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 Sept 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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Host and pathogen gene expression profiles in Necrotizing Soft Tissue Infections
Saccenti, E. (Creator), Wageningen University & Research, 30 Nov 2021
Dataset
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Determination of variability of fermentor-grown Aspergillus niger
van der Veen, D. (Creator), Pimenta Ferreira De Oliveira, J. (Creator), van den Berg, W. (Creator) & de Graaff, L. (Creator), Wageningen University and Research Centre, 31 Dec 2008
https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE11405
Dataset
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uncultured bacterium 16S ribosomal RNA gene, partial sequence
Méndez-Garcia, C. (Creator), Mesa, V. (Creator), Sprenger, R. R. (Creator), Richter, M. (Creator), Suarez Diez, M. (Creator), Solano, J. (Creator), Bargiela, R. (Creator), Golyshina, O. V. (Creator), Manteca, A. (Creator), Ramos, J. L. (Creator), Gallego, J. R. (Creator), Llorente, I. (Creator), Martins dos Santos, V. (Creator), Jensen, O. N. (Creator), Paláez, A. I. (Creator), Sánchez, J. (Creator) & Ferrer, M. (Creator), 24 Mar 2014
https://www.ncbi.nlm.nih.gov/popset/529116721
Dataset
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Transcriptional and physiological diurnal responses of Tetradesmus obliquus under light-dark cycles and nitrogen limitation
Carreres, B. M. (Creator) & Martens, D. (Creator), Wageningen University & Research, 30 May 2019
https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-7016/
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 Sept 2018
https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-7009/
Dataset
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Microbe enriched dual RNA sequencing of Mycobacterium bovis BCG infecting macrophage-like THP-1 cells
Rienksma, R. A. (Creator), Suarez Diez, M. (Creator), Mollenkopf, H. J. (Creator), Dolganov, G. M. (Creator), Dorhoi, A. (Creator), Schoolnik, G. K. (Creator), Martins dos Santos, V. (Creator), Kaufmann, S. (Creator), Schaap, P. (Creator) & Gengenbacher, M. (Creator), Wageningen University, 17 Jun 2014
http://www.ebi.ac.uk/ena/data/view/PRJEB6552
Dataset
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A high quality Draft genome of Aspergillus niger N402 (ATCC 64974)
Laothanachareon, T. (Creator), Tamayo Ramos, J. A. (Creator), Nijsse, B. (Creator) & Schaap, P. (Creator), Wageningen University, 8 Jan 2018
https://www.ebi.ac.uk/ena/data/view/PRJEB21769
Dataset
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RNA sequencing of Cutaneotrichosporon curvatum ATCC 20509 in two conditions. C/N of 2.8 and 28
Pham, N. (Creator), Reijnders, M. (Creator), Suarez Diez, M. (Creator), Nijsse, B. (Creator), Springer, J. (Creator), Eggink, G. (Creator) & Schaap, P. (Creator), Wageningen University, 14 Apr 2020
https://www.ebi.ac.uk/ena/browser/view/PRJEB34237
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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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 Sept 2016
https://www.ebi.ac.uk/ena/data/view/PRJEB15121
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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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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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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Classification of the plant-associated phenotype of Pseudomonas strains using genome properties
Poncheewin, W. (Creator), van Diepeningen, A. (Creator), van der Lee, T. (Creator), Suarez Diez, M. (Creator) & Schaap, P. (Creator), Wageningen University & Research, 20 Jul 2021
https://www.ncbi.nlm.nih.gov/bioproject/PRJEB45033
Dataset
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Genome-guided analysis allows the identification of novel physiological traits in Trichococcus species
Strepis, N. (Creator), Naranjo, H. D. (Creator), Meier-Kolthoff, J. P. (Creator), Göker, M. (Creator), Shapiro, N. (Creator), Kyrpides, N. C. (Creator), Klenk, H. P. (Creator), Schaap, P. (Creator), Stams, F. (Creator) & Machado de Sousa, D. (Creator), Wageningen University & Research, 9 Jan 2020
DOI: 10.6084/m9.figshare.c.4810569
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. P. (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/PRJEB12709
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/PRJEB12706
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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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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Genome sequence of organohalide-respiring Desulfoluna spongiiphila DBB and Desulfoluna butyratoxydans MSL71T
Peng, P. (Creator), Goris, T. (Creator), Lu, Y. (Creator), Nijsse, B. (Creator), Burrichter, A. (Creator), Schleheck, D. (Creator), Koehorst, J. (Creator), Liu, J. (Creator), Sipkema, D. (Creator), Sinninghe Damste, J. S. (Creator), Stams, F. (Creator), Häggblom, M. M. (Creator), Smidt, H. (Creator) & Atashgahi, S. (Creator), Wageningen University, 15 May 2019
https://www.ebi.ac.uk/ena/data/view/PRJEB31368
Dataset
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Diversity of tryptophan halogenases in sponges of the genus Aplysina
Gutleben, J. (Creator), Koehorst, J. (Creator), Mcpherson, K. (Creator), Pomponi, S. (Creator), Wijffels, R. (Creator), Smidt, H. (Creator) & Sipkema, D. (Creator), Wageningen University, 17 Sept 2018
https://www.ncbi.nlm.nih.gov/bioproject/PRJNA491469/
Dataset