Biological data; Biomolecular Models; Biotechnology; ELIXIR Communities; FAIR; Network Biology; Systems Biology; Systems Medicine; Europe; Databases, Factual; Biochemistry, Genetics and Molecular Biology (all); Immunology and Microbiology (all); Pharmacology, Toxicology and Pharmaceutics (all); General Pharmacology, Toxicology and Pharmaceutics; General Immunology and Microbiology; General Biochemistry, Genetics and Molecular Biology; General Medicine
Abstract :
[en] In this white paper, we describe the founding of a new ELIXIR Community - the Systems Biology Community - and its proposed future contributions to both ELIXIR and the broader community of systems biologists in Europe and worldwide. The Community believes that the infrastructure aspects of systems biology - databases, (modelling) tools and standards development, as well as training and access to cloud infrastructure - are not only appropriate components of the ELIXIR infrastructure, but will prove key components of ELIXIR's future support of advanced biological applications and personalised medicine. By way of a series of meetings, the Community identified seven key areas for its future activities, reflecting both future needs and previous and current activities within ELIXIR Platforms and Communities. These are: overcoming barriers to the wider uptake of systems biology; linking new and existing data to systems biology models; interoperability of systems biology resources; further development and embedding of systems medicine; provisioning of modelling as a service; building and coordinating capacity building and training resources; and supporting industrial embedding of systems biology. A set of objectives for the Community has been identified under four main headline areas: Standardisation and Interoperability, Technology, Capacity Building and Training, and Industrial Embedding. These are grouped into short-term (3-year), mid-term (6-year) and long-term (10-year) objectives.
Disciplines :
Biotechnology
Author, co-author :
Martins Dos Santos, Vitor; Laboratory of Bioprocess Engineering, Wageningen University & Research, Wageningen, 6708 PB, The Netherlands
Anton, Mihail ; Department of Biology and Biological Engineering, National Bioinformatics Infrastructure Sweden, Science for Life Laboratory, Chalmers University of Technology, Gothenburg, SE-41258, Sweden
Szomolay, Barbara; Division of Infection and Immunity, School of Medicine, Cardiff University, Cardiff, UK
OSTASZEWSKI, Marek ; University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > Bioinformatics Core
Arts, Ilja; Maastricht Centre for Systems Biology (MaCSBio), Maastricht University, Maastricht, 6200 MD, The Netherlands
Benfeitas, Rui; National Bioinformatics Infrastructure Sweden (NBIS), Science for Life Laboratory, Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden
Dominguez Del Angel, Victoria ; Research and Platforms Department, Genopole, Evry-Courcouronnes, 91030, France
Ferk, Polonca; Faculty of Medicine, Institute for Biostatistics and Medical Informatics, Centre ELIXIR-SI, University of Ljubljana, Ljubljana, SI-1000, Slovenia
Fey, Dirk; Systems Biology Ireland, School of Medicine, University College Dublin, Dublin, 4, Ireland
Goble, Carole; Department of Computer Science, The University of Manchester, Manchester, M13 9PL, UK
Golebiewski, Martin ; Heidelberg Institute for Theoretical Studies - HITS, Heidelberg, 69118, Germany
Gruden, Kristina; Department of Biotechnology and Systems Biology, National Institute of Biology, Ljubljana, SI-1000, Slovenia
Heil, Katharina F ; ELIXIR Hub, Hinxton, Cambridge, CB10 1SD, UK
Hermjakob, Henning; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Hinxton, Cambridge, CB10 1SD, UK
