOR = {Lang, Bernhard}, LANGUAGE = {eng}, SCHOOL = {Universit{\"a}t des Saarlandes}, ADDRESS = {Saarbr{\"u}cken}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, TYPE = {Bachelor's thesis}, }
Endnote
%0 Thesis %A Lang, Bernhard %+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T Evaluation of Clique-Enumeration Algorithms with Application to Haplotype Reconstruction : %G eng %U http://hdl.handle.net/11858/00-001M-0000-002C-47EF-9 %I Universität des Saarlandes %C Saarbrücken %D 2015 %V bachelor %9 bachelor
37. Lawyer G: Understanding the Influence of All Nodes in a Network. Scientific Reports 2015, 5.
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@article{Lawyer2015, TITLE = {Understanding the Influence of All Nodes in a Network}, AUTHOR = {Lawyer, Glenn}, LANGUAGE = {eng}, DOI = {10.1038/srep08665}, PUBLISHER = {Nature Publishing Group}, ADDRESS = {London, UK}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, JOURNAL = {Scientific Reports}, VOLUME = {5}, EID = {8665}, }
Endnote
%0 Journal Article %A Lawyer, Glenn %+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T Understanding the Influence of All Nodes in a Network : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0024-CAA9-3 %R 10.1038/srep08665 %7 2015-03-02 %D 2015 %8 02.03.2015 %J Scientific Reports %O Sci. Rep. %V 5 %Z sequence number: 8665 %I Nature Publishing Group %C London, UK
38. Lengauer T, Nussinov R: How to Write a Presubmission Inquiry. PLoS Computational Biology 2015, 11.
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@article{LengauerNussinov2015, TITLE = {How to Write a Presubmission Inquiry}, AUTHOR = {Lengauer, Thomas and Nussinov, Ruth}, LANGUAGE = {eng}, ISSN = {1553-734X}, DOI = {10.1371/journal.pcbi.1004098}, PUBLISHER = {Public Library of Science}, ADDRESS = {San Francisco, CA}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, JOURNAL = {PLoS Computational Biology}, VOLUME = {11}, NUMBER = {2}, EID = {e1004098}, }
Endnote
%0 Journal Article %A Lengauer, Thomas %A Nussinov, Ruth %+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations %T How to Write a Presubmission Inquiry : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0026-C655-D %R 10.1371/journal.pcbi.1004098 %7 2015-02-26 %D 2015 %8 26.02.2015 %J PLoS Computational Biology %V 11 %N 2 %Z sequence number: e1004098 %I Public Library of Science %C San Francisco, CA %@ false %U http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1004098
39. Leung WY, Marschall T, Paudel Y, Falquet L, Mei H, Schönhuth A, Maoz TY: SV-AUTOPILOT: Optimized, Automated Construction of Structural Variation Discovery and Benchmarking Pipelines. BMC Genomics 2015, 16.
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@article{Marschall2015, TITLE = {{SV}-{AUTOPILOT}: {O}ptimized, Automated Construction of Structural Variation Discovery and Benchmarking Pipelines}, AUTHOR = {Leung, Wai Yi and Marschall, Tobias and Paudel, Yogesh and Falquet, Laurent and Mei, Hailiang and Sch{\"o}nhuth, Alexander and Maoz, Tiffanie Yael}, LANGUAGE = {eng}, ISSN = {1471-2164}, URL = {http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4520269&tool=pmcentrez&rendertype=abstract}, DOI = {10.1186/s12864-015-1376-9}, PUBLISHER = {BioMed Central}, ADDRESS = {London}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, JOURNAL = {BMC Genomics}, VOLUME = {16}, NUMBER = {1}, EID = {238}, }
Endnote
%0 Journal Article %A Leung, Wai Yi %A Marschall, Tobias %A Paudel, Yogesh %A Falquet, Laurent %A Mei, Hailiang %A Schönhuth, Alexander %A Maoz, Tiffanie Yael %+ External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations External Organizations External Organizations External Organizations %T SV-AUTOPILOT: Optimized, Automated Construction of Structural Variation Discovery and Benchmarking Pipelines : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0028-1B8C-0 %F OTHER: accessionPMC4520269 %F OTHER: pmcidPMC4520269 %F OTHER: pmc-uid4520269 %F OTHER: publisher-id1376 %R 10.1186/s12864-015-1376-9 %U http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4520269&tool=pmcentrez&rendertype=abstract %7 2015-03-25 %D 2015 %8 25.03.2015 %K SV tool development %J BMC Genomics %V 16 %N 1 %Z sequence number: 238 %I BioMed Central %C London %@ false
40. List M, Franz M, Tan O, Mollenhauer J, Baumbach J: OpenLabNotes - An Electronic Laboratory Notebook Extension for OpenLabFramework. Journal of Integrative Bioinformatics 2015, 12.
