Datasets
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Transcriptomics datasets for Clostridium autoethanogenum grown on CO in different environmental conditions
Diender, M. (Creator), Koehorst, J. (Creator) & Machado de Sousa, D. (Creator), Wageningen University & Research, 25 Jan 2019
DOI: 10.4121/uuid:b6bd64a9-5bdb-4655-9829-520aa4600987
Dataset
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Comparison of 432 Pseudomonas strains through integration of genomic, functional, metabolic and expression data
Koehorst, J. (Creator), van Dam, J. C. J. (Contributor), van Heck, R. G. A. (Contributor), Saccenti, E. (Contributor), Martins dos Santos, V. (Contributor), Suarez Diez, M. (Contributor) & Schaap, P. (Contributor), Wageningen University & Research, 25 Sep 2018
DOI: 10.4121/uuid:948c10fe-7ea5-47f3-bdb2-d5b0f908820b
Dataset
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Expected and observed genotype complexity in prokaryotes: correlation between 16S-rRNA phylogeny and protein domain content
Koehorst, J. (Creator), Schaap, P. (Contributor) & Suarez Diez, M. (Contributor), Wageningen University & Research, 24 Oct 2018
DOI: 10.4121/uuid:37346f1e-f8cf-4112-ba4b-1223a3e4edda
Dataset
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The transcriptional response of bioreactor-grown Aspergillus niger cultures towards three oils
van der Veen, D. (Creator), van den Berg, R. A. (Creator) & de Graaff, L. (Creator), Wageningen University and Research Centre, 1 Sep 2009
https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE14285
Dataset
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The diurnal transcriptional landscape of the microalga Tetradesmus obliquus
Carreres, B. M. (Creator) & Martens, D. (Creator), Wageningen University & Research, 24 Sep 2018
https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-7009/
Dataset
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Rhizopus delemar grown under high and low oxygen conditions
Odoni, D. I. (Creator), Tamayo Ramos, J. A. (Creator), Sloothaak, J. (Creator), van Heck, R. G. A. (Creator), Martins dos Santos, V. (Creator), de Graaff, L. H. (Creator), Suarez Diez, M. (Creator) & Schaap, P. (Creator), Wageningen University, 16 Feb 2017
https://www.ebi.ac.uk/ena/data/view/PRJEB14210
Dataset
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Neochloris oleoabundans RNA sequencing of 5 growth conditions, 8 samples
Carreres, B. M. (Creator) & Martens, D. (Creator), Wageningen University & Research, 1 Feb 2019
https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-3651/
Dataset
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Exploring the associations between transcript levels and fluxes in constraint-based models of metabolism
Sinha, N. (Creator), van Schothorst, E. (Creator), Hooiveld, G. (Creator), Keijer, J. (Creator), Martins dos Santos, V. (Creator) & Suarez Diez, M. (Creator), Wageningen University & Research, 29 Nov 2021
DOI: 10.6084/m9.figshare.c.5726679
Dataset
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Assessment of Dietary Modulation of Inflammatory Tone (ADMIT)
Saccenti, E. (Creator), Ernst, R. (Creator) & Coolen, J. (Creator), Wageningen UR, 13 Dec 2012
http://studies.dbnp.org/study/show/96239
Dataset
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In silico-guided engineering of Pseudomonas putida towards growth under micro-oxic conditions
Kampers, L. F. C. (Creator), van Heck, R. G. A. (Creator), Donati, S. (Creator), Saccenti, E. (Creator), Volkers, R. J. M. (Creator), Schaap, P. (Creator), Suarez Diez, M. (Creator), Nikel, P. I. (Creator) & Martins dos Santos, V. (Creator), Wageningen University & Research, 23 Oct 2019
DOI: 10.6084/m9.figshare.c.4708994
Dataset
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The effect of Clostridium difficile toxins on gene expression profiles in intestinal Caco-2 cells
de Wit, N. (Creator), Venkatasubramanian, P. B. (Creator), Saccenti, E. (Creator) & Mes, J. (Creator), Wageningen University & Research, 30 Apr 2021
https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE100541
Dataset
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Genome-scale metabolic modeling underscores the potential of Cutaneotrichosporon oleaginosus ATCC 20509 as a cell factory for biofuel production
Pham, N. (Creator), Reijnders, M. (Creator), Suarez Diez, M. (Creator), Nijsse, B. (Creator), Springer, J. (Creator), Eggink, G. (Creator) & Schaap, P. (Creator), Wageningen University & Research, 7 Jan 2021
DOI: 10.6084/m9.figshare.13535813
Dataset
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Annotated genomes used in the publication: Machine learning approaches to predict the plant-associated phenotype of Xanthomonas strains
Koehorst, J. (Creator), Poncheewin, W. (Creator), Schaap, P. (Creator) & te Molder, D. (Creator), Wageningen University & Research, 8 Jul 2021
DOI: 10.4121/14546625
Dataset