Klapa, Maria I ; Metabolic Engineering & Systems Biology Laboratory, Institute of Chemical Engineering Sciences, Foundation for Research & Technology - Hellas (FORTH/ICE-HT), Patras, 26504, Greece
Koehorst, Jasper; Laboratory of Systems and Synthetic Biology, Wageningen University & Research, Wageningen, 6708WE, The Netherlands
Kolodkin, Alexey ; ISBE.NL, VU University of Amsterdam, Amsterdam, The Netherlands ; Competence Center for Methodology and Statistics, Transversal Translational Medicine, Translational Medicine Operations Hub, Luxembourg Institute of Health, Strassen, L-1445, Luxembourg
Kutmon, Martina ; Maastricht Centre for Systems Biology (MaCSBio), Maastricht University, Maastricht, 6200 MD, The Netherlands ; Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD, The Netherlands
Leskošek, Brane; Faculty of Medicine, Institute for Biostatistics and Medical Informatics, Centre ELIXIR-SI, University of Ljubljana, Ljubljana, SI-1000, Slovenia
Moretti, Sébastien ; SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland
Müller, Wolfgang; Heidelberg Institute for Theoretical Studies - HITS, Heidelberg, 69118, Germany
Pagni, Marco; SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland
Rezen, Tadeja; Faculty of Medicine, University of Ljubljana, Ljubljana, SI-1000, Slovenia
Rocha, Miguel; Centre of Biological Engineering, University of Minho, Braga, Portugal
Rozman, Damjana; Faculty of Medicine, University of Ljubljana, Ljubljana, SI-1000, Slovenia
Šafránek, David ; Faculty of Informatics, Masaryk University, Brno, 602 00, Czech Republic
Sheriff, Rahuman S Malik ; European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Hinxton, Cambridge, CB10 1SD, UK
Suarez Diez, Maria ; Laboratory of Systems and Synthetic Biology, Wageningen University & Research, Wageningen, 6708WE, The Netherlands
Van Steen, Kristel; BIO3 - Systems Genetics, GIGA-R Medical Genomics, University of Liege, Liege, 4000, Belgium ; BIO3 - Laboratory for Systems Medicine, Department of Human Genetics, KU Leuven, Leuven, 3000, Belgium
Westerhoff, Hans V ; ISBE.NL, VU University of Amsterdam, Amsterdam, The Netherlands
Wittig, Ulrike ; Heidelberg Institute for Theoretical Studies - HITS, Heidelberg, 69118, Germany
Wolstencroft, Katherine ; Leiden Institute of Advanced Computer Science, Leiden University, Leiden, 2333 CA, The Netherlands
Zupanic, Anze ; Department of Biotechnology and Systems Biology, National Institute of Biology, Ljubljana, SI-1000, Slovenia
Evelo, Chris T ; Department of Bioinformatics - BiGCaT, NUTRIM, Maastricht University, Maastricht, 6200 MD, The Netherlands
Hancock, John M ; Faculty of Medicine, University of Ljubljana, Ljubljana, SI-1000, Slovenia
We thank ELIXIR for financial and administrative support during the development of this white paper and its support of the ELIXIR Systems Biology Focus Group.
Amberger JS Bocchini CA Scott AF: OMIM.org: leveraging knowledge across phenotype-gene relationships. Nucleic Acids Res. 2019;47(D1):D1038-D1043. 30445645 10.1093/nar/gky1151 6323937
Apostolopoulos Y Lich KH Lemke M: Complex systems and population health: a primer.Oxford University Press, New York, NY.2020. Reference Source
Athar A Füllgrabe A George N: ArrayExpress update - from bulk to single-cell expression data. Nucleic Acids Res. 2019;47(D1):D711-D715. 30357387 10.1093/nar/gky964 6323929
Barillari C Ottoz DSM Fuentes-Serna JM: openBIS ELN-LIMS: an open-source database for academic laboratories. Bioinformatics. 2016;32(4):638-640. 26508761 10.1093/bioinformatics/btv606 4743625
Barrette AM Bouhaddou M Birtwistle MR: Integrating Transcriptomic Data with Mechanistic Systems Pharmacology Models for Virtual Drug Combination Trials. ACS Chem Neurosci. 2018;9(1):118-129. 28950062 10.1021/acschemneuro.7b00197 5771884
