Skip to primary content. Skip to secondary content. Source code & documentation. DbNP: The Phenotype Data Infrastructure. An open source application suite to store biological studies. The central module (GSCF) stores the study design, which links out to modules that contain the measurements of specific measurement platforms.
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« | dbnp.org Reviews
https://dbnp.org
Skip to primary content. Skip to secondary content. Source code & documentation. DbNP: The Phenotype Data Infrastructure. An open source application suite to store biological studies. The central module (GSCF) stores the study design, which links out to modules that contain the measurements of specific measurement platforms.
dbnp.org
Source code & documentation «
http://www.dbnp.org/source-code
Skip to primary content. Skip to secondary content. Source code & documentation. Source code & documentation. The source code of the Phenotype Database can be found on github ( https:/ github.com/PhenotypeFoundation. Http:/ test.dbnp.org/api. Running your own instance.
Cite Us «
http://www.dbnp.org/cite-us
Skip to primary content. Skip to secondary content. Source code & documentation. Challenges of molecular nutrition research 6: the nutritional phenotype database to store, share and evaluate nutritional systems biology studies. Ben van Ommen, Jildau Bouwman, Lars O Dragsted, Christian A Drevon, Ruan Elliott, Philip de Groot, Jim Kaput, John C Mathers, Michael Müller, Fre Pepping, Jahn Saito, Augustin Scalbert, Marijana Radonjic, Philippe Rocca-Serra, Anthony Travis, Suzan Wopereis and Chris T Evelo.
Nutritional instance «
http://www.dbnp.org/nutritional-instance
Skip to primary content. Skip to secondary content. Source code & documentation. At studies.dbnp.org. Several projects store their studies. Please make an account on this website if you would like to share your study within the nutritional community. Studies can be kept private till the owner wants to open the study to either specific people or make the study public. Please realize that the administrators of this instance can view all studies. And ask for an account.
Data Processing «
http://www.dbnp.org/data-processing
Skip to primary content. Skip to secondary content. Source code & documentation. One of the preferred ways to process data for storage in the dbNP system is via the ArrayAnalysis.org. Web portal. This portal features modules to perform a variety of data analysis steps, including quality control and data normalisation methods, statistical analysis, and pathway analysis. The statistics module performs limma. The pathway analysis module runs pathway statistics in PathVisio.
Partners «
http://www.dbnp.org/partners
Skip to primary content. Skip to secondary content. Source code & documentation. NutriGenomics Organisaiton (NuGO) Initiator and co-developer. Netherlands Metabolomics Centre (NMC) Initiator and co-developer.
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Software « Phenotype Foundation
http://phenotypefoundation.org/category/software
Skip to primary content. Skip to secondary content. January 25, 2012. GSCF is the main module of dbNP, the Nutritional Phenotype Database software project. That was initiatied by NuGO, and further carried on within Netherlands Metabolomics Centre and Netherlands Bioinformatics Centre. Click here for source code. Click here for the GSCF User Guide (PDF). January 25, 2012. It complies with the ‘dbNP omics submodule’ standard by serving clean data via the dbNP clean data layer. Click here for source code.
Phenotype Database
https://dashin.eu/interventionstudies/measurements/Meta-transcriptome
Create a new study. Not a member yet? A password will be emailed to you. Please log in or sign up. By publishing the design. Of this study you agree that:. The information about this study will be available under the Creative Commons Attribution-ShareAlike 3.0 Unported License. You are legally entitled to accept this agreement. Of the assays can be made public separately. Do you agree to these terms? By publishing this assay. You are legally entitled to accept this agreement. Do you agree to these terms?
Blog « Phenotype Foundation
http://phenotypefoundation.org/category/blog
Skip to primary content. Skip to secondary content. October 13, 2011. So what does open source mean, really? I would like to skip the legal part and review the community side in this post. What defines and makes a succesful open source project? Why have projects such as Linux, Firefox, Apache, MySQL, Postgres, Plone etc. changed the world to an extent that 20th century IT gigants such as Microsoft now have to change strategy and claim. To be committed to openness? The Cathedral and the Bazaar. So let's c...
