Thomas Naake
Max Planck Society
27 Papers
21 Citations
Thomas Naake is an academic researcher from Max Planck Society. The author has contributed to research in topics: Bioconductor & Biology. The author has an hindex of 10, co-authored 17 publications. Previous affiliations of Thomas Naake include Heidelberg University & University of Copenhagen.
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Papers
A draft map of the mouse pluripotent stem cell spatial proteome.
Andy Christoforou,Claire M. Mulvey,Lisa M. Breckels,Aikaterini Geladaki,Tracey Hurrell,Tracey Hurrell,Penelope Hayward,Thomas Naake,Laurent Gatto,Rosa Viner,Alfonso Martinez Arias,Kathryn S. Lilley +11 more
TL;DR: This work provides localization data on over 5,000 proteins with unprecedented spatial resolution to reveal the organization of organelles, sub-organellar compartments, protein complexes, functional networks and steady-state dynamics of proteins and unexpected subcellular locations.
The metaRbolomics Toolbox in Bioconductor and beyond
Jan Stanstrup,Corey D. Broeckling,Rick Helmus,Nils Hoffmann,Ewy Mathé,Thomas Naake,L Nicolotti,Kristian Peters,Johannes Rainer,Reza M. Salek,Tobias Schulze,Emma L. Schymanski,Michael A. Stravs,Etienne A. Thévenot,Hendrik Treutler,Ralf J. M. Weber,Egon Willighagen,Michael Witting,Steffen Neumann +18 more
TL;DR: This review provides an extensive overview of existing packages in R for different steps in a typical computational metabolomics workflow, including data processing, biostatistics, metabolite annotation and identification, and biochemical network and pathway analysis.
Coordinating Sulfur Pools under Sulfate Deprivation.
TL;DR: This work puts particular focus on the general OAS-responsive genes but also elaborate on the specific roles of SDI1 and SDI2 genes, which downregulate the glucosinolate pool size, and highlights the key open questions in sulfur partitioning.
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Mass Spectrometry-Based Untargeted Plant Metabolomics
Leonardo Perez de Souza,Saleh Alseekh,Thomas Naake,Alisdair R. Fernie +3 more
- 01 Dec 2019
TL;DR: All the intricacies involved in extracting and analyzing metabolites by chromatography coupled to MS, as well as the processing and analysis of such datasets are discussed.
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The Intracellular Localization of the Vanillin Biosynthetic Machinery in Pods of Vanilla planifolia.
Nethaji J. Gallage,Kirsten Jørgensen,Christian Janfelt,Agnieszka Zygadlo Nielsen,Thomas Naake,Eryk Dunski,Lene Dalsten,Michel Grisoni,Birger Lindberg Møller +8 more
TL;DR: Desorption electrospray ionization mass spectrometry imaging (DESI-MSI) of vanilla pod sections demonstrates that vanillin glucoside is preferentially localized within the mesocarp and placental laminae whereas vanillin isPreferentially localization within the Mesocarp.
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