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Results: 11

1.

A community-driven global reconstruction of human metabolism.

Thiele I, Swainston N, Fleming RM, Hoppe A, Sahoo S, Aurich MK, Haraldsdottir H, Mo ML, Rolfsson O, Stobbe MD, Thorleifsson SG, Agren R, Bölling C, Bordel S, Chavali AK, Dobson P, Dunn WB, Endler L, Hala D, Hucka M, Hull D, Jameson D, Jamshidi N, Jonsson JJ, Juty N, Keating S, Nookaew I, Le Novère N, Malys N, Mazein A, Papin JA, Price ND, Selkov E Sr, Sigurdsson MI, Simeonidis E, Sonnenschein N, Smallbone K, Sorokin A, van Beek JH, Weichart D, Goryanin I, Nielsen J, Westerhoff HV, Kell DB, Mendes P, Palsson BØ.

Nat Biotechnol. 2013 May;31(5):419-25. doi: 10.1038/nbt.2488. Epub 2013 Mar 3.

PMID:
23455439
[PubMed - indexed for MEDLINE]
Free PMC Article
2.

Linking genome-scale metabolic modeling and genome annotation.

Blais EM, Chavali AK, Papin JA.

Methods Mol Biol. 2013;985:61-83. doi: 10.1007/978-1-62703-299-5_4.

PMID:
23417799
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Metabolic network analysis predicts efficacy of FDA-approved drugs targeting the causative agent of a neglected tropical disease.

Chavali AK, Blazier AS, Tlaxca JL, Jensen PA, Pearson RD, Papin JA.

BMC Syst Biol. 2012 Apr 27;6:27. doi: 10.1186/1752-0509-6-27.

PMID:
22540944
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

A metabolic network approach for the identification and prioritization of antimicrobial drug targets.

Chavali AK, D'Auria KM, Hewlett EL, Pearson RD, Papin JA.

Trends Microbiol. 2012 Mar;20(3):113-23. doi: 10.1016/j.tim.2011.12.004. Epub 2012 Jan 31. Review.

PMID:
22300758
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Systems analysis of small signaling modules relevant to eight human diseases.

Benedict KF, Mac Gabhann F, Amanfu RK, Chavali AK, Gianchandani EP, Glaw LS, Oberhardt MA, Thorne BC, Yang JH, Papin JA, Peirce SM, Saucerman JJ, Skalak TC.

Ann Biomed Eng. 2011 Feb;39(2):621-35. doi: 10.1007/s10439-010-0208-y. Epub 2010 Dec 4.

PMID:
21132372
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

The application of flux balance analysis in systems biology.

Gianchandani EP, Chavali AK, Papin JA.

Wiley Interdiscip Rev Syst Biol Med. 2010 May-Jun;2(3):372-82. doi: 10.1002/wsbm.60. Review.

PMID:
20836035
[PubMed - indexed for MEDLINE]
7.

Metabolic network analysis integrated with transcript verification for sequenced genomes.

Manichaikul A, Ghamsari L, Hom EF, Lin C, Murray RR, Chang RL, Balaji S, Hao T, Shen Y, Chavali AK, Thiele I, Yang X, Fan C, Mello E, Hill DE, Vidal M, Salehi-Ashtiani K, Papin JA.

Nat Methods. 2009 Aug;6(8):589-92. doi: 10.1038/nmeth.1348. Epub 2009 Jul 13.

PMID:
19597503
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Proteomic and network analysis characterize stage-specific metabolism in Trypanosoma cruzi.

Roberts SB, Robichaux JL, Chavali AK, Manque PA, Lee V, Lara AM, Papin JA, Buck GA.

BMC Syst Biol. 2009 May 16;3:52. doi: 10.1186/1752-0509-3-52.

PMID:
19445715
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Flux balance analysis: interrogating genome-scale metabolic networks.

Oberhardt MA, Chavali AK, Papin JA.

Methods Mol Biol. 2009;500:61-80. doi: 10.1007/978-1-59745-525-1_3.

PMID:
19399432
[PubMed - indexed for MEDLINE]
10.

Characterizing emergent properties of immunological systems with multi-cellular rule-based computational modeling.

Chavali AK, Gianchandani EP, Tung KS, Lawrence MB, Peirce SM, Papin JA.

Trends Immunol. 2008 Dec;29(12):589-99. doi: 10.1016/j.it.2008.08.006. Epub 2008 Oct 27. Review.

PMID:
18964301
[PubMed - indexed for MEDLINE]
11.

Systems analysis of metabolism in the pathogenic trypanosomatid Leishmania major.

Chavali AK, Whittemore JD, Eddy JA, Williams KT, Papin JA.

Mol Syst Biol. 2008;4:177. doi: 10.1038/msb.2008.15. Epub 2008 Mar 25.

PMID:
18364711
[PubMed - indexed for MEDLINE]
Free PMC Article

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