Béal J Pantolini L Noël V: Personalized logical models to investigate cancer response to BRAF treatments in melanomas and colorectal cancers. PLOS Comput Biol. 2021;17(1):e1007900. 33507915 10.1371/journal.pcbi.1007900 7872233
Beard N Bacall F Nenadic A: TeSS: a platform for discovering life-science training opportunities. Bioinformatics. 2020;36(10):3290-3291. 32044952 10.1093/bioinformatics/btaa047 7214044
Bhinder B Elemento O: Towards a better cancer precision medicine: Systems biology meets immunotherapy. Curr Opin Syst Biol. 2017;2:67-73. 28989987 10.1016/j.coisb.2017.01.006 5628760
Capella-Gutierrez S de la Iglesia D Haas J: Lessons Learned: Recommendations for Establishing Critical Periodic Scientific Benchmarking.Bioinformatics, bioRxiv.2017. 10.1101/181677
Caspi R Billington R Keseler IM: The MetaCyc database of metabolic pathways and enzymes - a 2019 update. Nucleic Acids Res. 2020;48(D1):D445-D453. 31586394 10.1093/nar/gkz862 6943030
Chang A Jeske L Ulbrich S: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 2021;49(D1):D498-D508. 33211880 10.1093/nar/gkaa1025 7779020
Collin CB Gebhardt T Golebiewski M: Computational Models for Clinical Applications in Personalized Medicine'-Guidelines and Recommendations for Data Integration and Model Validation. J Pers Med. 2022;12(2):166. 35207655 10.3390/jpm12020166 8879572
Crawford N Salvucci M Hellwig CT: Simulating and predicting cellular and in vivo responses of colon cancer to combined treatment with chemotherapy and IAP antagonist Birinapant/TL32711. Cell Death Differ. 2018;25(11):1952-1966. 29500433 10.1038/s41418-018-0082-y 5989936
da Veiga Leprevost F Grüning BA Aflitos SA: BioContainers: an open-source and community-driven framework for software standardization. Bioinformatics. 2017;33(16):2580-2582. 28379341 10.1093/bioinformatics/btx192 5870671
Damiani C Di Filippo M Pescini D: popFBA: tackling intratumour heterogeneity with Flux Balance Analysis. Bioinformatics. 2017;33(14):i311-i318. 28881985 10.1093/bioinformatics/btx251 5870635
Danhof M Alvan G Dahl SG: Mechanism-Based Pharmacokinetic-Pharmacodynamic Modeling'-A New Classification of Biomarkers. Pharm Res. 2005;22(9):1432-1437. 16132354 10.1007/s11095-005-5882-3
Demir E Cary MP Paley S: The BioPAX community standard for pathway data sharing. Nat Biotechnol. 2010;28(9):935-942. 20829833 10.1038/nbt.1666 3001121
du Lac M Duigou T Hérisson J: Galaxy-SynBioCAD: Synthetic Biology Design Automation tools in Galaxy workflows.Bioengineering, bioRxiv. 2020. 10.1101/2020.06.14.145730
Ebata K Yamashiro S Iida K: Building patient-specific models for receptor tyrosine kinase signaling networks. FEBS J. 2022;289(1):90-101. 33755310 10.1111/febs.15831
Eduati F Jaaks P Wappler J: Patient-specific logic models of signaling pathways from screenings on cancer biopsies to prioritize personalized combination therapies. Mol Syst Biol. 2020;16(2):e8664. 32073727 10.15252/msb.20188664 7029724
European Biopharmaceutical Enterprises: EBE White Paper on Personalised Medicine.2015. Reference Source
Fey D Halasz M Dreidax D: Signaling pathway models as biomarkers: Patient-specific simulations of JNK activity predict the survival of neuroblastoma patients. Sci Signal. 2015;8(408):ra130. 26696630 10.1126/scisignal.aab0990
Fröhlich F Kessler T Weindl D: Efficient Parameter Estimation Enables the Prediction of Drug Response Using a Mechanistic Pan-Cancer Pathway Model. Cell Syst. 2018;7(6):567-579.e6. 30503647 10.1016/j.cels.2018.10.013
Gaulton A Hersey A Nowotka M: The ChEMBL database in 2017. Nucleic Acids Res. 2017;45(D1):D945-D954. 27899562 10.1093/nar/gkw1074 5210557
Gawron P Ostaszewski M Satagopam V: MINERVA-a platform for visualization and curation of molecular interaction networks. NPJ Syst Biol Appl. 2016;2:16020. 28725475 10.1038/npjsba.2016.20 5516855
