Ali Ebrahim

Affiliations: 
2016 University of California, San Diego, La Jolla, CA 
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"Ali Ebrahim"
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Liu JK, Lloyd C, Al-Bassam M, et al. (2019) Predicting proteome allocation, overflow metabolism, and metal requirements in a model acetogen. Plos Computational Biology. 15: e1006848
Yang L, Ebrahim A, Lloyd CJ, et al. (2019) DynamicME: dynamic simulation and refinement of integrated models of metabolism and protein expression. Bmc Systems Biology. 13: 2
Lloyd CJ, Ebrahim A, Yang L, et al. (2018) COBRAme: A computational framework for genome-scale models of metabolism and gene expression. Plos Computational Biology. 14: e1006302
Latif H, Federowicz S, Ebrahim A, et al. (2018) ChIP-exo interrogation of Crp, DNA, and RNAP holoenzyme interactions. Plos One. 13: e0197272
Yang L, Yurkovich JT, Lloyd CJ, et al. (2016) Principles of proteome allocation are revealed using proteomic data and genome-scale models. Scientific Reports. 6: 36734
Ebrahim A, Brunk E, Tan J, et al. (2016) Multi-omic data integration enables discovery of hidden biological regularities. Nature Communications. 7: 13091
Yang L, Ma D, Ebrahim A, et al. (2016) solveME: fast and reliable solution of nonlinear ME models. Bmc Bioinformatics. 17: 391
King ZA, Lu J, Dräger A, et al. (2015) BiGG Models: A platform for integrating, standardizing and sharing genome-scale models. Nucleic Acids Research
Ebrahim A, Almaas E, Bauer E, et al. (2015) Do genome-scale models need exact solvers or clearer standards? Molecular Systems Biology. 11: 831
King ZA, Dräger A, Ebrahim A, et al. (2015) Escher: A Web Application for Building, Sharing, and Embedding Data-Rich Visualizations of Biological Pathways. Plos Computational Biology. 11: e1004321
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