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ORCIDBibTeX records: Irina Balaur
@article{DBLP:journals/bioinformatics/RougnyBLM23,
author = {Adrien Rougny and
Irina Balaur and
Augustin Luna and
Alexander Mazein},
title = {StonPy: a tool to parse and query collections of {SBGN} maps in a
graph database},
journal = {Bioinform.},
volume = {39},
number = {3},
year = {2023},
url = {https://doi.org/10.1093/bioinformatics/btad100},
doi = {10.1093/BIOINFORMATICS/BTAD100},
timestamp = {Fri, 22 Mar 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/RougnyBLM23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/fbinf/MazeinABRWNADGSGKSO23,
author = {Alexander Mazein and
Marcio Luis Acencio and
Irina Balaur and
Adrien Rougny and
Danielle Welter and
Anna Niarakis and
Diana Ramirez Ardila and
Ugur Dogrusoz and
Piotr Gawron and
Venkata P. Satagopam and
Wei Gu and
Andreas Kremer and
Reinhard Schneider and
Marek Ostaszewski},
title = {A guide for developing comprehensive systems biology maps of disease
mechanisms: planning, construction and maintenance},
journal = {Frontiers Bioinform.},
volume = {3},
year = {2023},
url = {https://doi.org/10.3389/fbinf.2023.1197310},
doi = {10.3389/FBINF.2023.1197310},
timestamp = {Mon, 05 Feb 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/fbinf/MazeinABRWNADGSGKSO23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/cordi/WaltemathIMSB23,
author = {Dagmar Waltemath and
Esther Thea Inau and
Lea Michaelis and
Venkata P. Satagopam and
Irina Balaur},
editor = {York Sure{-}Vetter and
Carole A. Goble},
title = {Experiences From FAIRifying Community Data and {FAIR} Infrastructure
in Biomedical Research Domains},
booktitle = {1st Conference on Research Data Infrastructure - Connecting Communities,
CoRDI 2023, Karlsruhe, Germany, September 12-14, 2023},
publisher = {{TIB} Open Publishing},
year = {2023},
url = {https://doi.org/10.52825/cordi.v1i.415},
doi = {10.52825/CORDI.V1I.415},
timestamp = {Sat, 21 Oct 2023 10:46:27 +0200},
biburl = {https://dblp.org/rec/conf/cordi/WaltemathIMSB23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jib/BalaurRTMA22,
author = {Irina Balaur and
Ludovic Roy and
Vasundra Tour{\'{e}} and
Alexander Mazein and
Charles Auffray},
title = {GraphML-SBGN bidirectional converter for metabolic networks},
journal = {J. Integr. Bioinform.},
volume = {19},
number = {4},
year = {2022},
url = {https://doi.org/10.1515/jib-2022-0030},
doi = {10.1515/JIB-2022-0030},
timestamp = {Tue, 31 Jan 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jib/BalaurRTMA22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/SiebenhallerNMB20,
author = {Martin Siebenhaller and
Sune S. Nielsen and
Fintan McGee and
Irina Balaur and
Charles Auffray and
Alexander Mazein},
title = {Human-like layout algorithms for signalling hypergraphs: outlining
requirements},
journal = {Briefings Bioinform.},
volume = {21},
number = {1},
pages = {62--72},
year = {2020},
url = {https://doi.org/10.1093/bib/bby099},
doi = {10.1093/BIB/BBY099},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bib/SiebenhallerNMB20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/BalaurRMKDBZ20,
author = {Irina Balaur and
Ludovic Roy and
Alexander Mazein and
S. G{\"{o}}kberk Karaca and
Ugur Dogrusoz and
Emmanuel Barillot and
Andrei Yu. Zinovyev},
title = {cd2sbgnml: bidirectional conversion between CellDesigner and {SBGN}
formats},
journal = {Bioinform.},
volume = {36},
number = {8},
pages = {2620--2622},
year = {2020},
url = {https://doi.org/10.1093/bioinformatics/btz969},
doi = {10.1093/BIOINFORMATICS/BTZ969},
timestamp = {Fri, 25 Dec 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/BalaurRMKDBZ20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/BalaurRMKDBZ20a,
author = {Irina Balaur and
Ludovic Roy and
Alexander Mazein and
S. G{\"{o}}kberk Karaca and
Ugur Dogrusoz and
Emmanuel Barillot and
Andrei Yu. Zinovyev},
title = {cd2sbgnml: bidirectional conversion between CellDesigner and {SBGN}
formats},
journal = {Bioinform.},
volume = {36},
number = {19},
pages = {4975},
year = {2020},
url = {https://doi.org/10.1093/bioinformatics/btaa528},
doi = {10.1093/BIOINFORMATICS/BTAA528},