Gillespie M Jassal B Stephan R: The reactome pathway knowledgebase 2022. Nucleic Acids Res. 2022;50(D1):D687-D692. 34788843 10.1093/nar/gkab1028 8689983
Glont M Arankalle C Tiwari K: BioModels Parameters: a treasure trove of parameter values from published systems biology models. Bioinformatics. 2020;36(17):4649-4654. 32573648 10.1093/bioinformatics/btaa560 7653554
Goble C Soiland-Reyes S Bacall F: Implementing FAIR Digital Objects in the EOSC-Life Workflow Collaboratory.2021. 10.5281/zenodo.4605654
Golebiewski M: Data Formats for Systems Biology and Quantitative Modeling.In: Encyclopedia of Bioinformatics and Computational Biology. Elsevier,2019;2:884-893. 10.1016/b978-0-12-809633-8.20471-8
Hastings JF O'Donnell YEI Fey D: Applications of personalised signalling network models in precision oncology. Pharmacol Ther. 2020;212:107555. 32320730 10.1016/j.pharmthera.2020.107555
Haug K Cochrane K Nainala VC: MetaboLights: a resource evolving in response to the needs of its scientific community. Nucleic Acids Res. 2020;48(D1):D440-D444. 31691833 10.1093/nar/gkz1019 7145518
Hucka M Nickerson DP Bader GD: Promoting Coordinated Development of Community-Based Information Standards for Modeling in Biology: The COMBINE Initiative. Front Bioeng Biotechnol. 2015;3:19. 25759811 10.3389/fbioe.2015.00019 4338824
Hutter C Zenklusen JC: The Cancer Genome Atlas: Creating Lasting Value beyond Its Data. Cell. 2018;173(2):283-285. 29625045 10.1016/j.cell.2018.03.042
Ison J Rapacki K Ménager H: Tools and data services registry: a community effort to document bioinformatics resources. Nucleic Acids Res. 2016;44(D1):D38-D47. 26538599 10.1093/nar/gkv1116 4702812
Jupp S Burdett T Malone J: A new Ontology Lookup Service at EMBL-EBI. SWAT4LS. 2015;2:118-119. Reference Source
Kafarski P: Rainbow Code of Biotechnology. Chemik. 2012;66(8):811-816. Reference Source
Kampers LFC Asin-Garcia E Schaap PJ: Navigating the Valley of Death: Perceptions of Industry and Academia on Production Platforms and Opportunities in Biotechnology. EFB Bioeconomy J. 2022;2:100033. 10.1016/j.bioeco.2022.100033
Kanehisa M Araki M Goto S: KEGG for linking genomes to life and the environment. Nucleic Acids Res. 2008;36(Database issue):D480-D484. 18077471 10.1093/nar/gkm882 2238879
King RD Rowland J Oliver SG: The Automation of Science. Science. 2009;324(5923):85-89. 19342587 10.1126/science.1165620
Kolodkin A Alberghina L Snoep JL: Infrastructure Systems Biology Europe (ISBE): Emergence of Innovative Systems Biology Servicing.In: BioSB-2018 4th Dutch Bioinformatics & Systems Biology Conference Congrescentrum De Werelt. abstract book, Lunteren 15-16 May2018;71. 10.18699/BGRSSB-2018-108
Lieven C Beber ME Olivier BG: MEMOTE for standardized genome-scale metabolic model testing. Nat Biotechnol. 2020;38(3):272-276. 32123384 10.1038/s41587-020-0446-y 7082222
Malik-Sheriff RS Glont M Nguyen TVN: BioModels-15 years of sharing computational models in life science. Nucleic Acids Res. 2020;48(D1):D407-D415. 31701150 10.1093/nar/gkz1055 7145643
Martens M Ammar A Riutta A: WikiPathways: connecting communities. Nucleic Acids Res. 2021;49(D1):D613-D621. 33211851 10.1093/nar/gkaa1024 7779061
Mazein A Ostaszewski M Kuperstein I: Systems medicine disease maps: community-driven comprehensive representation of disease mechanisms. NPJ Syst Biol Appl. 2018;4:21. 29872544 10.1038/s41540-018-0059-y 5984630
Mendes P Hoops S Sahle S: Computational Modeling of Biochemical Networks Using COPASI.In: Maly,I.V. (ed), Systems Biology. Methods Mol Biol. Humana Press, Totowa, NJ,2009;500:17-59. 19399433 10.1007/978-1-59745-525-1_2
