Saeed Shoaie

Showing 14 publications

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

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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