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@article{List_jib274, TITLE = {{OpenLabNotes} -- An Electronic Laboratory Notebook Extension for {OpenLabFramework}}, AUTHOR = {List, Markus and Franz, Michael and Tan, Oihua and Mollenhauer, Jan and Baumbach, Jan}, LANGUAGE = {eng}, ISSN = {1613-4516}, DOI = {10.2390/biecoll-jib-2015-274}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, JOURNAL = {Journal of Integrative Bioinformatics}, VOLUME = {12}, NUMBER = {3}, EID = {274}, }
Endnote
%0 Journal Article %A List, Markus %A Franz, Michael %A Tan, Oihua %A Mollenhauer, Jan %A Baumbach, Jan %+ External Organizations External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T OpenLabNotes - An Electronic Laboratory Notebook Extension for OpenLabFramework : %G eng %U http://hdl.handle.net/11858/00-001M-0000-002B-466F-2 %R 10.2390/biecoll-jib-2015-274 %7 2015 %D 2015 %J Journal of Integrative Bioinformatics %O JIB %V 12 %N 3 %Z sequence number: 274 %@ false
41. Lübke N, Di Cristanziano V, Sierra S, Knops E, Schülter E, Jensen B, Oette M, Lengauer T, Kaiser R: Proviral DNA as a Target for HIV-1 Resistance Analysis. Intervirology 2015, 58.
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@article{Lubke2015, TITLE = {Proviral {DNA} as a Target for {HIV}-1 Resistance Analysis}, AUTHOR = {L{\"u}bke, Nadine and Di Cristanziano, Veronica and Sierra, Saleta and Knops, Elena and Sch{\"u}lter, Eugen and Jensen, Bj{\"o}rn and Oette, Mark and Lengauer, Thomas and Kaiser, Rolf}, LANGUAGE = {eng}, DOI = {10.1159/000431093}, PUBLISHER = {Karger}, ADDRESS = {Basel}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, JOURNAL = {Intervirology}, VOLUME = {58}, NUMBER = {3}, PAGES = {184--189}, }
Endnote
%0 Journal Article %A Lübke, Nadine %A Di Cristanziano, Veronica %A Sierra, Saleta %A Knops, Elena %A Schülter, Eugen %A Jensen, Björn %A Oette, Mark %A Lengauer, Thomas %A Kaiser, Rolf %+ External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations %T Proviral DNA as a Target for HIV-1 Resistance Analysis : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0028-5373-6 %R 10.1159/000431093 %7 2015 %D 2015 %K Kaiser, Rolf %J Intervirology %V 58 %N 3 %& 184 %P 184 - 189 %I Karger %C Basel
42. Mueller SC, Backes C, Kalinina OV, Meder B, Stöckel D, Lenhof H-P, Meese E, Keller A: BALL-SNP: Combining Genetic and Structural Information to Identify Candidate non-Synonymous Single Nucleotide Polymorphisms. Genome Medicine 2015, 7.
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@article{KalininaGenomeMed2015, TITLE = {{BALL}-{SNP}: {C}ombining Genetic and Structural Information to Identify Candidate non-Synonymous Single Nucleotide Polymorphisms}, AUTHOR = {Mueller, Sabine C. and Backes, Christina and Kalinina, Olga V. and Meder, Benjamin and St{\"o}ckel, Daniel and Lenhof, Hans-Peter and Meese, Eckart and Keller, Andreas}, LANGUAGE = {eng}, ISSN = {1756-994X}, URL = {http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4506604&tool=pmcentrez&rendertype=abstract}, DOI = {10.1186/s13073-015-0190-y}, PUBLISHER = {BioMed Central}, ADDRESS = {London}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, JOURNAL = {Genome Medicine}, VOLUME = {7}, NUMBER = {1}, EID = {65}, }
Endnote
%0 Journal Article %A Mueller, Sabine C. %A Backes, Christina %A Kalinina, Olga V. %A Meder, Benjamin %A Stöckel, Daniel %A Lenhof, Hans-Peter %A Meese, Eckart %A Keller, Andreas %+ External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations External Organizations External Organizations External Organizations %T BALL-SNP: Combining Genetic and Structural Information to Identify Candidate non-Synonymous Single Nucleotide Polymorphisms : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0028-1B2E-4 %F OTHER: accessionPMC4506604 %F OTHER: pmcidPMC4506604 %F OTHER: pmc-uid4506604 %F OTHER: publisher-id190 %R 10.1186/s13073-015-0190-y %U http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4506604&tool=pmcentrez&rendertype=abstract %7 2015-07-01 %D 2015 %8 01.07.2015 %J Genome Medicine %V 7 %N 1 %Z sequence number: 65 %I BioMed Central %C London %@ false