timestamp = {Fri, 25 Dec 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/BalaurRMKDBZ20a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jib/RougnyTMBCBDMDB19,
author = {Adrien Rougny and
Vasundra Tour{\'{e}} and
Stuart L. Moodie and
Irina Balaur and
Tobias Czauderna and
Hanna Borlinghaus and
Ugur Dogrusoz and
Alexander Mazein and
Andreas Dr{\"{a}}ger and
Michael L. Blinov and
Alice Vill{\'{e}}ger and
Robin Haw and
Emek Demir and
Huaiyu Mi and
Anatoly A. Sorokin and
Falk Schreiber and
Augustin Luna},
title = {Systems Biology Graphical Notation: Process Description language Level
1 Version 2.0},
journal = {J. Integr. Bioinform.},
volume = {16},
number = {2},
year = {2019},
url = {https://doi.org/10.1515/jib-2019-0022},
doi = {10.1515/JIB-2019-0022},
timestamp = {Tue, 14 Jul 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jib/RougnyTMBCBDMDB19.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcsb/MeulderLBMCABSP18,
author = {Bertrand De Meulder and
Diane Lefaudeux and
Aruna T. Bansal and
Alexander Mazein and
Amphun Chaiboonchoe and
Hassan Ahmed and
Irina Balaur and
Mansoor A. S. Saqi and
Johann Pellet and
St{\'{e}}phane Ballereau and
Nathana{\"{e}}l Lemonnier and
Kai Sun and
Ioannis Pandis and
Xian Yang and
Manohara Batuwitage and
Kosmas Kretsos and
Jonathan van Eyll and
Alun Bedding and
Timothy Davison and
Paul Dodson and
Christopher Larminie and
Anthony D. Postle and
Julie Corfield and
Ratko Djukanovic and
Kian Fan Chung and
Ian M. Adcock and
Yike Guo and
Peter J. Sterk and
Alexander Manta and
Anthony Rowe and
Fr{\'{e}}d{\'{e}}ric Baribaud and
Charles Auffray},
title = {A computational framework for complex disease stratification from
multiple large-scale datasets},
journal = {{BMC} Syst. Biol.},
volume = {12},
number = {1},
pages = {60:1--60:23},
year = {2018},
url = {https://doi.org/10.1186/s12918-018-0556-z},
doi = {10.1186/S12918-018-0556-Z},
timestamp = {Mon, 22 May 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bmcsb/MeulderLBMCABSP18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/BalaurMSLR17,
author = {Irina Balaur and
Alexander Mazein and
Mansoor A. S. Saqi and
Artem Lysenko and
Christopher J. Rawlings},
title = {Recon2Neo4j: applying graph database technologies for managing comprehensive
genome-scale networks},
journal = {Bioinform.},
volume = {33},
number = {7},
pages = {1096--1098},
year = {2017},
url = {https://doi.org/10.1093/bioinformatics/btw731},
doi = {10.1093/BIOINFORMATICS/BTW731},
timestamp = {Tue, 28 Feb 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bioinformatics/BalaurMSLR17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcb/BalaurSBLMRRA17,
author = {Irina Balaur and
Mansoor A. S. Saqi and
Ana Barat and
Artem Lysenko and
Alexander Mazein and
Christopher J. Rawlings and
Heather J. Ruskin and
Charles Auffray},
title = {EpiGeNet: {A} Graph Database of Interdependencies Between Genetic
and Epigenetic Events in Colorectal Cancer},
journal = {J. Comput. Biol.},
volume = {24},
number = {10},
pages = {969--980},
year = {2017},
url = {https://doi.org/10.1089/cmb.2016.0095},
doi = {10.1089/CMB.2016.0095},
timestamp = {Tue, 21 Feb 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcb/BalaurSBLMRRA17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/biodatamining/LysenkoRSMRA16,
author = {Artem Lysenko and
Irina A. Roznovat and
Mansoor A. S. Saqi and
Alexander Mazein and
Christopher J. Rawlings and
Charles Auffray},
title = {Representing and querying disease networks using graph databases},
journal = {BioData Min.},
volume = {9},
pages = {23},
year = {2016},
url = {https://doi.org/10.1186/s13040-016-0102-8},
doi = {10.1186/S13040-016-0102-8},
timestamp = {Tue, 21 Feb 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/biodatamining/LysenkoRSMRA16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/ToureMWBSHPA16,
author = {Vasundra Tour{\'{e}} and
Alexander Mazein and
Dagmar Waltemath and
Irina Balaur and
Mansoor A. S. Saqi and
Ron Henkel and
Johann Pellet and
Charles Auffray},
title = {{STON:} exploring biological pathways using the {SBGN} standard and
graph databases},
journal = {{BMC} Bioinform.},
volume = {17},
pages = {494:1--494:9},
year = {2016},
url = {https://doi.org/10.1186/s12859-016-1394-x},
doi = {10.1186/S12859-016-1394-X},
