FAIRDOMHub: A repository and collaboration environment for sharing systems biology research

Nucleic Acids Research

Volumn 45, Issue D1, 2017, Pages D404-D407

  Wolstencroft, Katherine ^a   Krebs, Olga ^b   Snoep, Jacky L ^c,d   Stanford, Natalie J ^d   Bacall, Finn ^d   Golebiewski, Martin ^b   Kuzyakiv, Rostyk ^e   Nguyen, Quyen ^b   Owen, Stuart ^d   Soiland Reyes, Stian ^d   Straszewski, Jakub ^f   Van Niekerk, David D ^c   Williams, Alan R ^d   Malmström, Lars ^e   Rinn, Bernd ^f   Müller, Wolfgang ^b   Goble, Carole ^d  

^a LEIDEN UNIVERSITY   (Netherlands)

^b HEIDELBERG INSTITUTE FOR THEORETICAL STUDIES   (Germany)

^c STELLENBOSCH UNIVERSITY   (South Africa)

^d UNIVERSITY OF MANCHESTER   (United Kingdom)

^e UNIVERSITY OF ZURICH   (Switzerland)

^f ETH ZURICH   (Switzerland)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BIOINFORMATICS; DATA BASE; FAIRDOMHUB; INFORMATION DISSEMINATION; INFORMATION PROCESSING; INFORMATION SYSTEM; MATHEMATICAL MODEL; PUBLISHING; SYSTEM ANALYSIS; SYSTEMS BIOLOGY; WEB BROWSER; FACTUAL DATABASE; METABOLISM; PROCEDURES; RESEARCH;

CARBON;

CARBON; DATA CURATION; DATABASES, FACTUAL; INFORMATION DISSEMINATION; METABOLIC NETWORKS AND PATHWAYS; RESEARCH; SYSTEMS BIOLOGY;

EID: 85016073661     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkw1032     Document Type: Article

References (13)

1. Bauch, A., Adamczyk, I., Buczek, P., Elmer, F.J., Enimanev, K., Glyzewski, P., Kohler, M., Pylak, T., Quandt, A., Ramakrishnan, C. et al. (2011) openBIS: a flexible framework for managing and analyzing complex data in biology research. BMC Bioinformatics, 12, 468.
2. Wolstencroft, K., Owen, S., Krebs, O., Nguyen, Q., Stanford, N.J., Golebiewski, M., Weidemann, A., Bittkowski, M., An, L., Shockley, D. et al. (2015) SEEK: a systems biology data and model management platform. BMC Syst. Biol., 9, 3
3. Penkler, G., du Toit, F., Adams, W., Rautenbach, M., Palm, D.C., van Niekerk, D.D. and Snoep, J.L. (2015) Construction and validation of a detailed kinetic model of glycolysis in Plasmodium falciparum. FEBS J., 282, 1481-1511.
4. Wittig, U., Kania, R., Golebiewski, M., Rey, M., Shi, L., Jong, L., Algaa, E., Weidemann, A., Sauer-Danzwith, H., Mir, S. et al. (2012) SABIO-RK-database for biochemical reaction kinetics. Nucleic Acids Res., 40, D790-D796.
5. Li, C., Donizelli, M., Rodriguez, N., Dharuri, H., Endler, L., Chelliah, V., Li, L., He, E., Henry, A., Stefan, M.I. et al. (2010) BioModels Database: an enhanced, curated and annotated resource for published quantitative kinetic models. BMC Syst. Biol., 4, 92
6. Wolstencroft, K., Owen, S., Horridge, M., Krebs, O., Mueller, W., Snoep, J.L., du Preez, F. and Goble, C. (2011) RightField: embedding ontology annotation in spreadsheets. Bioinformatics, 27, 2021-2022.
7. Le Novere, N., Finney, A., Hucka, M., Bhalla, U.S., Campagne, F., Collado-Vides, J., Crampin, E.J., Halstead, M., Klipp, E., Mendes, P. et al. (2005) Minimum information requested in the annotation of biochemical models (MIRIAM). Nat. Biotechnol., 23, 1509-1515.
8. Olivier, B.G. and Snoep, J.L. (2004). Web-based kinetic modelling using JWS Online. Bioinformatics, 20, 2143-2144.
9. Bergmann, F.T., Cooper, J., Le Novere, N., Nickerson, D. and Waltemath, D. (2015) Simulation experiment description markup language (SED-ML) Level 1 Version 2. J. Integr. Bioinform., 12, 262.
10. Bergmann, F.T., Rodriguez, N. and Le Novere, N. (2015) COMBINE archive specification version 1. J. Integr. Bioinform., 12, 261.
11. Belhajjame, K., Zhao, J., Garijo, D., Gamble, M., Hettne, K., Palma, R., Mina, E., Corcho, O., Gómez-Pérez, J., Bechhofer, S. et al. (2015) Using a suite of ontologies for preserving workflow-centric research objects. J. Web Semantics, 32, 16-42.
12. Kouril, T., Esser, D., Kort, J., Westerhoff, H.V., Siebers, B. and Snoep, J.L. (2013) Intermediate instability at high temperature leads to low pathway efficiency for an in vitro reconstituted system of gluconeogenesis in Sulfolobus solfataricus. FEBS J., 280, 4666-4680.
13. Wilkinson, M.D., Dumontier, M., Aalbersberg, I.J., Appleton, G., Axton, M., Baak, A., Blomberg, N., Boiten, J.W., da Silva Santos, L.B., Bourne, P.E. et al. (2016) The FAIR Guiding Principles for scientific data management and stewardship scientific data 3. Sci. Data, 3, 160018.