Moretti S Tran VDT Mehl F: MetaNetX/MNXref: unified namespace for metabolites and biochemical reactions in the context of metabolic models. Nucleic Acids Res. 2021;49(D1):D570-D574. 33156326 10.1093/nar/gkaa992 7778905
Nickerson D Atalag K de Bono B: The Human Physiome: how standards, software and innovative service infrastructures are providing the building blocks to make it achievable. Interface Focus. 2016;6(2):20150103. 27051515 10.1098/rsfs.2015.0103 4759754
Ostaszewski M Niarakis A Mazein A: COVID19 Disease Map, a computational knowledge repository of virus-host interaction mechanisms. Mol Syst Biol. 2021;17(10):e10387. 34664389 10.15252/msb.202110387 8524328
Peck CC Barr WH Benet LZ: Opportunities for Integration of Pharmacokinetics, Pharmacodynamics, and Toxicokinetics in Rational Drug Development. J Pharm Sci. 1992;81(6):605-610. 1355792 10.1002/jps.2600810630
Peters M Eicher JJ van Niekerk DD: The JWS online simulation database. Bioinformatics. 2017;33(10):1589-1590. 28130238 10.1093/bioinformatics/btw831
Robinson JL Kocabaş P Wang H: An atlas of human metabolism. Sci Signal. 2020;13(624):eaaz1482. 32209698 10.1126/scisignal.aaz1482 7331181
Rodchenkov I Babur O Luna A: Pathway Commons 2019 Update: integration, analysis and exploration of pathway data. Nucleic Acids Res. 2020;48(D1):gkz946. 31647099 10.1093/nar/gkz946 7145667
Roth YD Lian Z Pochiraju S: Datanator: an integrated database of molecular data for quantitatively modeling cellular behavior. Nucleic Acids Res. 2021;49(D1):D516-D522. 33174603 10.1093/nar/gkaa1008 7779073
Sarkans U Gostev M Athar A: The BioStudies database'-one stop shop for all data supporting a life sciences study. Nucleic Acids Res. 2018;46(D1):D1266-D1270. 29069414 10.1093/nar/gkx965 5753238
Satagopam V Gu W Eifes S: Integration and Visualization of Translational Medicine Data for Better Understanding of Human Diseases. Big Data. 2016;4(2):97-108. 27441714 10.1089/big.2015.0057 4932659
Scharm M Wolkenhauer O Waltemath D: An algorithm to detect and communicate the differences in computational models describing biological systems. Bioinformatics. 2016;32(4):563-570. 26490504 10.1093/bioinformatics/btv484 4743622
Schreiber F Sommer B Czauderna T: Specifications of standards in systems and synthetic biology: status and developments in 2020. J Integr Bioinforma. 2020;17(2-3):20200022. 32598316 10.1515/jib-2020-0022 7756620
Shannon P Markiel A Ozier O: Cytoscape: A Software Environment for Integrated Models of Biomolecular Interaction Networks. Genome Res. 2003;13(11):2498-2504. 14597658 10.1101/gr.1239303 403769
Sharma RP Kumar V Schuhmacher M: Development and evaluation of a harmonized whole body physiologically based pharmacokinetic (PBPK) model for flutamide in rats and its extrapolation to humans. Environ Res. 2020;182:108948. 31841869 10.1016/j.envres.2019.108948
Sherry ST Ward MH Kholodov M: dbSNP: the NCBI database of genetic variation. Nucleic Acids Res. 2001;29(1):308-311. 11125122 10.1093/nar/29.1.308 29783
Soiland-Reyes S Sefton P Crosas M: Packaging research artefacts with RO-Crate. Data Sci. 2022;5(2):97-138. 10.3233/DS-210053
Stanford NJ Scharm M Dobson PD: Data Management in Computational Systems Biology: Exploring Standards, Tools, Databases, and Packaging Best Practices. In: Oliver,S.G. and Castrillo,J.I. (eds), Yeast Systems Biology. Springer New York, New York, NY. Methods Mol Biol. 2019;2049:285-314. 31602618 10.1007/978-1-4939-9736-7_17
Stanford NJ Wolstencroft K Golebiewski M: The evolution of standards and data management practices in systems biology. Mol Syst Biol. 2015;11(12):851. 26700851 10.15252/msb.20156053 4704484
Subramanian A Tamayo P Mootha VK: Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles. Proc Natl Acad Sci U S A. 2005;102(43):15545-15550. 16199517 10.1073/pnas.0506580102 1239896