43. Passing NE: Advanced Runtime Analysis of Pattern Matching Algorithms. Universität des Saarlandes; 2015.
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@mastersthesis{PassingBachelor2015, TITLE = {Advanced Runtime Analysis of Pattern Matching Algorithms}, AUTHOR = {Passing, Noemi Estric}, LANGUAGE = {eng}, SCHOOL = {Universit{\"a}t des Saarlandes}, ADDRESS = {Saarbr{\"u}cken}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, TYPE = {Bachelor's thesis}, }
Endnote
%0 Thesis %A Passing, Noemi Estric %+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T Advanced Runtime Analysis of Pattern Matching Algorithms : %G eng %U http://hdl.handle.net/11858/00-001M-0000-002C-47F6-8 %I Universität des Saarlandes %C Saarbrücken %D 2015 %V bachelor %9 bachelor
44. Patterson M, Marschall T, Pisanti N, Iersel L, Stougie L, Klau GW, Schönhuth A: WhatsHap: Weighted Haplotype Assembly for Future-Generation Sequencing Reads. Journal of Computational Biology 2015, 22.
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@article{Patterson2015, TITLE = {{WhatsHap}: {W}eighted Haplotype Assembly for Future-Generation Sequencing Reads}, AUTHOR = {Patterson, Murray and Marschall, Tobias and Pisanti, Nadia and Iersel, Leo and Stougie, Leen and Klau, Gunnar W. and Sch{\"o}nhuth, Alexander}, LANGUAGE = {eng}, ISSN = {1066-5277}, DOI = {10.1089/cmb.2014.0157}, PUBLISHER = {Mary Ann Liebert}, ADDRESS = {New York, NY}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, JOURNAL = {Journal of Computational Biology}, VOLUME = {22}, NUMBER = {6}, PAGES = {498--509}, }
Endnote
%0 Journal Article %A Patterson, Murray %A Marschall, Tobias %A Pisanti, Nadia %A Iersel, Leo %A Stougie, Leen %A Klau, Gunnar W. %A Schönhuth, Alexander %+ External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations External Organizations External Organizations External Organizations %T WhatsHap: Weighted Haplotype Assembly for Future-Generation Sequencing Reads : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0029-1A80-E %R 10.1089/cmb.2014.0157 %7 2015 %D 2015 %J Journal of Computational Biology %V 22 %N 6 %& 498 %P 498 - 509 %I Mary Ann Liebert %C New York, NY %@ false
45. Pironti A, Sierra S, Kaiser R, Lengauer T, Pfeifer N: Effects of Sequence Alterations on Results from Genotypic Tropism Testing. Journal of Clinical Virology 2015, 65.
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@article{Pironti2015, TITLE = {Effects of Sequence Alterations on Results from Genotypic Tropism Testing}, AUTHOR = {Pironti, Alejandro and Sierra, Saleta and Kaiser, Rolf and Lengauer, Thomas and Pfeifer, Nico}, LANGUAGE = {eng}, ISSN = {1386-6532}, DOI = {10.1016/j.jcv.2015.02.006}, PUBLISHER = {Elsevier}, ADDRESS = {Amsterdam}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, JOURNAL = {Journal of Clinical Virology}, VOLUME = {65}, PAGES = {68--73}, }
Endnote
%0 Journal Article %A Pironti, Alejandro %A Sierra, Saleta %A Kaiser, Rolf %A Lengauer, Thomas %A Pfeifer, Nico %+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T Effects of Sequence Alterations on Results from Genotypic Tropism Testing : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0024-CFA4-1 %R 10.1016/j.jcv.2015.02.006 %7 2015-02-10 %D 2015 %8 10.02.2015 %J Journal of Clinical Virology %V 65 %& 68 %P 68 - 73 %I Elsevier %C Amsterdam %@ false
46. Poenisch M, Metz P, Blankenburg H, Ruggieri A, Lee J-Y, Rupp D, Rebhan I, Diederich K, Kaderali L, Domingues FS, Albrecht M, Lohmann V, Erfle H, Bartenschlager R: Identification of HNRNPK as Regulator of Hepatitis C Virus Particle Production. PLoS Pathogens 2015, 11.
