Planes FJ - Search Results

1

gMCSpy: efficient and accurate computation of genetic minimal cut sets in Python.

Rodriguez-Flores CJ, Barrena N, Olaverri-Mendizabal D, Ochoa I, Valcárcel LV, Planes FJ. Rodriguez-Flores CJ, et al. Among authors: planes fj. Bioinformatics. 2024 Jun 3;40(6):btae318. doi: 10.1093/bioinformatics/btae318. Bioinformatics. 2024. PMID: 38748994 Free PMC article.

2

An optimization model for metabolic pathways.

Planes FJ, Beasley JE. Planes FJ, et al. Bioinformatics. 2009 Oct 15;25(20):2723-9. doi: 10.1093/bioinformatics/btp441. Epub 2009 Jul 20. Bioinformatics. 2009. PMID: 19620100

3

Exploring metabolic pathways in genome-scale networks via generating flux modes.

Rezola A, de Figueiredo LF, Brock M, Pey J, Podhorski A, Wittmann C, Schuster S, Bockmayr A, Planes FJ. Rezola A, et al. Among authors: planes fj. Bioinformatics. 2011 Feb 15;27(4):534-40. doi: 10.1093/bioinformatics/btq681. Epub 2010 Dec 10. Bioinformatics. 2011. PMID: 21149278

4

Selection of human tissue-specific elementary flux modes using gene expression data.

Rezola A, Pey J, de Figueiredo LF, Podhorski A, Schuster S, Rubio A, Planes FJ. Rezola A, et al. Among authors: planes fj. Bioinformatics. 2013 Aug 15;29(16):2009-16. doi: 10.1093/bioinformatics/btt328. Epub 2013 Jun 6. Bioinformatics. 2013. PMID: 23742984

5

Refining carbon flux paths using atomic trace data.

Pey J, Planes FJ, Beasley JE. Pey J, et al. Among authors: planes fj. Bioinformatics. 2014 Apr 1;30(7):975-80. doi: 10.1093/bioinformatics/btt653. Epub 2013 Nov 21. Bioinformatics. 2014. PMID: 24273244

6

Direct calculation of elementary flux modes satisfying several biological constraints in genome-scale metabolic networks.

Pey J, Planes FJ. Pey J, et al. Among authors: planes fj. Bioinformatics. 2014 Aug 1;30(15):2197-203. doi: 10.1093/bioinformatics/btu193. Epub 2014 Apr 10. Bioinformatics. 2014. PMID: 24728852

7

TreeEFM: calculating elementary flux modes using linear optimization in a tree-based algorithm.

Pey J, Villar JA, Tobalina L, Rezola A, García JM, Beasley JE, Planes FJ. Pey J, et al. Among authors: planes fj. Bioinformatics. 2015 Mar 15;31(6):897-904. doi: 10.1093/bioinformatics/btu733. Epub 2014 Nov 6. Bioinformatics. 2015. PMID: 25380956

8

Context-specific metabolic network reconstruction of a naphthalene-degrading bacterial community guided by metaproteomic data.

Tobalina L, Bargiela R, Pey J, Herbst FA, Lores I, Rojo D, Barbas C, Peláez AI, Sánchez J, von Bergen M, Seifert J, Ferrer M, Planes FJ. Tobalina L, et al. Among authors: planes fj. Bioinformatics. 2015 Jun 1;31(11):1771-9. doi: 10.1093/bioinformatics/btv036. Epub 2015 Jan 23. Bioinformatics. 2015. PMID: 25618865

9

Direct calculation of minimal cut sets involving a specific reaction knock-out.

Tobalina L, Pey J, Planes FJ. Tobalina L, et al. Among authors: planes fj. Bioinformatics. 2016 Jul 1;32(13):2001-7. doi: 10.1093/bioinformatics/btw072. Epub 2016 Feb 28. Bioinformatics. 2016. PMID: 27153694

10

gMCS: fast computation of genetic minimal cut sets in large networks.

Apaolaza I, Valcarcel LV, Planes FJ. Apaolaza I, et al. Among authors: planes fj. Bioinformatics. 2019 Feb 1;35(3):535-537. doi: 10.1093/bioinformatics/bty656. Bioinformatics. 2019. PMID: 30052768

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