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A community effort towards a knowledge-base and mathematical model of the human pathogen Salmonella Typhimurium LT2.
Thiele I, Hyduke DR, Steeb B, Fankam G, Allen DK, Bazzani S, Charusanti P, Chen FC, Fleming RM, Hsiung CA, De Keersmaecker SC, Liao YC, Marchal K, Mo ML, Özdemir E, Raghunathan A, Reed JL, Shin SI, Sigurbjörnsdóttir S, Steinmann J, Sudarsan S, Swainston N, Thijs IM, Zengler K, Palsson BO, Adkins JN, Bumann D. Thiele I, et al. Among authors: allen dk. BMC Syst Biol. 2011 Jan 18;5:8. doi: 10.1186/1752-0509-5-8. BMC Syst Biol. 2011. PMID: 21244678 Free PMC article.
Crops In Silico: Generating Virtual Crops Using an Integrative and Multi-scale Modeling Platform.
Marshall-Colon A, Long SP, Allen DK, Allen G, Beard DA, Benes B, von Caemmerer S, Christensen AJ, Cox DJ, Hart JC, Hirst PM, Kannan K, Katz DS, Lynch JP, Millar AJ, Panneerselvam B, Price ND, Prusinkiewicz P, Raila D, Shekar RG, Shrivastava S, Shukla D, Srinivasan V, Stitt M, Turk MJ, Voit EO, Wang Y, Yin X, Zhu XG. Marshall-Colon A, et al. Among authors: allen g, allen dk. Front Plant Sci. 2017 May 15;8:786. doi: 10.3389/fpls.2017.00786. eCollection 2017. Front Plant Sci. 2017. PMID: 28555150 Free PMC article.
Soybean genomics research community strategic plan: A vision for 2024-2028.
Stupar RM, Locke AM, Allen DK, Stacey MG, Ma J, Weiss J, Nelson RT, Hudson ME, Joshi T, Li Z, Song Q, Jedlicka JR, MacIntosh GC, Grant D, Parrott WA, Clemente TE, Stacey G, An YC, Aponte-Rivera J, Bhattacharyya MK, Baxter I, Bilyeu KD, Campbell JD, Cannon SB, Clough SJ, Curtin SJ, Diers BW, Dorrance AE, Gillman JD, Graef GL, Hancock CN, Hudson KA, Hyten DL, Kachroo A, Koebernick J, Libault M, Lorenz AJ, Mahan AL, Massman JM, McGinn M, Meksem K, Okamuro JK, Pedley KF, Rainey KM, Scaboo AM, Schmutz J, Song BH, Steinbrenner AD, Stewart-Brown BB, Toth K, Wang D, Weaver L, Zhang B, Graham MA, O'Rourke JA. Stupar RM, et al. Among authors: allen dk. Plant Genome. 2024 Dec;17(4):e20516. doi: 10.1002/tpg2.20516. Epub 2024 Nov 21. Plant Genome. 2024. PMID: 39572930 Free PMC article.
Metabolic Flux Analysis to Increase Oil in Seeds.
Mukherjee T, Kambhampati S, Morley SA, Durrett TP, Allen DK. Mukherjee T, et al. Among authors: allen dk. Plant Physiol. 2024 Nov 5:kiae595. doi: 10.1093/plphys/kiae595. Online ahead of print. Plant Physiol. 2024. PMID: 39499667
FatPlants: a comprehensive information system for lipid-related genes and metabolic pathways in plants.
Xu C, Shaw T, Choppararu SA, Lu Y, Farooq SN, Qin Y, Hudson M, Weekley B, Fisher M, He F, Da Silva Nascimento JR, Wergeles N, Joshi T, Bates PD, Koo AJ, Allen DK, Cahoon EB, Thelen JJ, Xu D. Xu C, et al. Among authors: allen dk. Database (Oxford). 2024 Aug 5;2024:baae074. doi: 10.1093/database/baae074. Database (Oxford). 2024. PMID: 39104285 Free PMC article.
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