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@article{PoenischPLoSPathog2015, TITLE = {Identification of {HNRNPK} as Regulator of Hepatitis {C} Virus Particle Production}, AUTHOR = {Poenisch, Marion and Metz, Philippe and Blankenburg, Hagen and Ruggieri, Alessia and Lee, Ji-Young and Rupp, Daniel and Rebhan, Ilka and Diederich, Kathrin and Kaderali, Lars and Domingues, Francisco S. and Albrecht, Mario and Lohmann, Volker and Erfle, Holger and Bartenschlager, Ralf}, LANGUAGE = {eng}, ISSN = {1553-7366; 1553-7374}, URL = {http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4287573&tool=pmcentrez&rendertype=abstract}, DOI = {10.1371/journal.ppat.1004573}, PUBLISHER = {Public Library of Science}, ADDRESS = {San Francisco, CA}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, JOURNAL = {PLoS Pathogens}, VOLUME = {11}, NUMBER = {1}, EID = {e1004573}, }
Endnote
%0 Journal Article %A Poenisch, Marion %A Metz, Philippe %A Blankenburg, Hagen %A Ruggieri, Alessia %A Lee, Ji-Young %A Rupp, Daniel %A Rebhan, Ilka %A Diederich, Kathrin %A Kaderali, Lars %A Domingues, Francisco S. %A Albrecht, Mario %A Lohmann, Volker %A Erfle, Holger %A Bartenschlager, Ralf %A contributor: Randall, Glenn %+ External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations External Organizations External Organizations %T Identification of HNRNPK as Regulator of Hepatitis C Virus Particle Production : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0024-9075-F %F OTHER: accessionPMC4287573 %F OTHER: pmcidPMC4287573 %F OTHER: pmc-uid4287573 %F OTHER: publisher-idPPATHOGENS-D-14-01626 %R 10.1371/journal.ppat.1004573 %U http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4287573&tool=pmcentrez&rendertype=abstract %7 2015-01-08 %D 2015 %8 08.01.2015 %J PLoS Pathogens %V 11 %N 1 %Z sequence number: e1004573 %I Public Library of Science %C San Francisco, CA %@ false
47. Pohlmann T, Baumann S, Haag C, Albrecht M, Feldbrügge M: A FYVE Zinc Finger Domain Protein Specifically Links mRNA Transport to Endosome Trafficking. eLife 2015.
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@article{Pohlmann2015, TITLE = {A {FYVE} Zinc Finger Domain Protein Specifically Links {mRNA} Transport to Endosome Trafficking}, AUTHOR = {Pohlmann, Thomas and Baumann, Sebastian and Haag, Carl and Albrecht, Mario and Feldbr{\"u}gge, Michael}, LANGUAGE = {eng}, DOI = {10.7554/eLife.06041}, PUBLISHER = {eLife Sciences Publications}, ADDRESS = {Cambridge}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, JOURNAL = {eLife}, EID = {e06041}, }
Endnote
%0 Journal Article %A Pohlmann, Thomas %A Baumann, Sebastian %A Haag, Carl %A Albrecht, Mario %A Feldbrügge, Michael %+ External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations %T A FYVE Zinc Finger Domain Protein Specifically Links mRNA Transport to Endosome Trafficking : %G eng %U http://hdl.handle.net/11858/00-001M-0000-002A-5A2D-6 %R 10.7554/eLife.06041 %7 2015 %D 2015 %J eLife %Z sequence number: e06041 %I eLife Sciences Publications %C Cambridge
48. Ramasamy P: Reconstruction of Phylogenetic Relationships between Nucleic Acid Polymerases of Viruses with RNA Genome. Universität des Saarlandes; 2015.
