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ORCIDBibTeX records: Rainer Breitling
@article{DBLP:journals/ploscb/TsigkinopoulouT20,
author = {Areti Tsigkinopoulou and
Eriko Takano and
Rainer Breitling},
title = {Unravelling the {\(\gamma\)}-butyrolactone network in Streptomyces
coelicolor by computational ensemble modelling},
journal = {PLoS Comput. Biol.},
volume = {16},
number = {7},
year = {2020},
url = {https://doi.org/10.1371/journal.pcbi.1008039},
doi = {10.1371/JOURNAL.PCBI.1008039},
timestamp = {Sat, 09 Apr 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/TsigkinopoulouT20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/CarbonellWSTTSK18,
author = {Pablo Carbonell and
Jerry Wong and
Neil Swainston and
Eriko Takano and
Nicholas J. Turner and
Nigel S. Scrutton and
Douglas B. Kell and
Rainer Breitling and
Jean{-}Loup Faulon},
title = {Selenzyme: enzyme selection tool for pathway design},
journal = {Bioinform.},
volume = {34},
number = {12},
pages = {2153--2154},
year = {2018},
url = {https://doi.org/10.1093/bioinformatics/bty065},
doi = {10.1093/BIOINFORMATICS/BTY065},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/CarbonellWSTTSK18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/CarratoreJEHHB17,
author = {Francesco Del Carratore and
Andris Jankevics and
Rob Eisinga and
Tom Heskes and
Fangxin Hong and
Rainer Breitling},
title = {RankProd 2.0: a refactored bioconductor package for detecting differentially
expressed features in molecular profiling datasets},
journal = {Bioinform.},
volume = {33},
number = {17},
pages = {2774--2775},
year = {2017},
url = {https://doi.org/10.1093/bioinformatics/btx292},
doi = {10.1093/BIOINFORMATICS/BTX292},
timestamp = {Sun, 12 Nov 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/CarratoreJEHHB17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/BlinWCLSKDSKNDM17,
author = {Kai Blin and
Thomas Wolf and
Marc G. Chevrette and
Xiaowen Lu and
Christopher J. Schwalen and
Satria A. Kautsar and
Hernando G. Suarez Duran and
Emmanuel L. C. de los Santos and
Hyun Uk Kim and
Mariana Nave and
Jeroen S. Dickschat and
Douglas A. Mitchell and
Ekaterina Shelest and
Rainer Breitling and
Eriko Takano and
Sang Yup Lee and
Tilmann Weber and
Marnix H. Medema},
title = {antiSMASH 4.0 - improvements in chemistry prediction and gene cluster
boundary identification},
journal = {Nucleic Acids Res.},
volume = {45},
number = {Webserver-Issue},
pages = {W36--W41},
year = {2017},
url = {https://doi.org/10.1093/nar/gkx319},
doi = {10.1093/NAR/GKX319},
timestamp = {Sat, 05 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/BlinWCLSKDSKNDM17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/peerj-cs/SwainstonCGBDK17,
author = {Neil Swainston and
Andrew Currin and
Lucy Green and
Rainer Breitling and
Philip J. Day and
Douglas B. Kell},
title = {CodonGenie: optimised ambiguous codon design tools},
journal = {PeerJ Comput. Sci.},
volume = {3},
pages = {e120},
year = {2017},
url = {https://doi.org/10.7717/peerj-cs.120},
doi = {10.7717/PEERJ-CS.120},
timestamp = {Mon, 18 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/peerj-cs/SwainstonCGBDK17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/peerjpre/SwainstonCGBDK17,
author = {Neil Swainston and
Andrew Currin and
Lucy Green and
Rainer Breitling and
Philip J. Day and
Douglas B. Kell},
title = {CodonGenie: optimised ambiguous codon design tools},
journal = {PeerJ Prepr.},
volume = {5},
pages = {e2797},
year = {2017},
url = {https://doi.org/10.7287/peerj.preprints.2797v1},
doi = {10.7287/PEERJ.PREPRINTS.2797V1},
timestamp = {Thu, 09 Jul 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/peerjpre/SwainstonCGBDK17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/WandyDBR15,
author = {Joe Wandy and
R{\'{o}}n{\'{a}}n Daly and
Rainer Breitling and
Simon Rogers},
title = {Incorporating peak grouping information for alignment of multiple
liquid chromatography-mass spectrometry datasets},
journal = {Bioinform.},
volume = {31},
number = {12},
pages = {1999--2006},
year = {2015},
url = {https://doi.org/10.1093/bioinformatics/btv072},
