Saeed Shoaie
Showing 16 publications
2020
A systems biology approach for studying neurodegenerative diseases
Simon Lam, Abdulahad Bayraktar, C. Zhang et al
Drug Discovery Today. Vol. In Press
Review article
2020
MEMOTE for standardized genome-scale metabolic model testing
Christian Lieven, Moritz E. Beber, Brett G. Olivier et al
Nature Biotechnology. Vol. 38 (3), p. 272-276
Introductory text in journal
2019
Simplified Intestinal Microbiota to Study Microbe-Diet-Host Interactions in a Mouse Model
P. Kovatcheva-Datchary, Saeed Shoaie, Sunjae Lee et al
Cell Reports. Vol. 26 (13), p. 3772-3783.e6
Journal article
2018
Understanding the representative gut microbiota dysbiosis in metformin-treated Type 2 diabetes patients using genome-scale metabolic modeling
Dorines Rosario, Rui Benfeitas, G. Bidkhori et al
Frontiers in Physiology. Vol. 9
Journal article
2018
Challenges in modeling the human gut microbiome
Parizad Babaei, Saeed Shoaie, Boyang Ji et al
Nature Biotechnology. Vol. 36 (8), p. 682-686
Introductory text in journal
2016
Systems biology analysis of hepatitis C virus infection reveals the role of copy number increases in regions of chromosome 1q in hepatocellular carcinoma metabolism
Ibrahim El-Semman, Adil Mardinoglu, Saeed Shoaie et al
Molecular BioSystems. Vol. 12 (5), p. 1496-1506
Journal article
2015
The gut microbiota modulates host amino acid and glutathione metabolism in mice
Adil Mardinoglu, Saeed Shoaie, Mattias Bergentall et al
Molecular Systems Biology. Vol. 11 (10), p. Article Number: 834-
Journal article
2015
Metabolic Modeling of the Gut Microbiome-Host Interactions and Meta’omics Integration
Saeed Shoaie
Doctoral thesis
2015
Quantifying Diet-Induced Metabolic Changes of the Human Gut Microbiome
Saeed Shoaie, Pouyan Ghaffari Nouran, P. Kovatcheva-Datchary et al
Cell Metabolism. Vol. 22 (2), p. 320-331
Journal article
2015
Identifying anti-growth factors for human cancer cell lines through genome-scale metabolic modeling
Pouyan Ghaffari Nouran, Adil Mardinoglu, A. Asplund et al
Scientific Reports. Vol. 5, p. Art. no. 8183-
Journal article
2014
Genome-scale metabolic reconstructions of Bifidobacterium adolescentis L2-32 and Faecalibacterium prausnitzii A2-165 and their interaction
Ibrahim El-Semman, Fredrik Karlsson, Saeed Shoaie et al
BMC Systems Biology. Vol. 8 (41)
Journal article
2014
Elucidating the interactions between the human gut microbiota and its host through metabolic modeling
Saeed Shoaie, Jens B Nielsen
Frontiers in Genetics. Vol. 5 (APR)
Journal article
2013
Understanding the interactions between bacteria in the human gut through metabolic modeling
Saeed Shoaie, Fredrik Karlsson, Adil Mardinoglu et al
Scientific Reports. Vol. 3
Journal article
2013
The RAVEN Toolbox and Its Use for Generating a Genome-scale Metabolic Model for Penicillium chrysogenum
Rasmus Ågren, Liming Liu, Saeed Shoaie et al
PLoS Computational Biology. Vol. 9 (3), p. e1002980-
Journal article
2012
Dynamic (13) C-labelling experiments prove important differences in protein turnover rate between two Saccharomyces cerevisiae strains
Kuk-ki Hong, Jin Hou, Saeed Shoaie et al
FEMS Yeast Research. Vol. 12 (7), p. 741-747
Journal article
2012
Genome-scale metabolic reconstructions of Pichia stipitis and Pichia pastoris and in-silico evaluation of their potentials
Luis Caspeta-Guadarrama, Saeed Shoaie, Rasmus Ågren et al
BMC Systems Biology. Vol. 6 (24)
Journal article
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