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@mastersthesis{Ramasamy2015, TITLE = {Reconstruction of Phylogenetic Relationships between Nucleic Acid Polymerases of Viruses with {RNA} Genome}, AUTHOR = {Ramasamy, Pathmanaban}, LANGUAGE = {eng}, SCHOOL = {Universit{\"a}t des Saarlandes}, ADDRESS = {Saarbr{\"u}cken}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, }
Endnote
%0 Thesis %A Ramasamy, Pathmanaban %+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T Reconstruction of Phylogenetic Relationships between Nucleic Acid Polymerases of Viruses with RNA Genome : %G eng %U http://hdl.handle.net/11858/00-001M-0000-002C-287F-E %I Universität des Saarlandes %C Saarbrücken %D 2015 %V master %9 master
49. Schmidl C, Rendeiro AF, Sheffield NC, Bock C: ChIPmentation: Fast, Robust, Low-input ChIP-seq for Histones and Transcription Factors. Nature Methods 2015, 12.
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@article{Schmidl2015, TITLE = {{ChIPmentation}: {Fast}, Robust, Low-input {ChIP}-seq for Histones and Transcription Factors}, AUTHOR = {Schmidl, Christian and Rendeiro, Andr{\'e} F. and Sheffield, Nathan C. and Bock, Christoph}, LANGUAGE = {eng}, ISSN = {1548-7091}, DOI = {10.1038/nmeth.3542}, PUBLISHER = {Nature Pub. Group}, ADDRESS = {New York, NY}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, JOURNAL = {Nature Methods}, VOLUME = {12}, NUMBER = {10}, PAGES = {963--965}, }
Endnote
%0 Journal Article %A Schmidl, Christian %A Rendeiro, André F. %A Sheffield, Nathan C. %A Bock, Christoph %+ External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T ChIPmentation: Fast, Robust, Low-input ChIP-seq for Histones and Transcription Factors : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0028-F6FD-C %R 10.1038/nmeth.3542 %2 PMC4589892 %7 2015 %D 2015 %J Nature Methods %O Nature methods %V 12 %N 10 %& 963 %P 963 - 965 %I Nature Pub. Group %C New York, NY %@ false
50. Schneider E, El Hajj N, Müller F, Navarro B: Epigenetic Dysregulation in the Prefrontal Cortex of Suicide Completers. Cytogenetics and Genome Research 2015, 146.
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@article{Muellerfab2015, TITLE = {Epigenetic Dysregulation in the Prefrontal Cortex of Suicide Completers}, AUTHOR = {Schneider, Ebahard and El Hajj, Nady and M{\"u}ller, Fabian and Navarro, Bianca}, LANGUAGE = {eng}, ISSN = {0301-0171}, DOI = {10.1159/000435778}, PUBLISHER = {Karger}, ADDRESS = {Basel}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, JOURNAL = {Cytogenetics and Genome Research}, VOLUME = {146}, NUMBER = {1}, PAGES = {19--27}, }
Endnote
%0 Journal Article %A Schneider, Ebahard %A El Hajj, Nady %A Müller, Fabian %A Navarro, Bianca %+ External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations %T Epigenetic Dysregulation in the Prefrontal Cortex of Suicide Completers : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0028-E0EF-0 %R 10.1159/000435778 %7 2015-09 %D 2015 %J Cytogenetics and Genome Research %O Cytogenet Genome Res. %V 146 %N 1 %& 19 %P 19 - 27 %I Karger %C Basel %@ false
51. Serra Mari R: Analyse von populationsbasiertem Haplotyp-Phasing mittels Sequenzierdaten. Universität des Saarlandes; 2015.
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@mastersthesis{SerraMariBachelor2015, TITLE = {{Analyse von populationsbasiertem Haplotyp-Phasing mittels Sequenzierdaten}}, AUTHOR = {Serra Mari, Rebecca}, LANGUAGE = {deu}, SCHOOL = {Universit{\"a}t des Saarlandes}, ADDRESS = {Saarbr{\"u}cken}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, TYPE = {Bachelor's thesis}, }
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%0 Thesis %A Serra Mari, Rebecca %+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T Analyse von populationsbasiertem Haplotyp-Phasing mittels Sequenzierdaten : %G deu %U http://hdl.handle.net/11858/00-001M-0000-002C-47FF-5 %I Universität des Saarlandes %C Saarbrücken %D 2015 %V bachelor %9 bachelor
52. Sierra S, Dybowski JN, Pironti A, Heider D, Güney L, Thielen A, Reuter S, Esser S, Fätkenheuer G, Lengauer T, Hoffmann D, Pfister H, Jensen B, Kaiser R: Parameters Influencing Baseline HIV-1 Genotypic Tropism Testing Related to Clinical Outcome in Patients on Maraviroc. PLoS ONE 2015, 10.
