Peter Schaap

Search results

• Expected and observed genotype complexity in prokaryotes: correlation between 16S-rRNA phylogeny and protein domain content

  Koehorst, J. J. (Creator), Schaap, P. J. (Contributor) & Suarez Diez, M. (Contributor), Wageningen University & Research, 24 Oct 2018

  DOI: 10.4121/uuid:37346f1e-f8cf-4112-ba4b-1223a3e4edda

  Dataset

• Comparison of 432 Pseudomonas strains through integration of genomic, functional, metabolic and expression data

  Koehorst, J. J. (Creator), van Dam, J. C. J. (Contributor), van Heck, R. G. A. (Contributor), Saccenti, E. (Contributor), Martins dos Santos, V. A. P. (Contributor), Suarez Diez, M. (Contributor) & Schaap, P. J. (Contributor), Wageningen University & Research, 25 Sept 2018

  DOI: 10.4121/uuid:948c10fe-7ea5-47f3-bdb2-d5b0f908820b

  Dataset

• Mechanistic study on trophic interaction between mucosal keystone species and butyrogenic gut commensals

  Chia, L. W. (Creator), Hornung, B. V. H. (Creator), Aalvink, S. (Creator), Schaap, P. J. (Creator), de Vos, W. M. (Creator), Knol, J. (Creator) & Belzer, C. (Creator), Wageningen University, 17 Mar 2018

  https://www.ebi.ac.uk/ena/data/view/PRJEB20031

  Dataset

• Comparative genomic and physiological analysis of Trichococcus species

  Strepis, N. (Creator), Sanchez Andrea, I. (Creator), van Gelder, A. H. (Creator), van Kruistum, H. (Creator), Shapiro, N. (Creator), Kyrpides, N. (Creator), Göker, M. (Creator), Klenk, H. P. (Creator), Schaap, P. J. (Creator), Stams, A. J. M. (Creator) & Machado de Sousa, D. Z. (Creator), Wageningen University, 10 Apr 2016

  https://www.ebi.ac.uk/ena/data/view/PRJEB12706

  Dataset

• Comparative genomic and physiological analysis of Trichococcus species

  Strepis, N. (Creator), Sanchez Andrea, I. (Creator), van Gelder, A. H. (Creator), van Kruistum, H. (Creator), Shapiro, N. (Creator), Kyrpides, N. (Creator), Göker, M. (Creator), Klenk, H. P. (Creator), Schaap, P. J. (Creator), Stams, A. J. M. (Creator) & Machado de Sousa, D. Z. (Creator), Wageningen University, 10 Apr 2016

  https://www.ebi.ac.uk/ena/data/view/PRJEB12705

  Dataset

• Scenedesmus Obliquus UTEX393 draft genome

  Carreres, B. M. (Creator), de Jaeger, L. (Creator), Springer, J. (Creator), Barbosa, M. J. (Creator), Breuer, G. (Creator), van den End, E. J. (Creator), Kleinegris, D. M. M. (Creator), Schäffers, I. (Creator), Wolbert, E. J. H. (Creator), Zhang, H. (Creator), Lamers, P. P. (Creator), Martins dos Santos, V. A. P. (Creator), Wijffels, R. H. (Creator), Eggink, G. (Creator), Schaap, P. J. (Creator) & Martens, D. E. (Creator), Wageningen University, 1 Nov 2016

  https://www.ebi.ac.uk/ena/data/view/PRJEB15865

  Dataset

• 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. A. P. (Creator), de Graaff, L. H. (Creator), Suarez Diez, M. (Creator) & Schaap, P. J. (Creator), Wageningen University, 16 Feb 2017

  https://www.ebi.ac.uk/ena/data/view/PRJEB14210

  Dataset

• 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

• Comparative genomic and physiological analysis of Trichococcus species

  Strepis, N. (Creator), Sanchez Andrea, I. (Creator), van Gelder, A. H. (Creator), van Kruistum, H. (Creator), Shapiro, N. (Creator), Kyrpides, N. (Creator), Göker, M. (Creator), Klenk, H. P. (Creator), Schaap, P. J. (Creator), Stams, A. J. M. (Creator) & Machado de Sousa, D. Z. (Creator), Wageningen University, 10 Apr 2016

  https://www.ebi.ac.uk/ena/data/view/PRJEB12708

  Dataset

• A metabolic and physiological design study of Pseudomonas putida KT2440 capable of anaerobic respiration

  Martens, L. (Creator), Koehorst, J. J. (Creator), van Heck, R. (Creator), Suarez-Diez, M. (Creator), Stams, F. (Creator) & Schaap, P. J. (Creator), Wageningen University & Research, 7 Jan 2021

