Skip to main page content
Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2007 Mar;8(3):235-43.
doi: 10.1038/nrg2048. Epub 2007 Feb 13.

Beyond Standardization: Dynamic Software Infrastructures for Systems Biology


Beyond Standardization: Dynamic Software Infrastructures for Systems Biology

Morris A Swertz et al. Nat Rev Genet. .


Progress in systems biology is seriously hindered by slow production of suitable software infrastructures. Biologists need infrastructure that easily connects to work that is done in other laboratories, for which standardization is helpful. However, the infrastructure must also accommodate the specifics of their biological system, but appropriate mechanisms to support variation are currently lacking. We argue that a minimal computer language, and a software tool called a generator, can be used to quickly produce customized software infrastructures that 'systems biologists really want to have'.

Similar articles

See all similar articles

Cited by 20 articles

  • Modeling Crop Genetic Resources Phenotyping Information Systems.
    Germeier CU, Unger S. Germeier CU, et al. Front Plant Sci. 2019 Jun 21;10:728. doi: 10.3389/fpls.2019.00728. eCollection 2019. Front Plant Sci. 2019. PMID: 31281323 Free PMC article.
  • Systems biology: perspectives on multiscale modeling in research on endocrine-related cancers.
    Clarke R, Tyson JJ, Tan M, Baumann WT, Jin L, Xuan J, Wang Y. Clarke R, et al. Endocr Relat Cancer. 2019 Jun;26(6):R345-R368. doi: 10.1530/ERC-18-0309. Endocr Relat Cancer. 2019. PMID: 30965282 Free PMC article. Review.
  • RD-Connect, NeurOmics and EURenOmics: collaborative European initiative for rare diseases.
    Lochmüller H, Badowska DM, Thompson R, Knoers NV, Aartsma-Rus A, Gut I, Wood L, Harmuth T, Durudas A, Graessner H, Schaefer F, Riess O; RD-Connect consortium; NeurOmics consortium; EURenOmics consortium. Lochmüller H, et al. Eur J Hum Genet. 2018 Jun;26(6):778-785. doi: 10.1038/s41431-018-0115-5. Epub 2018 Feb 27. Eur J Hum Genet. 2018. PMID: 29487416 Free PMC article.
  • CNV-association meta-analysis in 191,161 European adults reveals new loci associated with anthropometric traits.
    Macé A, Tuke MA, Deelen P, Kristiansson K, Mattsson H, Nõukas M, Sapkota Y, Schick U, Porcu E, Rüeger S, McDaid AF, Porteous D, Winkler TW, Salvi E, Shrine N, Liu X, Ang WQ, Zhang W, Feitosa MF, Venturini C, van der Most PJ, Rosengren A, Wood AR, Beaumont RN, Jones SE, Ruth KS, Yaghootkar H, Tyrrell J, Havulinna AS, Boers H, Mägi R, Kriebel J, Müller-Nurasyid M, Perola M, Nieminen M, Lokki ML, Kähönen M, Viikari JS, Geller F, Lahti J, Palotie A, Koponen P, Lundqvist A, Rissanen H, Bottinger EP, Afaq S, Wojczynski MK, Lenzini P, Nolte IM, Sparsø T, Schupf N, Christensen K, Perls TT, Newman AB, Werge T, Snieder H, Spector TD, Chambers JC, Koskinen S, Melbye M, Raitakari OT, Lehtimäki T, Tobin MD, Wain LV, Sinisalo J, Peters A, Meitinger T, Martin NG, Wray NR, Montgomery GW, Medland SE, Swertz MA, Vartiainen E, Borodulin K, Männistö S, Murray A, Bochud M, Jacquemont S, Rivadeneira F, Hansen TF, Oldehinkel AJ, Mangino M, Province MA, Deloukas P, Kooner JS, Freathy RM, Pennell C, Feenstra B, Strachan DP, Lettre G, Hirschhorn J, Cusi D, Heid IM, Hayward C, Männik K, Beckmann JS, Loos RJF, Nyholt DR, Metspalu A, Eriksson JG, Weedon MN, Salomaa V, Franke L, Reymond A, Frayling TM, Kutalik Z. Macé A, et al. Nat Commun. 2017 Sep 29;8(1):744. doi: 10.1038/s41467-017-00556-x. Nat Commun. 2017. PMID: 28963451 Free PMC article.
  • GeNN: a code generation framework for accelerated brain simulations.
    Yavuz E, Turner J, Nowotny T. Yavuz E, et al. Sci Rep. 2016 Jan 7;6:18854. doi: 10.1038/srep18854. Sci Rep. 2016. PMID: 26740369 Free PMC article.
See all "Cited by" articles

Publication types

LinkOut - more resources