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@article{SierraPLoSONE2015, TITLE = {Parameters Influencing Baseline {HIV}-1 Genotypic Tropism Testing Related to Clinical Outcome in Patients on Maraviroc}, AUTHOR = {Sierra, Saleta and Dybowski, J. Nikolai and Pironti, Alejandro and Heider, Dominik and G{\"u}ney, Lisa and Thielen, Alexander and Reuter, Stefan and Esser, Stefan and F{\"a}tkenheuer, Gerd and Lengauer, Thomas and Hoffmann, Daniel and Pfister, Herbert and Jensen, Bj{\"o}rn and Kaiser, Rolf}, LANGUAGE = {eng}, ISSN = {1932-6203}, URL = {http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4430318&tool=pmcentrez&rendertype=abstract}, DOI = {10.1371/journal.pone.0125502}, PUBLISHER = {Public Library of Science}, ADDRESS = {San Francisco, CA}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, JOURNAL = {PLoS ONE}, VOLUME = {10}, NUMBER = {5}, EID = {e0125502}, }
Endnote
%0 Journal Article %A Sierra, Saleta %A Dybowski, J. Nikolai %A Pironti, Alejandro %A Heider, Dominik %A Güney, Lisa %A Thielen, Alexander %A Reuter, Stefan %A Esser, Stefan %A Fätkenheuer, Gerd %A Lengauer, Thomas %A Hoffmann, Daniel %A Pfister, Herbert %A Jensen, Björn %A Kaiser, Rolf %A contributor: Ceccherini-Silberstein, Francesca %+ External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations External Organizations External Organizations External Organizations %T Parameters Influencing Baseline HIV-1 Genotypic Tropism Testing Related to Clinical Outcome in Patients on Maraviroc : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0027-7AC3-3 %F OTHER: accessionPMC4430318 %F OTHER: pmcidPMC4430318 %F OTHER: pmc-uid4430318 %R 10.1371/journal.pone.0125502 %F OTHER: publisher-idPONE-D-14-44999 %U http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=4430318&tool=pmcentrez&rendertype=abstract %7 2015-05-13 %D 2015 %8 13.05.2015 %J PLoS ONE %V 10 %N 5 %Z sequence number: e0125502 %I Public Library of Science %C San Francisco, CA %@ false
53. Speicher NK, Pfeifer N: Integrating Different Data Types by Regularized Unsupervised Multiple Kernel Learning with Application to Cancer Subtype Discovery. Bioinformatics (Proc ISMB/ECCB 2015) 2015, 31.
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@article{SpeicherPfeifer2015, TITLE = {Integrating Different Data Types by Regularized Unsupervised Multiple Kernel Learning with Application to Cancer Subtype Discovery}, AUTHOR = {Speicher, Nora K. and Pfeifer, Nico}, LANGUAGE = {eng}, ISSN = {1367-4803}, DOI = {10.1093/bioinformatics/btv244}, PUBLISHER = {Oxford University Press}, ADDRESS = {Oxford}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, JOURNAL = {Bioinformatics (Proc. ISMB/ECCB)}, VOLUME = {31}, NUMBER = {12}, PAGES = {i268--i275}, BOOKTITLE = {ISMB/ECCB 2015}, }
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%0 Journal Article %A Speicher, Nora K. %A Pfeifer, Nico %+ Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society %T Integrating Different Data Types by Regularized Unsupervised Multiple Kernel Learning with Application to Cancer Subtype Discovery : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0027-D2E9-9 %R 10.1093/bioinformatics/btv244 %7 2015 %D 2015 %J Bioinformatics %V 31 %N 12 %& i268 %P i268 - i275 %I Oxford University Press %C Oxford %@ false %B ISMB/ECCB 2015 %O ISMB/ECCB 2015
54. Stöckel D, Schmidt F, Trampert P, Lenhof H-P: CausalTrail: Testing Hypothesis Using Causal Bayesian Networks. Faculty of 1000 Research 2015, 4.