timestamp = {Tue, 21 Feb 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/ToureMWBSHPA16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibm/RoznovatR14,
author = {Irina A. Roznovat and
Heather J. Ruskin},
editor = {Huiru Jane Zheng and
Werner Dubitzky and
Xiaohua Hu and
Jin{-}Kao Hao and
Daniel P. Berrar and
Kwang{-}Hyun Cho and
Yadong Wang and
David R. Gilbert},
title = {LogisticCrypt - {A} logistic model of intestinal crypt structure},
booktitle = {2014 {IEEE} International Conference on Bioinformatics and Biomedicine,
{BIBM} 2014, Belfast, United Kingdom, November 2-5, 2014},
pages = {14--21},
publisher = {{IEEE} Computer Society},
year = {2014},
url = {https://doi.org/10.1109/BIBM.2014.6999254},
doi = {10.1109/BIBM.2014.6999254},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/bibm/RoznovatR14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibm/RoznovatR14a,
author = {Irina A. Roznovat and
Heather J. Ruskin},
editor = {Huiru Jane Zheng and
Werner Dubitzky and
Xiaohua Hu and
Jin{-}Kao Hao and
Daniel P. Berrar and
Kwang{-}Hyun Cho and
Yadong Wang and
David R. Gilbert},
title = {A computational analysis on methylation inhibition during intestinal
cancer initiation},
booktitle = {2014 {IEEE} International Conference on Bioinformatics and Biomedicine,
{BIBM} 2014, Belfast, United Kingdom, November 2-5, 2014},
pages = {22--29},
publisher = {{IEEE} Computer Society},
year = {2014},
url = {https://doi.org/10.1109/BIBM.2014.6999255},
doi = {10.1109/BIBM.2014.6999255},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/bibm/RoznovatR14a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibm/RuskinPR14,
author = {Heather J. Ruskin and
Dimitri Perrin and
Irina A. Roznovat},
editor = {Huiru Jane Zheng and
Werner Dubitzky and
Xiaohua Hu and
Jin{-}Kao Hao and
Daniel P. Berrar and
Kwang{-}Hyun Cho and
Yadong Wang and
David R. Gilbert},
title = {Building cross-scale models of epigenetic mechanisms},
booktitle = {2014 {IEEE} International Conference on Bioinformatics and Biomedicine,
{BIBM} 2014, Belfast, United Kingdom, November 2-5, 2014},
pages = {30--37},
publisher = {{IEEE} Computer Society},
year = {2014},
url = {https://doi.org/10.1109/BIBM.2014.6999256},
doi = {10.1109/BIBM.2014.6999256},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/bibm/RuskinPR14.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/ems/RoznovatR13,
author = {Irina A. Roznovat and
Heather J. Ruskin},
editor = {David Al{-}Dabass and
Alessandra Orsoni and
Zheng Xie},
title = {Methylation Inhibitors and Carcinogens in an Agent-Based Model for
Colon Crypt Dynamics during Cancer Development},
booktitle = {Seventh UKSim/AMSS European Modelling Symposium, {EMS} 2013, 20-22
November, 2013, Manchester {UK}},
pages = {152--157},
publisher = {{IEEE}},
year = {2013},
url = {https://doi.org/10.1109/EMS.2013.27},
doi = {10.1109/EMS.2013.27},
timestamp = {Wed, 07 Dec 2022 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/ems/RoznovatR13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ercim/RoznovatR13,
author = {Irina{-}Afrodita Roznovat and
Heather J. Ruskin},
title = {Interdependencies of Genetic and Epigenetic Events in a Computational
Model for Colon Cancer Dynamics},
journal = {{ERCIM} News},
volume = {2013},
number = {95},
year = {2013},
url = {http://ercim-news.ercim.eu/en95/ri/interdependencies-of-genetic-and-epigenetic-events-in-a-computational-model-for-colon-cancer-dynamics},
timestamp = {Wed, 22 May 2019 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/ercim/RoznovatR13.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/bibm/RoznovatR12,
author = {Irina A. Roznovat and
Heather J. Ruskin},
title = {A computational model for genetic and epigenetic signals in colon
cancer},
booktitle = {2012 {IEEE} International Conference on Bioinformatics and Biomedicine
Workshops, {BIBMW} 2012, Philadelphia, USA, October 4-7, 2012},
pages = {188--195},
publisher = {{IEEE} Computer Society},
year = {2012},
url = {https://doi.org/10.1109/BIBMW.2012.6470302},
doi = {10.1109/BIBMW.2012.6470302},
timestamp = {Fri, 24 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/bibm/RoznovatR12.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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