doi = {10.1093/BIOINFORMATICS/BTV072},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/WandyDBR15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/ShameerLVCMABBBBBCBCCKDEFFGHKMMNNNOSSTTUHVWWOBJ15,
author = {Sanu Shameer and
Flora J. Logan{-}Klumpler and
Florence Vinson and
Ludovic Cottret and
Benjamin Merlet and
Fiona Achcar and
Michael Boshart and
Matthew Berriman and
Rainer Breitling and
Fr{\'{e}}d{\'{e}}ric Bringaud and
Peter B{\"{u}}tikofer and
Amy M. Cattanach and
Bridget Bannerman{-}Chukualim and
Darren J. Creek and
Kathryn Crouch and
Harry P. de Koning and
Hubert Denise and
Charles Ebikeme and
Alan H. Fairlamb and
Michael A. J. Ferguson and
Michael L. Ginger and
Christiane Hertz{-}Fowler and
Eduard J. Kerkhoven and
Pascal M{\"{a}}ser and
Paul A. M. Michels and
Archana Nayak and
David W. Nes and
Derek P. Nolan and
Christian Olsen and
Fatima Silva{-}Franco and
Terry K. Smith and
Martin C. Taylor and
Aloysius G. M. Tielens and
Michael D. Urbaniak and
Jaap J. van Hellemond and
Isabel M. Vincent and
Shane R. Wilkinson and
Susan Wyllie and
Fred R. Opperdoes and
Michael P. Barrett and
Fabien Jourdan},
title = {TrypanoCyc: a community-led biochemical pathways database for \emph{Trypanosoma
brucei}},
journal = {Nucleic Acids Res.},
volume = {43},
number = {Database-Issue},
pages = {637--644},
year = {2015},
url = {https://doi.org/10.1093/nar/gku944},
doi = {10.1093/NAR/GKU944},
timestamp = {Sun, 02 Oct 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/ShameerLVCMABBBBBCBCCKDEFFGHKMMNNNOSSTTUHVWWOBJ15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/WeberBDKKBLFMWB15,
author = {Tilmann Weber and
Kai Blin and
Srikanth Duddela and
Daniel Krug and
Hyun Uk Kim and
Robert E. Bruccoleri and
Sang Yup Lee and
Michael A. Fischbach and
Rolf M{\"{u}}ller and
Wolfgang Wohlleben and
Rainer Breitling and
Eriko Takano and
Marnix H. Medema},
title = {antiSMASH 3.0 - a comprehensive resource for the genome mining of
biosynthetic gene clusters},
journal = {Nucleic Acids Res.},
volume = {43},
number = {Webserver-Issue},
pages = {W237--W243},
year = {2015},
url = {https://doi.org/10.1093/nar/gkv437},
doi = {10.1093/NAR/GKV437},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/WeberBDKKBLFMWB15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/DalyRWJBB14,
author = {R{\'{o}}n{\'{a}}n Daly and
Simon Rogers and
Joe Wandy and
Andris Jankevics and
Karl E. V. Burgess and
Rainer Breitling},
title = {MetAssign: probabilistic annotation of metabolites from {LC-MS} data
using a Bayesian clustering approach},
journal = {Bioinform.},
volume = {30},
number = {19},
pages = {2764--2771},
year = {2014},
url = {https://doi.org/10.1093/bioinformatics/btu370},
doi = {10.1093/BIOINFORMATICS/BTU370},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/DalyRWJBB14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/HeskesEB14,
author = {Tom Heskes and
Rob Eisinga and
Rainer Breitling},
title = {A fast algorithm for determining bounds and accurate approximate p-values
of the rank product statistic for replicate experiments},
journal = {{BMC} Bioinform.},
volume = {15},
pages = {367},
year = {2014},
url = {https://doi.org/10.1186/s12859-014-0367-1},
doi = {10.1186/S12859-014-0367-1},
timestamp = {Sun, 12 Nov 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/HeskesEB14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/MedemaPNMDTB14,
author = {Marnix H. Medema and
Yared Paalvast and
Don D. Nguyen and
Alexey Melnik and
Pieter C. Dorrestein and
Eriko Takano and
Rainer Breitling},
title = {Pep2Path: Automated Mass Spectrometry-Guided Genome Mining of Peptidic
Natural Products},
journal = {PLoS Comput. Biol.},
volume = {10},
number = {9},
year = {2014},
url = {https://doi.org/10.1371/journal.pcbi.1003822},
doi = {10.1371/JOURNAL.PCBI.1003822},
timestamp = {Mon, 26 Sep 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/MedemaPNMDTB14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ChokkathukalamJCABB13,
author = {Achuthanunni Chokkathukalam and
Andris Jankevics and
Darren J. Creek and
Fiona Achcar and
Michael P. Barrett and
Rainer Breitling},