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Comparative genomic and physiological analysis of Trichococcus species
Strepis, N. (Creator), Sanchez Andrea, I. (Creator), van Gelder, T. (Creator), van Kruistum, H. (Creator), Shapiro, N. (Creator), Kyrpides, N. (Creator), Göker, M. (Creator), Klenk, H. P. (Creator), Schaap, P. (Creator), Stams, A. J. M. (Creator) & Machado de Sousa, D. (Creator), Wageningen University, 10 Apr 2016
https://www.ebi.ac.uk/ena/data/view/PRJEB12704
Dataset
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Effects of Argonaute on gene expression in Thermus thermophilus
Swarts, D. (Creator), Koehorst, J. (Creator), Westra, E. R. (Creator), Schaap, P. (Creator) & van der Oost, J. (Creator), Wageningen University, 23 Apr 2015
https://www.ebi.ac.uk/ena/data/view/PRJEB8709
Dataset
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Genome sequencing of one-carbon degrading acetogenic bacteria Moorella glycerini Strain NMP
Liebensteiner, M. (Creator), Pinkse, M. W. H. (Creator), Nijsse, B. (Creator), Verhaert, P. D. E. M. (Creator), Tsesmetzis, N. (Creator), Stams, A. J. M. (Creator) & Lomans, B. (Creator), Wageningen University, 5 Feb 2015
http://www.ebi.ac.uk/ena/data/view/PRJEB8377
Dataset
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Comparative genomic and physiological analysis of Trichococcus species
Strepis, N. (Creator), Sanchez Andrea, I. (Creator), van Gelder, T. (Creator), van Kruistum, H. (Creator), Shapiro, N. (Creator), Kyrpides, N. (Creator), Göker, M. (Creator), Klenk, H. P. (Creator), Schaap, P. (Creator), Stams, A. J. M. (Creator) & Machado de Sousa, D. (Creator), Wageningen University, 10 Apr 2016
https://www.ebi.ac.uk/ena/data/view/PRJEB12707
Dataset
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A metabolic and physiological design study of Pseudomonas putida KT2440 capable of anaerobic respiration
Martens, L. (Creator), Koehorst, J. (Creator), van Heck, R. (Creator), Suarez Diez, M. (Creator), Stams, F. (Creator) & Schaap, P. (Creator), Wageningen University & Research, 7 Jan 2021
DOI: 10.6084/m9.figshare.13533055
Dataset
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CRISPR Cas3 Plasmid degradation assays
Kunne, T. A. (Creator), Kieper, S. (Creator), Bannenberg, J. (Creator), Vogel, A. I. M. (Creator), Miellet, W. (Creator), Klein, M. (Creator), Depken, M. (Creator), Suarez Diez, M. (Creator) & Brouns, S. J. J. (Creator), Wageningen University, 16 Aug 2016
https://www.ebi.ac.uk/ena/data/view/PRJEB13999
Dataset
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Genome sequencing of one-carbon degrading acetogenic bacteria Sporomusa An4
Visser, M. (Creator), Pieterse, M. M. (Creator), Pinkse, M. W. H. (Creator), Nijsse, B. (Creator), Verhaert, P. D. E. M. (Creator), de Vos, W. (Creator) & Stams, A. J. M. (Creator), Wageningen University, 28 Feb 2015
https://www.ebi.ac.uk/ena/data/view/PRJEB8443
Dataset
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Long-chain fatty acids degradation by Desulfomonile species, proposal of “Candidatus Desulfomonile palmitatoxidans” and emended description of the genus Desulfomonile
Alves, J. I. (Creator), Salvador, A. F. (Creator), Castro, A. R. (Creator), Zheng, Y. (Creator), Nijsse, B. (Creator), Atashgahi, S. (Creator), Machado de Sousa, D. (Creator), Stams, F. (Creator), Alves, M. M. (Creator) & Cavaleiro, A. J. (Creator), Wageningen University, 17 Feb 2020
https://www.ebi.ac.uk/ena/browser/view/PRJEB35900
Dataset
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Complete genome sequence of the Akkermansia glycaniphila strain PytT a mucin-degrading specialist of the reticulated python gut
Ouwerkerk, J. P. (Creator), Koehorst, J. (Creator), Schaap, P. (Creator), Ritari, J. (Creator), Paulin, L. (Creator), Belzer, C. (Creator) & de Vos, W. (Creator), Wageningen University, 2 Sep 2016
https://www.ebi.ac.uk/ena/data/view/PRJEB15121
Dataset
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Transcriptomics Profiles of Eight Cancers From GEO
Saccenti, E. (Creator), Wageningen University & Research, 10 Dec 2020
Dataset
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Microbial community response of an organohalide respiring enrichment culture to permanganate oxidation
Sutton, N. (Creator), Atashgahi, S. (Creator), Saccenti, E. (Creator), Grotenhuis, T. (Creator), Smidt, H. (Creator) & Rijnaarts, H. (Creator), Wageningen University, 29 May 2015
https://www.ebi.ac.uk/ena/data/view/PRJEB8632
Dataset
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Akkermansia transcriptome response to mucin and/or glucose growth medium
Ottman, N. A. (Creator), Davids, M. (Creator), Suarez Diez, M. (Creator), Boeren, S. (Creator), Schaap, P. (Creator), Martins dos Santos, V. (Creator), Smidt, H. (Creator), Belzer, C. (Creator) & de Vos, W. (Creator), Wageningen University, 9 May 2017
https://www.ebi.ac.uk/ena/data/view/PRJEB9527
Dataset