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@article{StoeckelF1000Research2015, TITLE = {CausalTrail: Testing Hypothesis Using Causal {Bayesian} Networks}, AUTHOR = {St{\"o}ckel, Daniel and Schmidt, Florian and Trampert, Patrick and Lenhof, Hans-Peter}, LANGUAGE = {eng}, DOI = {10.12688/f1000research.7647.1}, PUBLISHER = {BioMed Central}, ADDRESS = {London}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, JOURNAL = {Faculty of 1000 Research}, VOLUME = {4}, EID = {1520}, }
Endnote
%0 Journal Article %A Stöckel, Daniel %A Schmidt, Florian %A Trampert, Patrick %A Lenhof, Hans-Peter %+ External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations %T CausalTrail: Testing Hypothesis Using Causal Bayesian Networks : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0028-F706-0 %R 10.12688/f1000research.7647.1 %7 2015 %D 2015 %J Faculty of 1000 Research %O F1000Research %V 4 %Z sequence number: 1520 %I BioMed Central %C London
55. Susser S, Flinders M, Reesink HW, Zeuzem S, Lawyer G, Ghys A, Van Eygen V, Witek J, De Meyer S, Sarrazin C: Evolution of Hepatitis C Virus Quasispecies during Repeated Treatment with the NS3/4A Protease Inhibitor Telaprevir. Antimicrobial Agents and Chemotherapy 2015, 59.
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@article{Susser2015, TITLE = {Evolution of Hepatitis {C }Virus Quasispecies during Repeated Treatment with the {NS3}/{4A} Protease Inhibitor Telaprevir}, AUTHOR = {Susser, Simone and Flinders, Mathieu and Reesink, Henk W. and Zeuzem, Stefan and Lawyer, Glenn and Ghys, Anne and Van Eygen, Veerle and Witek, James and De Meyer, Sandra and Sarrazin, Christoph}, LANGUAGE = {eng}, ISSN = {0066-4804}, DOI = {10.1128/AAC.04911-14}, PUBLISHER = {American Society for Microbiology (ASM)}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, JOURNAL = {Antimicrobial Agents and Chemotherapy}, VOLUME = {59}, NUMBER = {5}, PAGES = {2746--2755}, }
Endnote
%0 Journal Article %A Susser, Simone %A Flinders, Mathieu %A Reesink, Henk W. %A Zeuzem, Stefan %A Lawyer, Glenn %A Ghys, Anne %A Van Eygen, Veerle %A Witek, James %A De Meyer, Sandra %A Sarrazin, Christoph %+ External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations External Organizations External Organizations External Organizations %T Evolution of Hepatitis C Virus Quasispecies during Repeated Treatment with the NS3/4A Protease Inhibitor Telaprevir : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0028-1345-A %R 10.1128/AAC.04911-14 %7 2015 %D 2015 %J Antimicrobial Agents and Chemotherapy %V 59 %N 5 %& 2746 %P 2746 - 2755 %I American Society for Microbiology (ASM) %@ false
56. Tomazou EM, Sheffield NC, Schmidl C, Schuster M, Schoenegger A, Datlinger P, Kubicek S, Bock C, Kovar H: Epigenome Mapping Reveals Distinct Modes of Gene Regulation and Widespread Enhancer Reprogramming by the Oncogenic Fusion Protein EWS-FLI1. Cell Reports 2015, 10.
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@article{BockCellReports2015a, TITLE = {Epigenome Mapping Reveals Distinct Modes of Gene Regulation and Widespread Enhancer Reprogramming by the Oncogenic Fusion Protein {EWS}-{FLI1}}, AUTHOR = {Tomazou, Eleni M. and Sheffield, Nathan C. and Schmidl, Christian and Schuster, Michael and Schoenegger, Andreas and Datlinger, Paul and Kubicek, Stefan and Bock, Christoph and Kovar, Heinrich}, DOI = {10.1016/j.celrep.2015.01.042}, PUBLISHER = {Cell Press}, ADDRESS = {Cambridge, MA}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, JOURNAL = {Cell Reports}, VOLUME = {10}, NUMBER = {7}, PAGES = {1082--1095}, }
Endnote
%0 Journal Article %A Tomazou, Eleni M. %A Sheffield, Nathan C. %A Schmidl, Christian %A Schuster, Michael %A Schoenegger, Andreas %A Datlinger, Paul %A Kubicek, Stefan %A Bock, Christoph %A Kovar, Heinrich %+ external external external external external external external Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society external %T Epigenome Mapping Reveals Distinct Modes of Gene Regulation and Widespread Enhancer Reprogramming by the Oncogenic Fusion Protein EWS-FLI1 : %U http://hdl.handle.net/11858/00-001M-0000-0026-A0DB-4 %F ISI: 000349918700006 %R 10.1016/j.celrep.2015.01.042 %D 2015 %J Cell Reports %V 10 %N 7 %& 1082 %P 1082 - 1095 %I Cell Press %C Cambridge, MA
57. Wittler R, Marschall T, Schönhuth A, Mäkinen V: Repeat- and Error-aware Comparison of Deletions. Bioinformatics 2015, 31.