title = {mzMatch-ISO: an {R} tool for the annotation and relative quantification
of isotope-labelled mass spectrometry data},
journal = {Bioinform.},
volume = {29},
number = {2},
pages = {281--283},
year = {2013},
url = {https://doi.org/10.1093/bioinformatics/bts674},
doi = {10.1093/BIOINFORMATICS/BTS674},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/ChokkathukalamJCABB13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/computation/SchwarzBA13,
author = {Karlheinz Schwarz and
Rainer Breitling and
Christian Allen},
title = {\emph{Computation}: {A} New Open Access Journal of Computational Chemistry,
Computational Biology and Computational Engineering},
journal = {Comput.},
volume = {1},
number = {2},
pages = {27--30},
year = {2013},
url = {https://doi.org/10.3390/computation1020027},
doi = {10.3390/COMPUTATION1020027},
timestamp = {Thu, 01 Oct 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/computation/SchwarzBA13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/BlinMKFBTW13,
author = {Kai Blin and
Marnix H. Medema and
Daniyal Kazempour and
Michael A. Fischbach and
Rainer Breitling and
Eriko Takano and
Tilmann Weber},
title = {antiSMASH 2.0 - a versatile platform for genome mining of secondary
metabolite producers},
journal = {Nucleic Acids Res.},
volume = {41},
number = {Webserver-Issue},
pages = {204--212},
year = {2013},
url = {https://doi.org/10.1093/nar/gkt449},
doi = {10.1093/NAR/GKT449},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/BlinMKFBTW13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/KerkhovenAABGTDGBBB13,
author = {Eduard J. Kerkhoven and
Fiona Achcar and
Vincent P. Alibu and
Richard J. Burchmore and
Ian H. Gilbert and
Maciej Trybilo and
Nicole N. Driessen and
David R. Gilbert and
Rainer Breitling and
Barbara M. Bakker and
Michael P. Barrett},
title = {Handling Uncertainty in Dynamic Models: The Pentose Phosphate Pathway
in \emph{Trypanosoma brucei}},
journal = {PLoS Comput. Biol.},
volume = {9},
number = {12},
year = {2013},
url = {https://doi.org/10.1371/journal.pcbi.1003371},
doi = {10.1371/JOURNAL.PCBI.1003371},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/KerkhovenAABGTDGBBB13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/CreekJBBB12,
author = {Darren J. Creek and
Andris Jankevics and
Karl E. V. Burgess and
Rainer Breitling and
Michael P. Barrett},
title = {{IDEOM:} an Excel interface for analysis of LC-MS-based metabolomics
data},
journal = {Bioinform.},
volume = {28},
number = {7},
pages = {1048--1049},
year = {2012},
url = {https://doi.org/10.1093/bioinformatics/bts069},
doi = {10.1093/BIOINFORMATICS/BTS069},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/CreekJBBB12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ploscb/AchcarKBBB12,
author = {Fiona Achcar and
Eduard J. Kerkhoven and
Barbara M. Bakker and
Michael P. Barrett and
Rainer Breitling},
title = {Dynamic Modelling under Uncertainty: The Case of \emph{Trypanosoma
brucei} Energy Metabolism},
journal = {PLoS Comput. Biol.},
volume = {8},
number = {1},
year = {2012},
url = {https://doi.org/10.1371/journal.pcbi.1002352},
doi = {10.1371/JOURNAL.PCBI.1002352},
timestamp = {Thu, 10 Sep 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ploscb/AchcarKBBB12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/nar/MedemaBCJZFWTB11,
author = {Marnix H. Medema and
Kai Blin and
Peter Cimermancic and
Victor de Jager and
Piotr Zakrzewski and
Michael A. Fischbach and
Tilmann Weber and
Eriko Takano and
Rainer Breitling},
title = {antiSMASH: rapid identification, annotation and analysis of secondary
metabolite biosynthesis gene clusters in bacterial and fungal genome
sequences},
journal = {Nucleic Acids Res.},
volume = {39},
number = {Web-Server-Issue},
pages = {339--346},
year = {2011},
url = {https://doi.org/10.1093/nar/gkr466},
doi = {10.1093/NAR/GKR466},
timestamp = {Sun, 17 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/nar/MedemaBCJZFWTB11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/dagstuhl-reports/BreitlingBPU11,
author = {Rainer Breitling and
Frank J. Bruggeman and
Corrado Priami and
