Sriram Lab:Publications

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==Selected publications==
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==Recent publications==
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<biblio>
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#sriram9 pmid=19121967
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Sriram G (ed). (in production) Plant Metabolism: Methods and Protocols. Methods in Molecular Biology, Vol. 1083, 300 pp. Humana Press, New York, NY. ISBN: [http://www.isbnsearch.org/isbn/9781627036603 978-1-62703-660-3] [http://www.springer.com/life+sciences/plant+sciences/book/978-1-62703-660-3 View at publisher]
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#sriram8 pmid=18029214
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#sriram7 pmid=18194425
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Misra A, Conway MF, Johnnie J, Qureshi TM, Derrick AM, Agbo EC, Sriram G. (in press) Metabolic analyses elucidate nontrivial gene targets for amplifying dihydroartemisinic acid production in yeast. Frontiers in Microbiology, 4: 200. [http://www.frontiersin.org/Journal/Abstract.aspx?s=679&name=microbiotechnology,%20ecotoxicology%20and%20bioremediation&ART_DOI=10.3389/fmicb.2013.00200 View at publisher (OPEN ACCESS)]
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#sriram6 pmid=17888703
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#sriram5 pmid=17532015
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Nargund S, Joffe ME, Tran D, Tugarinov V, Sriram G (2013) Nuclear magnetic resonance methods for metabolic fluxomics. In: Alper HS (ed), Systems Metabolic Engineering. Methods in Molecular Biology, 985: 335–351, Humana Press, New York, NY. [http://dx.doi.org/10.1007/978-1-62703-299-5_16 View at publisher]
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#sriram3 pmid=15877277
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#sriram2 pmid=15466217
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Nargund S, Sriram G (2013) Designer labels for plant metabolism: Statistical design of isotope labeling experiments for improved quantification of flux in complex plant metabolic networks. Molecular BioSystems 9: 99-112. DOI: 10.1039/C2MB25253H. [http://pubs.rsc.org/en/content/articlelanding/2012/mb/c2mb25253h View at publisher]
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#sriram1 pmid=15113565
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</biblio>
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Zheng Y, Sriram G (2010) Mathematical modeling: bridging the gap between concept and realization in synthetic biology. Journal of Biomedicine and Biotechnology (now BioMed Research International) article ID 541609, 16 pages. [http://dx.doi.org/10.1155/2010/541609 View at publisher (OPEN ACCESS)]
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Alper HS, Cirino PC, Nevoigt E, Sriram G (2010) Applications of synthetic biology in microbial biotechnology. Journal of Biomedicine and Biotechnology (now BioMed Research International), article ID 918391, 2 pages. Guest editorial (invited but not peer-reviewed). [http://dx.doi.org/10.1155/2010/918391 View at publisher (OPEN ACCESS)]
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Sriram G, Rahib L, Parr LS, Liao JC, Dipple KM (2010) Moonlighting function of glycerol kinase causes systems-level changes in rat hepatoma cells. Metabolic Engineering 12:332-340. [http://dx.doi.org/10.1016/j.ymben.2010.04.001 View at publisher] [http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2949272 View at PMC (OPEN ACCESS)]
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Rahib L, Sriram G, Harada MK, Liao JC, Dipple KM (2009) Transcriptomic and network component analysis of glycerol kinase in skeletal muscle using a mouse model of glycerol kinase deficiency. Molecular Genetics and Metabolism 96:106-112. [http://dx.doi.org/10.1016/j.ymgme.2008.11.163 View at publisher] [http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2702540 View at PMC (OPEN ACCESS)]
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Iyer VV, Sriram G, Fulton DB, Zhou R, Westgate ME, Shanks JV (2008) Metabolic flux maps: An effective tool for studying the effect of temperature on protein and oil biosynthesis in developing soybean cotyledons. Plant, Cell, and Environment 31:506-517. [http://dx.doi.org/10.1111/j.1365-3040.2008.01781.x View at publisher (OPEN ACCESS)]
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Sriram G, Rahib L, He J-S, Campos AE, Liao JC, Dipple KM (2008) Global metabolic changes due to glycerol kinase overexpression in rat liver cells. Molecular Genetics and Metabolism 93:145-159. [http://dx.doi.org/10.1016/j.ymgme.2007.09.008 View at publisher] [http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2702542 View at PMC (OPEN ACCESS)]
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Sriram G, Iyer VV, Fulton DB, Shanks JV (2007) Identification of hexose hydrolysis products in metabolic flux analytes: A case study of levulinic acid in plant protein hydrolysate. Metabolic Engineering 9: 442-451. (Cover article) [http://dx.doi.org/10.1016/j.ymben.2007.07.003 View at publisher]
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Sriram G, Fulton DB, Shanks JV (2007) Flux quantification in central carbon metabolism of Catharanthus roseus hairy roots by 13C labeling and comprehensive bondomer balancing. Phytochemistry 68: 2243-2257. [http://dx.doi.org/10.1016/j.phytochem.2007.04.009 View at publisher]
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§Sriram G, §González-Rivera O, Shanks JV (2006) Determination of biomass composition of Catharanthus roseus hairy roots for metabolic flux analysis. Biotechnology Progress 22: 1659-1663. (§Contributed equally) [http://dx.doi.org/10.1021/bp060162k View at publisher]
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Sriram G, Martinez JA, McCabe ERB, Liao JC, Dipple KM (2005) Single-gene disorders: What role could moonlighting enzymes play? American Journal of Human Genetics 76: 911-924. [http://dx.doi.org/10.1086/430799 View at publisher] [http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1196451 View at PMC (OPEN ACCESS)]
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Sriram G, Fulton DB, Iyer VV, Peterson JM, Zhou R, Westgate ME, Spalding MH, Shanks JV (2004) Quantification of compartmented metabolic fluxes in developing soybean embryos by employing biosynthetically directed fractional 13C labeling, two-dimensional [13C, 1H] nuclear magnetic resonance, and comprehensive isotopomer balancing. Plant Physiology 136: 3043-3057. [http://dx.doi.org/10.1104/pp.104.050625 View at publisher (OPEN ACCESS)] [http://www.f1000biology.com/article/id/1021697 Featured in Faculty of 1000 Biology]
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Sriram G, Shanks JV (2004) Improvements in metabolic flux analysis using carbon bond labeling experiments: bondomer balancing and Boolean function mapping. Metabolic Engineering 6: 116-132. [http://dx.doi.org/10.1016/j.ymben.2004.02.003 View at publisher]
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Revision as of 14:22, 26 June 2013