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@article{Marschall2015a, TITLE = {Repeat- and Error-aware Comparison of Deletions}, AUTHOR = {Wittler, Roland and Marschall, Tobias and Sch{\"o}nhuth, Alexander and M{\"a}kinen, Veli}, LANGUAGE = {eng}, ISSN = {1367-4803}, DOI = {10.1093/bioinformatics/btv304}, PUBLISHER = {Oxford University Press}, ADDRESS = {Oxford}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, JOURNAL = {Bioinformatics}, VOLUME = {31}, NUMBER = {18}, PAGES = {2947--2954}, }
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%0 Journal Article %A Wittler, Roland %A Marschall, Tobias %A Schönhuth, Alexander %A Mäkinen, Veli %+ External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations %T Repeat- and Error-aware Comparison of Deletions : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0028-E11C-4 %R 10.1093/bioinformatics/btv304 %7 2015 %D 2015 %J Bioinformatics %V 31 %N 18 %& 2947 %P 2947 - 2954 %I Oxford University Press %C Oxford %@ false
58. Wiwie C, Baumbach J, Röttger R: Comparing the Performance of Biomedical Clustering Methods. Nature Methods 2015, 12.
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@article{WiwieComparing2015, TITLE = {Comparing the Performance of Biomedical Clustering Methods}, AUTHOR = {Wiwie, Christian and Baumbach, Jan and R{\"o}ttger, Richard}, LANGUAGE = {eng}, ISSN = {1548-7091}, DOI = {10.1038/nmeth.3583}, PUBLISHER = {Nature Pub. Group}, ADDRESS = {New York, NY}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, DATE = {2015}, JOURNAL = {Nature Methods}, VOLUME = {12}, PAGES = {1033--1038}, }
Endnote
%0 Journal Article %A Wiwie, Christian %A Baumbach, Jan %A Röttger, Richard %+ External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations %T Comparing the Performance of Biomedical Clustering Methods : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0029-226E-A %R 10.1038/nmeth.3583 %7 2015 %D 2015 %J Nature Methods %O Nature methods %V 12 %& 1033 %P 1033 - 1038 %I Nature Pub. Group %C New York, NY %@ false
59. Zeke A, Bastys T, Alexa A, Garai Á, Mészáros B, Kirsch K, Dosztányi Z, Kalinina OV, Reményi A: Systematic Discovery of Linear Binding Motifs Targeting an Ancient Protein Interaction Surface on MAP Kinases. Molecular Systems Biology 2015, 11.
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@article{BastysKalinina15, TITLE = {Systematic Discovery of Linear Binding Motifs Targeting an Ancient Protein Interaction Surface on {MAP} Kinases}, AUTHOR = {Zeke, Andr{\'a}s and Bastys, Tomas and Alexa, Anita and Garai, {\'A}gnes and M{\'e}sz{\'a}ros, B{\'a}lint and Kirsch, Kl{\'a}ra and Doszt{\'a}nyi, Zsuzsanna and Kalinina, Olga V. and Rem{\'e}nyi, Attila}, LANGUAGE = {eng}, ISSN = {1744-4292}, DOI = {10.15252/msb.20156269}, PUBLISHER = {EMBO Press}, ADDRESS = {Heidelberg}, YEAR = {2015}, MARGINALMARK = {$\bullet$}, JOURNAL = {Molecular Systems Biology}, VOLUME = {11}, NUMBER = {11}, PAGES = {1--29}, EID = {837}, }
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%0 Journal Article %A Zeke, András %A Bastys, Tomas %A Alexa, Anita %A Garai, Ágnes %A Mészáros, Bálint %A Kirsch, Klára %A Dosztányi, Zsuzsanna %A Kalinina, Olga V. %A Reményi, Attila %+ External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations External Organizations External Organizations External Organizations External Organizations Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society External Organizations %T Systematic Discovery of Linear Binding Motifs Targeting an Ancient Protein Interaction Surface on MAP Kinases : %G eng %U http://hdl.handle.net/11858/00-001M-0000-0028-F563-E %R 10.15252/msb.20156269 %7 2015-11-04 %D 2015 %8 04.11.2015 %J Molecular Systems Biology %V 11 %N 11 %& 1 %P 1 - 29 %Z sequence number: 837 %I EMBO Press %C Heidelberg %@ false %U http://msb.embopress.org/content/11/11/837