Adelinde M. Uhrmacher},
title = {Formal Methods in Molecular Biology (Dagstuhl Seminar 11151)},
journal = {Dagstuhl Reports},
volume = {1},
number = {4},
pages = {41--64},
year = {2011},
url = {https://doi.org/10.4230/DagRep.1.4.41},
doi = {10.4230/DAGREP.1.4.41},
timestamp = {Wed, 07 Jun 2017 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/dagstuhl-reports/BreitlingBPU11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/TessonBJ10,
author = {Bruno M. Tesson and
Rainer Breitling and
Ritsert C. Jansen},
title = {DiffCoEx: a simple and sensitive method to find differentially coexpressed
gene modules},
journal = {{BMC} Bioinform.},
volume = {11},
pages = {497},
year = {2010},
url = {https://doi.org/10.1186/1471-2105-11-497},
doi = {10.1186/1471-2105-11-497},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/TessonBJ10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/ZhangSB10,
author = {Mi Zhang and
William R. Schafer and
Rainer Breitling},
title = {A circuit model of the temporal pattern generator of Caenorhabditis
egg-laying behavior},
journal = {{BMC} Syst. Biol.},
volume = {4},
pages = {81},
year = {2010},
url = {https://doi.org/10.1186/1752-0509-4-81},
doi = {10.1186/1752-0509-4-81},
timestamp = {Tue, 05 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcsb/ZhangSB10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcsb/BreitlingDGH10,
author = {Rainer Breitling and
Robin Donaldson and
David R. Gilbert and
Monika Heiner},
title = {Biomodel Engineering - From Structure to Behavior},
journal = {Trans. Comp. Sys. Biology},
volume = {12},
pages = {1--12},
year = {2010},
url = {https://doi.org/10.1007/978-3-642-11712-1\_1},
doi = {10.1007/978-3-642-11712-1\_1},
timestamp = {Thu, 14 May 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcsb/BreitlingDGH10.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@proceedings{DBLP:journals/tcsb/2010-12,
editor = {Corrado Priami and
Rainer Breitling and
David R. Gilbert and
Monika Heiner and
Adelinde M. Uhrmacher},
title = {Transactions on Computational Systems Biology XII, Special Issue on
Modeling Methodologies},
series = {Lecture Notes in Computer Science},
volume = {5945},
publisher = {Springer},
year = {2010},
url = {https://doi.org/10.1007/978-3-642-11712-1},
doi = {10.1007/978-3-642-11712-1},
isbn = {978-3-642-11711-4},
timestamp = {Tue, 14 May 2019 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcsb/2010-12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/RogersSGB09,
author = {Simon Rogers and
Richard A. Scheltema and
Mark A. Girolami and
Rainer Breitling},
title = {Probabilistic assignment of formulas to mass peaks in metabolomics
experiments},
journal = {Bioinform.},
volume = {25},
number = {4},
pages = {512--518},
year = {2009},
url = {https://doi.org/10.1093/bioinformatics/btn642},
doi = {10.1093/BIOINFORMATICS/BTN642},
timestamp = {Tue, 29 Dec 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/RogersSGB09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/LiSVFBJ09,
author = {Yang Li and
Morris A. Swertz and
Gonzalo Vera and
Jingyuan Fu and
Rainer Breitling and
Ritsert C. Jansen},
title = {designGG: an R-package and web tool for the optimal design of genetical
genomics experiments},
journal = {{BMC} Bioinform.},
volume = {10},
year = {2009},
url = {https://doi.org/10.1186/1471-2105-10-188},
doi = {10.1186/1471-2105-10-188},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/LiSVFBJ09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@proceedings{DBLP:conf/dagstuhl/2009P9091,
editor = {Rainer Breitling and
David Roger Gilbert and
Monika Heiner and
Corrado Priami},
title = {Formal Methods in Molecular Biology, 22.02. - 27.02.2009},
series = {Dagstuhl Seminar Proceedings},
volume = {09091},
publisher = {Schloss Dagstuhl - Leibniz-Zentrum f{\"{u}}r Informatik, Germany},
year = {2009},
url = {http://drops.dagstuhl.de/portals/09091/},
timestamp = {Thu, 10 Jun 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/dagstuhl/2009P9091.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/dagstuhl/BreitlingGHP09,
author = {Rainer Breitling and
