S
Stefania Magnusdottir
Researcher at Utrecht University
Publications - 25
Citations - 2554
Stefania Magnusdottir is an academic researcher from Utrecht University. The author has contributed to research in topics: Microbiome & Metagenomics. The author has an hindex of 9, co-authored 19 publications receiving 1614 citations. Previous affiliations of Stefania Magnusdottir include VU University Amsterdam & University of Luxembourg.
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Journal ArticleDOI
Creation and analysis of biochemical constraint-based models using the COBRA Toolbox v.3.0
Laurent Heirendt,Sylvain Arreckx,Thomas Pfau,Sebastián N. Mendoza,Anne Richelle,Almut Heinken,Hulda S. Haraldsdóttir,Jacek Wachowiak,Sarah M. Keating,Vanja Vlasov,Stefania Magnusdottir,Chiam Yu Ng,German Preciat,Alise Žagare,Siu Hung Joshua Chan,Maike K. Aurich,Catherine M. Clancy,Jennifer Modamio,John T. Sauls,Alberto Noronha,Aarash Bordbar,Benjamin Cousins,Diana C. El Assal,Luis Vitores Valcárcel,Iñigo Apaolaza,Susan Ghaderi,Masoud Ahookhosh,Marouen Ben Guebila,Andrejs Kostromins,Nicolas Sompairac,Hoai M. Le,Ding Ma,Yuekai Sun,Lin Wang,James T. Yurkovich,Miguel A.P. Oliveira,Phan Tu Vuong,Lemmer P. El Assal,Inna Kuperstein,Andrei Zinovyev,H. Scott Hinton,William A. Bryant,Francisco J. Aragón Artacho,Francisco J. Planes,Egils Stalidzans,Alejandro Maass,Santosh Vempala,Michael Hucka,Michael A. Saunders,Costas D. Maranas,Nathan E. Lewis,Thomas Sauter,Bernhard O. Palsson,Bernhard O. Palsson,Ines Thiele,Ronan M. T. Fleming,Ronan M. T. Fleming +56 more
TL;DR: This protocol provides an overview of all new features of the COBRA Toolbox and can be adapted to generate and analyze constraint-based models in a wide variety of scenarios.
Journal ArticleDOI
Generation of genome-scale metabolic reconstructions for 773 members of the human gut microbiota
Stefania Magnusdottir,Almut Heinken,Laura Kutt,Dmitry A. Ravcheev,Eugen Bauer,Alberto Noronha,Kacy Greenhalgh,Christian Jäger,Joanna Baginska,Paul Wilmes,Ronan M. T. Fleming,Ines Thiele +11 more
TL;DR: This work presents AGORA (assembly of gut organisms through reconstruction and analysis), a resource of genome-scale metabolic reconstructions semi-automatically generated for 773 human gut bacteria, and identified a defined growth medium for Bacteroides caccae ATCC 34185.
Journal ArticleDOI
Systematic genome assessment of B-vitamin biosynthesis suggests co-operation among gut microbes.
TL;DR: This work presents the first comprehensive assessment of the B-vitamin synthesis capabilities of the human gut microbiota, and proposes that in addition to diet, the gut microbiota is an important source of B- vitamins, and that changes in the Gut microbiota composition can severely affect the authors' dietary B-Vitamin requirements.
Journal ArticleDOI
The Virtual Metabolic Human database: integrating human and gut microbiome metabolism with nutrition and disease.
Alberto Noronha,Jennifer Modamio,Yohan Jarosz,Elisabeth Guerard,Nicolas Sompairac,German Andres Preciat Gonzalez,Anna Dröfn Daníelsdóttir,Max Krecke,Diane Merten,Hulda S. Haraldsdóttir,Almut Heinken,Laurent Heirendt,Stefania Magnusdottir,Dmitry A. Ravcheev,Swagatika Sahoo,Piotr Gawron,Lucia Friscioni,Beatriz Garcia,Mabel Prendergast,Alberto Puente,Mariana Rodrigues,Akansha Roy,Mouss Rouquaya,Luca Wiltgen,Alise Žagare,Elisabeth John,Maren Krueger,Inna Kuperstein,Andrei Zinovyev,Reinhard Schneider,Ronan M. T. Fleming,Ronan M. T. Fleming,Ines Thiele +32 more
TL;DR: The VMH represents a novel, interdisciplinary database for data interpretation and hypothesis generation to the biomedical community and encapsulating current knowledge of human metabolism within five interlinked resources.
Posted Content
Creation and analysis of biochemical constraint-based models: the COBRA Toolbox v3.0.
Laurent Heirendt,Sylvain Arreckx,Thomas Pfau,Sebastián N. Mendoza,Anne Richelle,Almut Heinken,Hulda S. Haraldsdóttir,Jacek Wachowiak,Sarah M. Keating,Vanja Vlasov,Stefania Magnusdottir,Chiam Yu Ng,German Preciat,Alise Žagare,Siu Hung Joshua Chan,Maike K. Aurich,Catherine M. Clancy,Jennifer Modamio,John T. Sauls,Alberto Noronha,Aarash Bordbar,Benjamin Cousins,Diana C. El Assal,Luis Vitores Valcárcel,Iñigo Apaolaza,Susan Ghaderi,Masoud Ahookhosh,Marouen Ben Guebila,Andrejs Kostromins,Nicolas Sompairac,Hoai M. Le,Ding Ma,Yuekai Sun,Lin Wang,James T. Yurkovich,Miguel A.P. Oliveira,Phan Tu Vuong,Lemmer P. El Assal,Inna Kuperstein,Andrei Zinovyev,H. Scott Hinton,William A. Bryant,Francisco J. Aragón Artacho,Francisco J. Planes,Egils Stalidzans,Alejandro Maass,Santosh Vempala,Michael Hucka,Michael A. Saunders,Costas D. Maranas,Nathan E. Lewis,Thomas Sauter,Bernhard O. Palsson,Ines Thiele,Ronan M. T. Fleming +54 more
TL;DR: This protocol can be adapted for the generation and analysis of a constraint-based model in a wide variety of molecular systems biology scenarios and is an update to the COBRA Toolbox 1.0 and 2.0.