Study List
https://phenotypedb.ctmm-trait.nl/gscf/study/list
Create a new study. By publishing the design. Of this study you agree that:. The information about this study will be available under the Creative Commons Attribution-ShareAlike 3.0 Unported License. You are legally entitled to accept this agreement. Of the assays can be made public separately. Do you agree to these terms? By publishing this assay. The measurements in this assay will be available under the Creative Commons Attribution-ShareAlike 3.0 Unported License. Do you agree to these terms?
Nutritional Phenotype Project
http://nutrigenomics.topshare.com/dbnp
Visit the Genes &. The Nutritional Phenotype project. Each module of the nutritional phenotype database is embedded in an environment of standard procedures and protocols. The NuGO SOP Portal. Has a structure which is identical to the dbNP. The nutritional phenotype database is extensively described in a publication. In Genes & #160;Nutrition 2010. Technical discussions and feature information can be found on. The functional specifications of dbNP. Biological issues are discussed on:.
Phenotype Database
https://phenotypedb.ctmm-trait.nl/gscf/visualize/index
Create a new study. Please log in or sign up. By publishing the design. Of this study you agree that:. The information about this study will be available under the Creative Commons Attribution-ShareAlike 3.0 Unported License. You are legally entitled to accept this agreement. Of the assays can be made public separately. Do you agree to these terms? By publishing this assay. The measurements in this assay will be available under the Creative Commons Attribution-ShareAlike 3.0 Unported License.
Publication List
https://phenotypedb.ctmm-trait.nl/gscf/publication/list
Create a new study. Bacillus amyloliquefaciens GA1 as a source of potent antibiotics and other secondary metabolites for biocontrol of plant pathogens. Arguelles-Arias A, Ongena M, Halimi B, Lara Y, Brans A, Joris B, Fickers P. The role of KCNQ1 in mouse and human gastrointestinal cancers. Than BL, Goos JA, Sarver AL, OSullivan MG, Rod A, Starr TK, Fijneman RJ, Meijer GA, Zhao L, Zhang Y, Largaespada DA, Scott PM, Cormier RT. Goos JA, Hiemstra AC, Coupà VM, Diosdado B, Kooijman W, Delis-Van Diemen...
Bioinformatics Services - BiGCaT - Wiki
http://www.bigcat.unimaas.nl/wiki/index.php/Bioinformatics_Services
From BiGCaT - Wiki. Almost all of these projects are collaborative projects with other research groups, see the individual project pages for details. Quality Control, pre-processing, normalization and statistics of Affymetrix microarrays. Software framework for identifier mapping. Development site for Systems Biology infrastructure. Pathway editor and pathway analysis tool. Pathways for the people. NTC-R server (NTC calculation server). Affymetrix MAS5 and GCOS. Agilent Feature Extraction software. PathV...
Phenotype Database
https://dashin.eu/interventionstudies/studyEdit/add
Create a new study. Not a member yet? A password will be emailed to you. Please log in or sign up. By publishing the design. Of this study you agree that:. The information about this study will be available under the Creative Commons Attribution-ShareAlike 3.0 Unported License. You are legally entitled to accept this agreement. Of the assays can be made public separately. Do you agree to these terms? By publishing this assay. You are legally entitled to accept this agreement. Do you agree to these terms?
Phenotype Database
https://dashin.eu/interventionstudies/measurements/WholeGenomeSequencing
Create a new study. Not a member yet? A password will be emailed to you. Please log in or sign up. By publishing the design. Of this study you agree that:. The information about this study will be available under the Creative Commons Attribution-ShareAlike 3.0 Unported License. You are legally entitled to accept this agreement. Of the assays can be made public separately. Do you agree to these terms? By publishing this assay. You are legally entitled to accept this agreement. Do you agree to these terms?
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Skip to primary content. Skip to secondary content. Source code & documentation. DbNP: The Phenotype Data Infrastructure. An open source application suite to store biological studies. The central module (GSCF) stores the study design, which links out to modules that contain the measurements of specific measurement platforms.
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