David Roger Gilbert and
Monika Heiner and
Corrado Priami},
editor = {Rainer Breitling and
David Roger Gilbert and
Monika Heiner and
Corrado Priami},
title = {09091 Abstracts Collection - Formal Methods in Molecular Biology},
booktitle = {Formal Methods in Molecular Biology, 22.02. - 27.02.2009},
series = {Dagstuhl Seminar Proceedings},
volume = {09091},
publisher = {Schloss Dagstuhl - Leibniz-Zentrum f{\"{u}}r Informatik, Germany},
year = {2009},
url = {http://drops.dagstuhl.de/opus/volltexte/2009/1997/},
timestamp = {Thu, 10 Jun 2021 13:02:05 +0200},
biburl = {https://dblp.org/rec/conf/dagstuhl/BreitlingGHP09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/dagstuhl/BreitlingGHP09a,
author = {Rainer Breitling and
David Roger Gilbert and
Monika Heiner and
Corrado Priami},
editor = {Rainer Breitling and
David Roger Gilbert and
Monika Heiner and
Corrado Priami},
title = {09091 Executive Summary - Formal Methods in Molecular Biology},
booktitle = {Formal Methods in Molecular Biology, 22.02. - 27.02.2009},
series = {Dagstuhl Seminar Proceedings},
volume = {09091},
publisher = {Schloss Dagstuhl - Leibniz-Zentrum f{\"{u}}r Informatik, Germany},
year = {2009},
url = {http://drops.dagstuhl.de/opus/volltexte/2009/1996/},
timestamp = {Thu, 23 Aug 2018 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/dagstuhl/BreitlingGHP09a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/dagstuhl/GilbertBH09,
author = {David Roger Gilbert and
Rainer Breitling and
Monika Heiner},
editor = {Rainer Breitling and
David Roger Gilbert and
Monika Heiner and
Corrado Priami},
title = {BioModel Engineering: Its role in Systems Biology and Synthetic Biology},
booktitle = {Formal Methods in Molecular Biology, 22.02. - 27.02.2009},
series = {Dagstuhl Seminar Proceedings},
volume = {09091},
publisher = {Schloss Dagstuhl - Leibniz-Zentrum f{\"{u}}r Informatik, Germany},
year = {2009},
url = {http://drops.dagstuhl.de/opus/volltexte/2009/1992/},
timestamp = {Thu, 23 Aug 2018 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/dagstuhl/GilbertBH09.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/BreitlingGHO08,
author = {Rainer Breitling and
David R. Gilbert and
Monika Heiner and
Richard J. Orton},
title = {A structured approach for the engineering of biochemical network models,
illustrated for signalling pathways},
journal = {Briefings Bioinform.},
volume = {9},
number = {5},
pages = {404--421},
year = {2008},
url = {https://doi.org/10.1093/bib/bbn026},
doi = {10.1093/BIB/BBN026},
timestamp = {Thu, 04 Jun 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/BreitlingGHO08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/JourdanBBG08,
author = {Fabien Jourdan and
Rainer Breitling and
Michael P. Barrett and
David R. Gilbert},
title = {MetaNetter: inference and visualization of high-resolution metabolomic
networks},
journal = {Bioinform.},
volume = {24},
number = {1},
pages = {143--145},
year = {2008},
url = {https://doi.org/10.1093/bioinformatics/btm536},
doi = {10.1093/BIOINFORMATICS/BTM536},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/JourdanBBG08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/HongB08,
author = {Fangxin Hong and
Rainer Breitling},
title = {A comparison of meta-analysis methods for detecting differentially
expressed genes in microarray experiments},
journal = {Bioinform.},
volume = {24},
number = {3},
pages = {374--382},
year = {2008},
url = {https://doi.org/10.1093/bioinformatics/btm620},
doi = {10.1093/BIOINFORMATICS/BTM620},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/HongB08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/membrane/GilbertBHD08,
author = {David R. Gilbert and
Rainer Breitling and
Monika Heiner and
Robin Donaldson},
editor = {David W. Corne and
Pierluigi Frisco and
Gheorghe Paun and
Grzegorz Rozenberg and
Arto Salomaa},
title = {An Introduction to BioModel Engineering, Illustrated for Signal Transduction
Pathways},
booktitle = {Membrane Computing - 9th International Workshop, {WMC} 2008, Edinburgh,
UK, July 28-31, 2008, Revised Selected and Invited Papers},
series = {Lecture Notes in Computer Science},