  DOI: 10.6084/m9.figshare.13533055

  Dataset

• Effects of Argonaute on gene expression in Thermus thermophilus

  Swarts, D. C. (Creator), Koehorst, J. J. (Creator), Westra, E. R. (Creator), Schaap, P. J. (Creator) & van der Oost, J. (Creator), Wageningen University, 23 Apr 2015

  https://www.ebi.ac.uk/ena/data/view/PRJEB8709

  Dataset

• Monascus ruber as cell factory for lactic acid production at low pH

  Weusthuis, R. A. (Creator), Mars, A. E. (Creator), Springer, J. (Creator), Wolbert, E. J. H. (Creator), van der Wal, H. (Creator), de Vrije, G. J. (Creator), Levisson, M. (Creator), Leprince, A. (Creator), Houweling-Tan, G. B. N. (Creator), Moers, A. P. H. A. (Creator), Hendriks, S. N. A. (Creator), Mendes, O. (Creator), Griekspoor, Y. (Creator), Werten, M. W. T. (Creator), Schaap, P. J. (Creator), van der Oost, J. (Creator) & Eggink, G. (Creator), Wageningen University, 29 Jun 2017

  https://www.ebi.ac.uk/ena/data/view/PRJEB20852

  Dataset

• 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. J. (Creator), Wageningen University & Research, 7 Jan 2021

  DOI: 10.6084/m9.figshare.13535813

  Dataset

• ANEO-GEM: The consensus genome-scale metabolic model of Anaerotignum neopropionicum

  Benito-Vaquerizo, S. (Creator), Parera Olm, I. (Creator), de Vroet, T. (Creator), Schaap, P. J. (Creator), Sousa, D. Z. (Creator), Martins dos Santos, V. A. P. (Creator) & Suarez-Diez, M. (Creator), Wageningen University & Research, 2022

  https://gitlab.com/wurssb/Modelling/Anaerotignum_neopropionicum

  Dataset

• human gut metagenome Transcriptome or Gene expression

  Leimena, M. M. (Creator), Ramiro-Garcia, J. (Creator), Davids, M. (Creator), van den Bogert, B. (Creator), Smidt, H. (Creator), Smid, E. J. (Creator), te Boekhorst, J. (Creator), Zoetendal, E. G. (Creator), Schaap, P. J. (Creator) & Kleerebezem, M. (Creator), Wageningen University & Research, 3 Apr 2013

  https://www.ncbi.nlm.nih.gov/bioproject/196118

  Dataset

• Comparative genomic and physiological analysis of Trichococcus species

  Strepis, N. (Creator), Sanchez Andrea, I. (Creator), van Gelder, A. H. (Creator), van Kruistum, H. (Creator), Shapiro, N. (Creator), Kyrpides, N. (Creator), Göker, M. (Creator), Klenk, H. P. (Creator), Schaap, P. J. (Creator), Stams, A. J. M. (Creator) & Machado de Sousa, D. Z. (Creator), Wageningen University, 10 Apr 2016

  https://www.ebi.ac.uk/ena/data/view/PRJEB12709

  Dataset

• Metabolic modeling of Mycoplasma hyopneumoniae for upstream process design

  Kamminga, T. (Creator), Slagman, S. J. (Creator), Bijlsma, J. J. E. (Creator), Martins dos Santos, V. A. P. (Creator), Suarez-Diez, M. (Creator) & Schaap, P. J. (Creator), Wageningen University & Research, 14 Jun 2017

  https://www.ncbi.nlm.nih.gov/bioproject/378403

  Dataset

• Comparative genomic and physiological analysis of Trichococcus species

  Strepis, N. (Creator), Sanchez Andrea, I. (Creator), van Gelder, A. H. (Creator), van Kruistum, H. (Creator), Shapiro, N. (Creator), Kyrpides, N. (Creator), Göker, M. (Creator), Klenk, H. P. (Creator), Schaap, P. J. (Creator), Stams, A. J. M. (Creator) & Machado de Sousa, D. Z. (Creator), Wageningen University, 10 Apr 2016

  https://www.ebi.ac.uk/ena/data/view/PRJEB12707

  Dataset

• A high quality Draft genome of Aspergillus niger N402 (ATCC 64974)

  Laothanachareon, T. (Creator), Tamayo Ramos, J. A. (Creator), Nijsse, B. (Creator) & Schaap, P. J. (Creator), Wageningen University, 8 Jan 2018

  https://www.ebi.ac.uk/ena/data/view/PRJEB21769

  Dataset

• 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

• NG-Tax, a highly accurate and validated pipeline for analysis of 16S rRNA amplicons from complex biomes

  Ramiro Garcia, J. (Creator), Hermes, G. D. A. (Creator), Giatsis, C. (Creator), Sipkema, D. (Creator), Zoetendal, E. G. (Creator), Schaap, P. J. (Creator) & Smidt, H. (Creator), Wageningen University, 11 Nov 2015

  https://www.ebi.ac.uk/ena/data/view/PRJEB11702

  Dataset

• 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. A. P. (Creator), Kaufmann, S. (Creator), Schaap, P. J. (Creator) & Gengenbacher, M. (Creator), Wageningen University, 17 Jun 2014

  http://www.ebi.ac.uk/ena/data/view/PRJEB6552

  Dataset

• Comparative genomic and physiological analysis of Trichococcus species

  Strepis, N. (Creator), Sanchez Andrea, I. (Creator), van Gelder, A. H. (Creator), van Kruistum, H. (Creator), Shapiro, N. (Creator), Kyrpides, N. (Creator), Göker, M. (Creator), Klenk, H. P. (Creator), Schaap, P. J. (Creator), Stams, A. J. M. (Creator) & Machado de Sousa, D. Z. (Creator), Wageningen University, 20 May 2016

  https://www.ebi.ac.uk/ena/data/view/PRJEB13128

  Dataset

• 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

• 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