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Items: 1 to 20 of 108

1.

FAIRDOMHub: a repository and collaboration environment for sharing systems biology research.

Wolstencroft K, Krebs O, Snoep JL, Stanford NJ, Bacall F, Golebiewski M, Kuzyakiv R, Nguyen Q, Owen S, Soiland-Reyes S, Straszewski J, van Niekerk DD, Williams AR, Malmström L, Rinn B, Müller W, Goble C.

Nucleic Acids Res. 2017 Jan 4;45(D1):D404-D407. doi: 10.1093/nar/gkw1032. Epub 2016 Nov 28.

2.

KiMoSys: a web-based repository of experimental data for KInetic MOdels of biological SYStems.

Costa RS, Veríssimo A, Vinga S.

BMC Syst Biol. 2014 Aug 13;8:85. doi: 10.1186/s12918-014-0085-3.

3.

BioPP: a tool for web-publication of biological networks.

Viswanathan GA, Nudelman G, Patil S, Sealfon SC.

BMC Bioinformatics. 2007 May 22;8:168.

4.

PGP repository: a plant phenomics and genomics data publication infrastructure.

Arend D, Junker A, Scholz U, Schüler D, Wylie J, Lange M.

Database (Oxford). 2016 Apr 17;2016. pii: baw033. doi: 10.1093/database/baw033. Print 2016.

5.

SEEK: a systems biology data and model management platform.

Wolstencroft K, Owen S, Krebs O, Nguyen Q, Stanford NJ, Golebiewski M, Weidemann A, Bittkowski M, An L, Shockley D, Snoep JL, Mueller W, Goble C.

BMC Syst Biol. 2015 Jul 11;9:33. doi: 10.1186/s12918-015-0174-y.

6.

PathCase-SB: integrating data sources and providing tools for systems biology research.

Coskun SA, Qi X, Cakmak A, Cheng E, Cicek AE, Yang L, Jadeja R, Dash RK, Lai N, Ozsoyoglu G, Ozsoyoglu ZM.

BMC Syst Biol. 2012 Jun 14;6(1):67. doi: 10.1186/1752-0509-6-67.

7.

A FAIR guide for data providers to maximise sharing of human genomic data.

Corpas M, Kovalevskaya NV, McMurray A, Nielsen FGG.

PLoS Comput Biol. 2018 Mar 15;14(3):e1005873. doi: 10.1371/journal.pcbi.1005873. eCollection 2018 Mar.

8.

Combining computational models, semantic annotations and simulation experiments in a graph database.

Henkel R, Wolkenhauer O, Waltemath D.

Database (Oxford). 2015 Mar 8;2015. pii: bau130. doi: 10.1093/database/bau130. Print 2015.

9.

Social pathway annotation: extensions of the systems biology metabolic modelling assistant.

Navas-Delgado I, Real-Chicharro A, Medina MÁ, Sánchez-Jiménez F, Aldana-Montes JF.

Brief Bioinform. 2011 Nov;12(6):576-87. doi: 10.1093/bib/bbq061. Epub 2010 Oct 21.

PMID:
20965999
10.

Data management and data enrichment for systems biology projects.

Wittig U, Rey M, Weidemann A, Müller W.

J Biotechnol. 2017 Nov 10;261:229-237. doi: 10.1016/j.jbiotec.2017.06.007. Epub 2017 Jun 10. Review.

11.

The SBOL Stack: A Platform for Storing, Publishing, and Sharing Synthetic Biology Designs.

Madsen C, McLaughlin JA, Mısırlı G, Pocock M, Flanagan K, Hallinan J, Wipat A.

ACS Synth Biol. 2016 Jun 17;5(6):487-97. doi: 10.1021/acssynbio.5b00210. Epub 2016 Jun 8.

12.

The SEEK: a platform for sharing data and models in systems biology.

Wolstencroft K, Owen S, du Preez F, Krebs O, Mueller W, Goble C, Snoep JL.

Methods Enzymol. 2011;500:629-55. doi: 10.1016/B978-0-12-385118-5.00029-3.

PMID:
21943917
13.

NDEx: A Community Resource for Sharing and Publishing of Biological Networks.

Pillich RT, Chen J, Rynkov V, Welker D, Pratt D.

Methods Mol Biol. 2017;1558:271-301. doi: 10.1007/978-1-4939-6783-4_13.

PMID:
28150243
14.

Accelerating cancer systems biology research through Semantic Web technology.

Wang Z, Sagotsky J, Taylor T, Shironoshita P, Deisboeck TS.

Wiley Interdiscip Rev Syst Biol Med. 2013 Mar-Apr;5(2):135-51. doi: 10.1002/wsbm.1200. Epub 2012 Nov 27. Review.

15.

PathCase-SB architecture and database design.

Cakmak A, Qi X, Coskun SA, Das M, Cheng E, Cicek AE, Lai N, Ozsoyoglu G, Ozsoyoglu ZM.

BMC Syst Biol. 2011 Nov 9;5:188. doi: 10.1186/1752-0509-5-188.

16.

Systematic integration of experimental data and models in systems biology.

Li P, Dada JO, Jameson D, Spasic I, Swainston N, Carroll K, Dunn W, Khan F, Malys N, Messiha HL, Simeonidis E, Weichart D, Winder C, Wishart J, Broomhead DS, Goble CA, Gaskell SJ, Kell DB, Westerhoff HV, Mendes P, Paton NW.

BMC Bioinformatics. 2010 Nov 29;11:582. doi: 10.1186/1471-2105-11-582.

17.

The FAIR guiding principles for data stewardship: fair enough?

Boeckhout M, Zielhuis GA, Bredenoord AL.

Eur J Hum Genet. 2018 Jul;26(7):931-936. doi: 10.1038/s41431-018-0160-0. Epub 2018 May 17. Review.

PMID:
29777206
18.

BioModels Database: An enhanced, curated and annotated resource for published quantitative kinetic models.

Li C, Donizelli M, Rodriguez N, Dharuri H, Endler L, Chelliah V, Li L, He E, Henry A, Stefan MI, Snoep JL, Hucka M, Le Novère N, Laibe C.

BMC Syst Biol. 2010 Jun 29;4:92. doi: 10.1186/1752-0509-4-92.

19.
20.

The project data sphere initiative: accelerating cancer research by sharing data.

Green AK, Reeder-Hayes KE, Corty RW, Basch E, Milowsky MI, Dusetzina SB, Bennett AV, Wood WA.

Oncologist. 2015 May;20(5):464-e20. doi: 10.1634/theoncologist.2014-0431. Epub 2015 Apr 15.

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