volume = {5391},
pages = {13--28},
publisher = {Springer},
year = {2008},
url = {https://doi.org/10.1007/978-3-540-95885-7\_2},
doi = {10.1007/978-3-540-95885-7\_2},
timestamp = {Tue, 14 May 2019 10:00:48 +0200},
biburl = {https://dblp.org/rec/conf/membrane/GilbertBHD08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/BlomBHBTSRK07,
author = {Evert{-}Jan Blom and
Dinne W. J. Bosman and
Sacha A. F. T. van Hijum and
Rainer Breitling and
Lars Tijsma and
Remko Silvis and
Jos B. T. M. Roerdink and
Oscar P. Kuipers},
title = {{FIVA:} Functional Information Viewer and Analyzer extracting biological
knowledge from transcriptome data of prokaryotes},
journal = {Bioinform.},
volume = {23},
number = {9},
pages = {1161--1163},
year = {2007},
url = {https://doi.org/10.1093/bioinformatics/btl658},
doi = {10.1093/BIOINFORMATICS/BTL658},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/BlomBHBTSRK07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/AlbertsTHBHBNJ07,
author = {Rudi Alberts and
Peter Terpstra and
Menno Hardonk and
Leonid V. Bystrykh and
Gerald de Haan and
Rainer Breitling and
Jan Peter Nap and
Ritsert C. Jansen},
title = {A verification protocol for the probe sequences of Affymetrix genome
arrays reveals high probe accuracy for studies in mouse, human and
rat},
journal = {{BMC} Bioinform.},
volume = {8},
year = {2007},
url = {https://doi.org/10.1186/1471-2105-8-132},
doi = {10.1186/1471-2105-8-132},
timestamp = {Mon, 26 Oct 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/AlbertsTHBHBNJ07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ideal/BiehlBL07,
author = {Michael Biehl and
Rainer Breitling and
Yang Li},
editor = {Hujun Yin and
Peter Ti{\~{n}}o and
Emilio Corchado and
William Byrne and
Xin Yao},
title = {Analysis of Tiling Microarray Data by Learning Vector Quantization
and Relevance Learning},
booktitle = {Intelligent Data Engineering and Automated Learning - {IDEAL} 2007,
8th International Conference, Birmingham, UK, December 16-19, 2007,
Proceedings},
series = {Lecture Notes in Computer Science},
volume = {4881},
pages = {880--889},
publisher = {Springer},
year = {2007},
url = {https://doi.org/10.1007/978-3-540-77226-2\_88},
doi = {10.1007/978-3-540-77226-2\_88},
timestamp = {Tue, 21 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/ideal/BiehlBL07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ideal/Al-ShahibGB07,
author = {Ali Al{-}Shahib and
David R. Gilbert and
Rainer Breitling},
editor = {Hujun Yin and
Peter Ti{\~{n}}o and
Emilio Corchado and
William Byrne and
Xin Yao},
title = {Discriminating Microbial Species Using Protein Sequence Properties
and Machine Learning},
booktitle = {Intelligent Data Engineering and Automated Learning - {IDEAL} 2007,
8th International Conference, Birmingham, UK, December 16-19, 2007,
Proceedings},
series = {Lecture Notes in Computer Science},
volume = {4881},
pages = {890--897},
publisher = {Springer},
year = {2007},
url = {https://doi.org/10.1007/978-3-540-77226-2\_89},
doi = {10.1007/978-3-540-77226-2\_89},
timestamp = {Wed, 14 Nov 2018 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/ideal/Al-ShahibGB07.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/MorrisonBHG06,
author = {Julie L. Morrison and
Rainer Breitling and
Desmond J. Higham and
David R. Gilbert},
title = {A lock-and-key model for protein-protein interactions},
journal = {Bioinform.},
volume = {22},
number = {16},
pages = {2012--2019},
year = {2006},
url = {https://doi.org/10.1093/bioinformatics/btl338},
doi = {10.1093/BIOINFORMATICS/BTL338},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/MorrisonBHG06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/HongBMWNC06,
author = {Fangxin Hong and
Rainer Breitling and
Connor W. McEntee and
Ben S. Wittner and
Jennifer L. Nemhauser and
Joanne Chory},
title = {RankProd: a bioconductor package for detecting differentially expressed
genes in meta-analysis},
journal = {Bioinform.},
volume = {22},
number = {22},
pages = {2825--2827},
year = {2006},
url = {https://doi.org/10.1093/bioinformatics/btl476},
doi = {10.1093/BIOINFORMATICS/BTL476},
