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Telling metabolic stories to explore metabolomics data: a case study on the yeast response to cadmium exposure.
Bioinformatics. 2014 Jan 1;30(1):61-70. doi: 10.1093/bioinformatics/btt597. Epub 2013 Oct 27.
Bioinformatics. 2014.
PMID: 24167155
Free PMC article.
Algorithms and complexity of enumerating minimal precursor sets in genome-wide metabolic networks.
Acuña V, Milreu PV, Cottret L, Marchetti-Spaccamela A, Stougie L, Sagot MF.
Acuña V, et al. Among authors: marchetti spaccamela a.
Bioinformatics. 2012 Oct 1;28(19):2474-83. doi: 10.1093/bioinformatics/bts423. Epub 2012 Jul 10.
Bioinformatics. 2012.
PMID: 22782547
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MOOMIN - Mathematical explOration of 'Omics data on a MetabolIc Network.
Pusa T, Ferrarini MG, Andrade R, Mary A, Marchetti-Spaccamela A, Stougie L, Sagot MF.
Pusa T, et al. Among authors: marchetti spaccamela a.
Bioinformatics. 2020 Jan 15;36(2):514-523. doi: 10.1093/bioinformatics/btz584.
Bioinformatics. 2020.
PMID: 31504164
Free PMC article.
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Modes and cuts in metabolic networks: complexity and algorithms.
Acuña V, Chierichetti F, Lacroix V, Marchetti-Spaccamela A, Sagot MF, Stougie L.
Acuña V, et al. Among authors: marchetti spaccamela a.
Biosystems. 2009 Jan;95(1):51-60. doi: 10.1016/j.biosystems.2008.06.015. Epub 2008 Aug 3.
Biosystems. 2009.
PMID: 18722501
Review.
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Enumeration of minimal stoichiometric precursor sets in metabolic networks.
Andrade R, Wannagat M, Klein CC, Acuña V, Marchetti-Spaccamela A, Milreu PV, Stougie L, Sagot MF.
Andrade R, et al. Among authors: marchetti spaccamela a.
Algorithms Mol Biol. 2016 Sep 19;11:25. doi: 10.1186/s13015-016-0087-3. eCollection 2016.
Algorithms Mol Biol. 2016.
PMID: 27679654
Free PMC article.
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Graph-based analysis of the metabolic exchanges between two co-resident intracellular symbionts, Baumannia cicadellinicola and Sulcia muelleri, with their insect host, Homalodisca coagulata.
Cottret L, Milreu PV, Acuña V, Marchetti-Spaccamela A, Stougie L, Charles H, Sagot MF.
Cottret L, et al. Among authors: marchetti spaccamela a.
PLoS Comput Biol. 2010 Sep 2;6(9):e1000904. doi: 10.1371/journal.pcbi.1000904.
PLoS Comput Biol. 2010.
PMID: 20838465
Free PMC article.
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A note on the complexity of finding and enumerating elementary modes.
Acuña V, Marchetti-Spaccamela A, Sagot MF, Stougie L.
Acuña V, et al. Among authors: marchetti spaccamela a.
Biosystems. 2010 Mar;99(3):210-4. doi: 10.1016/j.biosystems.2009.11.004. Epub 2009 Dec 3.
Biosystems. 2010.
PMID: 19962421
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A Combinatorial Algorithm for Microbial Consortia Synthetic Design.
Julien-Laferrière A, Bulteau L, Parrot D, Marchetti-Spaccamela A, Stougie L, Vinga S, Mary A, Sagot MF.
Julien-Laferrière A, et al. Among authors: marchetti spaccamela a.
Sci Rep. 2016 Jul 4;6:29182. doi: 10.1038/srep29182.
Sci Rep. 2016.
PMID: 27373593
Free PMC article.
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