Subramanian I Verma S Kumar S: Multi-omics Data Integration, Interpretation, and Its Application. Bioinforma Biol Insights. 2020;14:1177932219899051. 32076369 10.1177/1177932219899051 7003173
Szklarczyk D Gable AL Nastou KC: The STRING database in 2021: customizable protein-protein networks, and functional characterization of user-uploaded gene/measurement sets. Nucleic Acids Res. 2021;49(D1): D605-D612. 33237311 10.1093/nar/gkaa1074 7779004
Tekle KM Gundersen S Klepper K: Norwegian e-Infrastructure for Life Sciences (NeLS) [version 1; peer review: 2 approved]. F1000Res. 2018;7:ELIXIR-968. 30271575 10.12688/f1000research.15119.1 6137412
The Gene Ontology Consortium: The Gene Ontology Resource: 20 years and still GOing strong. Nucleic Acids Res. 2019;47(D1):D330-D338. 30395331 10.1093/nar/gky1055 6323945
Thiele I Swainston N Fleming RMT: A community-driven global reconstruction of human metabolism. Nat Biotechnol. 2013;31(5):419-425. 23455439 10.1038/nbt.2488 3856361
Tiwari K Kananathan S Roberts MG: Reproducibility in systems biology modelling. Mol Syst Biol. 2021;17(2):e9982. 33620773 10.15252/msb.20209982 7901289
Uhlen M Oksvold P Fagerberg L: Towards a knowledge-based Human Protein Atlas. Nat Biotechnol. 2010;28(12):1248-1250. 21139605 10.1038/nbt1210-1248
van Iersel MP Pico AR Kelder T: The BridgeDb framework: standardized access to gene, protein and metabolite identifier mapping services. BMC Bioinformatics. 2010;11:5. 20047655 10.1186/1471-2105-11-5 2824678
Waltemath D Golebiewski M Blinov ML: The first 10 years of the international coordination network for standards in systems and synthetic biology (COMBINE). J Integr Bioinforma. 2020;17(2-3):20200005. 32598315 10.1515/jib-2020-0005 7756615
Waltemath D Karr JR Bergmann FT: Toward Community Standards and Software for Whole-Cell Modeling. IEEE Trans Biomed Eng. 2016;63(10):2007-2014. 27305665 10.1109/TBME.2016.2560762 5451320
Wehrs M Tanjore D Eng T: Engineering Robust Production Microbes for Large-Scale Cultivation. Trends Microbiol. 2019;27(6):524-537. 30819548 10.1016/j.tim.2019.01.006
Wilkinson MD Dumontier M Aalbersberg IJJ: The FAIR Guiding Principles for scientific data management and stewardship. Sci Data. 2016;3:160018. 26978244 10.1038/sdata.2016.18 4792175
Willighagen EL Mayfield JW Alvarsson J: The Chemistry Development Kit (CDK) v2.0: atom typing, depiction, molecular formulas, and substructure searching. J Cheminform. 2017;9(1):33. 29086040 10.1186/s13321-017-0220-4 5461230
Wimalaratne SM Juty N Kunze J: Uniform resolution of compact identifiers for biomedical data. Sci Data. 2018;5:180029. 29737976 10.1038/sdata.2018.29 5944906
Wittig U Rey M Weidemann A: SABIO-RK: an updated resource for manually curated biochemical reaction kinetics. Nucleic Acids Res. 2018;46(D1):D656-D660. 29092055 10.1093/nar/gkx1065 5753344
Wolkenhauer O: Systems medicine: integrative, qualitative and computational approaches. Academic Press.2020. Reference Source
Wolstencroft K Krebs O Snoep JL: FAIRDOMHub: a repository and collaboration environment for sharing systems biology research. Nucleic Acids Res. 2017;45(D1):D404-D407. 27899646 10.1093/nar/gkw1032 5210530
Wolstencroft K Owen S Krebs O: SEEK: a systems biology data and model management platform. BMC Syst Biol. 2015;9:33. 26160520 10.1186/s12918-015-0174-y 4702362
Zanin M Aitya NAA Basilio J: An Early Stage Researcher's Primer on Systems Medicine Terminology. Netw Syst Med. 2021;4(1):2-50. 33659919 10.1089/nsm.2020.0003 7919422
Zhao P: Report from the EMA workshop on qualification and reporting of physiologically based pharmacokinetic (PBPK) modeling and simulation. CPT Pharmacomet Syst Pharmacol. 2017;6(2):71-72. 28035755 10.1002/psp4.12166 5321806