timestamp = {Mon, 02 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/HongBMWNC06.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/BreitlingAA05,
author = {Rainer Breitling and
Patrick Armengaud and
Anna Amtmann},
title = {Vector analysis as a fast and easy method to compare gene expression
responses between different experimental backgrounds},
journal = {{BMC} Bioinform.},
volume = {6},
pages = {181},
year = {2005},
url = {https://doi.org/10.1186/1471-2105-6-181},
doi = {10.1186/1471-2105-6-181},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/BreitlingAA05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/MorrisonBHG05,
author = {Julie L. Morrison and
Rainer Breitling and
Desmond J. Higham and
David R. Gilbert},
title = {GeneRank: Using search engine technology for the analysis of microarray
experiments},
journal = {{BMC} Bioinform.},
volume = {6},
pages = {233},
year = {2005},
url = {https://doi.org/10.1186/1471-2105-6-233},
doi = {10.1186/1471-2105-6-233},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/MorrisonBHG05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ijns/Al-ShahibBG05,
author = {Ali Al{-}Shahib and
Rainer Breitling and
David R. Gilbert},
title = {Franksum: new feature selection method for protein function prediction},
journal = {Int. J. Neural Syst.},
volume = {15},
number = {4},
pages = {259--275},
year = {2005},
url = {https://doi.org/10.1142/S0129065705000281},
doi = {10.1142/S0129065705000281},
timestamp = {Wed, 14 Nov 2018 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ijns/Al-ShahibBG05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jbcb/BreitlingH05,
author = {Rainer Breitling and
Pawel Herzyk},
title = {Rank-based Methods as a Non-parametric Alternative of the T-statistic
for the Analysis of Biological Microarray Data},
journal = {J. Bioinform. Comput. Biol.},
volume = {3},
number = {5},
pages = {1171--1190},
year = {2005},
url = {https://doi.org/10.1142/S0219720005001442},
doi = {10.1142/S0219720005001442},
timestamp = {Thu, 04 Jun 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jbcb/BreitlingH05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcbb/RogersGCB05,
author = {Simon Rogers and
Mark A. Girolami and
Colin Campbell and
Rainer Breitling},
title = {The Latent Process Decomposition of cDNA Microarray Data Sets},
journal = {{IEEE} {ACM} Trans. Comput. Biol. Bioinform.},
volume = {2},
number = {2},
pages = {143--156},
year = {2005},
url = {https://doi.org/10.1109/TCBB.2005.29},
doi = {10.1109/TCBB.2005.29},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcbb/RogersGCB05.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/GirolamiB04,
author = {Mark A. Girolami and
Rainer Breitling},
title = {Biologically valid linear factor models of gene expression},
journal = {Bioinform.},
volume = {20},
number = {17},
pages = {3021--3033},
year = {2004},
url = {https://doi.org/10.1093/bioinformatics/bth354},
doi = {10.1093/BIOINFORMATICS/BTH354},
timestamp = {Tue, 29 Dec 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/GirolamiB04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/BreitlingAH04,
author = {Rainer Breitling and
Anna Amtmann and
Pawel Herzyk},
title = {Iterative Group Analysis (iGA): {A} simple tool to enhance sensitivity
and facilitate interpretation of microarray experiments},
journal = {{BMC} Bioinform.},
volume = {5},
pages = {34},
year = {2004},
url = {https://doi.org/10.1186/1471-2105-5-34},
doi = {10.1186/1471-2105-5-34},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/BreitlingAH04.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/BreitlingAH04a,
author = {Rainer Breitling and
Anna Amtmann and
Pawel Herzyk},
title = {Graph-based iterative Group Analysis enhances microarray interpretation},
journal = {{BMC} Bioinform.},
volume = {5},
pages = {100},
year = {2004},
url = {https://doi.org/10.1186/1471-2105-5-100},
doi = {10.1186/1471-2105-5-100},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/BreitlingAH04a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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