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Recent publications

Sriram G (ed). (in production) Plant Metabolism: Methods and Protocols. Methods in Molecular Biology, Vol. 1083, 300 pp. Humana Press, New York, NY. ISBN: 978-1-62703-660-3 View at publisher

Misra A, Conway MF, Johnnie J, Qureshi TM, Derrick AM, Agbo EC, Sriram G. (in press) Metabolic analyses elucidate nontrivial gene targets for amplifying dihydroartemisinic acid production in yeast. Frontiers in Microbiology, 4: 200. View at publisher (OPEN ACCESS)

Nargund S, Joffe ME, Tran D, Tugarinov V, Sriram G (2013) Nuclear magnetic resonance methods for metabolic fluxomics. In: Alper HS (ed), Systems Metabolic Engineering. Methods in Molecular Biology, 985: 335–351, Humana Press, New York, NY. View at publisher

Nargund S, Sriram G (2013) Designer labels for plant metabolism: Statistical design of isotope labeling experiments for improved quantification of flux in complex plant metabolic networks. Molecular BioSystems 9: 99-112. DOI: 10.1039/C2MB25253H. View at publisher

Zheng Y, Sriram G (2010) Mathematical modeling: bridging the gap between concept and realization in synthetic biology. Journal of Biomedicine and Biotechnology (now BioMed Research International) article ID 541609, 16 pages. View at publisher (OPEN ACCESS)

Alper HS, Cirino PC, Nevoigt E, Sriram G (2010) Applications of synthetic biology in microbial biotechnology. Journal of Biomedicine and Biotechnology (now BioMed Research International), article ID 918391, 2 pages. Guest editorial (invited but not peer-reviewed). View at publisher (OPEN ACCESS)

Sriram G, Rahib L, Parr LS, Liao JC, Dipple KM (2010) Moonlighting function of glycerol kinase causes systems-level changes in rat hepatoma cells. Metabolic Engineering 12:332-340. View at publisher View at PMC (OPEN ACCESS)

Rahib L, Sriram G, Harada MK, Liao JC, Dipple KM (2009) Transcriptomic and network component analysis of glycerol kinase in skeletal muscle using a mouse model of glycerol kinase deficiency. Molecular Genetics and Metabolism 96:106-112. View at publisher View at PMC (OPEN ACCESS)

Iyer VV, Sriram G, Fulton DB, Zhou R, Westgate ME, Shanks JV (2008) Metabolic flux maps: An effective tool for studying the effect of temperature on protein and oil biosynthesis in developing soybean cotyledons. Plant, Cell, and Environment 31:506-517. View at publisher (OPEN ACCESS)

Sriram G, Rahib L, He J-S, Campos AE, Liao JC, Dipple KM (2008) Global metabolic changes due to glycerol kinase overexpression in rat liver cells. Molecular Genetics and Metabolism 93:145-159. View at publisher View at PMC (OPEN ACCESS)

Sriram G, Iyer VV, Fulton DB, Shanks JV (2007) Identification of hexose hydrolysis products in metabolic flux analytes: A case study of levulinic acid in plant protein hydrolysate. Metabolic Engineering 9: 442-451. (Cover article) View at publisher

Sriram G, Fulton DB, Shanks JV (2007) Flux quantification in central carbon metabolism of Catharanthus roseus hairy roots by 13C labeling and comprehensive bondomer balancing. Phytochemistry 68: 2243-2257. View at publisher

§Sriram G, §González-Rivera O, Shanks JV (2006) Determination of biomass composition of Catharanthus roseus hairy roots for metabolic flux analysis. Biotechnology Progress 22: 1659-1663. (§Contributed equally) View at publisher

Sriram G, Martinez JA, McCabe ERB, Liao JC, Dipple KM (2005) Single-gene disorders: What role could moonlighting enzymes play? American Journal of Human Genetics 76: 911-924. View at publisher View at PMC (OPEN ACCESS)

Sriram G, Fulton DB, Iyer VV, Peterson JM, Zhou R, Westgate ME, Spalding MH, Shanks JV (2004) Quantification of compartmented metabolic fluxes in developing soybean embryos by employing biosynthetically directed fractional 13C labeling, two-dimensional [13C, 1H] nuclear magnetic resonance, and comprehensive isotopomer balancing. Plant Physiology 136: 3043-3057. View at publisher (OPEN ACCESS) Featured in Faculty of 1000 Biology

Sriram G, Shanks JV (2004) Improvements in metabolic flux analysis using carbon bond labeling experiments: bondomer balancing and Boolean function mapping. Metabolic Engineering 6: 116-132. View at publisher

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