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- open access
Parameter estimation for models of chemical reaction networks from experimental data of reaction rates
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Whole-genome duplications and the long-term evolution of gene regulatory networks in angiosperms
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Alzheimer’s disease : a systems view provides a unifying explanation of its development
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Ulva : an emerging green seaweed model for systems biology
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MINI-EX : integrative inference of single-cell gene regulatory networks in plants
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Transcriptional and metabolic changes associated with internode development and reduced cinnamyl alcohol dehydrogenase activity in sorghum
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A systems radiation biology approach to unravel the role of chronic low-dose-rate gamma-irradiation in inducing premature senescence in endothelial cells
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Genome-wide expression and network analyses of mutants in key brassinosteroid signaling genes
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Mechanist idealisation in systems biology
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An automated model reduction method for biochemical reaction networks
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Inference of plant gene regulatory networks using data-driven methods : a practical overview
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Compensatory guaiacyl lignin biosynthesis at the expense of syringyl lignin in 4CL1-knockout poplar
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Drought resistance is mediated by divergent strategies in closely related Brassicaceae
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Hub protein controversy : taking a closer look at plant stress response hubs
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Best practices for analysing microbiomes
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Adjuvant-associated peripheral blood mRNA profiles and kinetics induced by the adjuvanted recombinant protein candidate tuberculosis vaccine M72/AS01 in Bacillus Calmette–Guérin-vaccinated adults
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Precision medicine and drug development in Alzheimer's disease : the importance of sexual dimorphism and patient stratification
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Dissecting clinical outcome of porcine circovirus type 2 with in vivo derived transcriptomic signatures of host tissue responses
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Effect of the anode potential on the physiology and proteome of Shewanella oneidensis MR-1
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E-health beyond technology : analyzing the paradigm shift that lies beneath
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Mechanism discovery and design explanation : where role function meets biological advantage function
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Accurate detection of dysmorphic nuclei using dynamic programming and supervised classification
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Abscisic acid as pathogen effector and immune regulator
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Kresoxim-methyl primes Medicago truncatula plants against abiotic stress factors via altered reactive oxygen and nitrogen species signalling leading to downstream transcriptional and metabolic readjustment
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The allelochemical MDCA inhibits lignification and affects auxin homeostasis
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- Journal Article
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Diffany: an ontology-driven framework to infer, visualise and analyse differential molecular networks
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Molecular systems governing leaf growth: from genes to networks
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Renal microRNA- and RNA-profiles in progressive chronic kidney disease
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New insights in molecular mechanisms involved in chronic kidney disease using high-resolution plasma proteome analysis
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Proteomic biomarkers in kidney disease: issues in development and implementation
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Clade classification of monolignol biosynthesis gene family members reveals target genes to decrease lignin in Lolium perenne
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From DNA- to NA-centrism and the conditions for gene-centrism revisited
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Transcript and metabolite profiling for the evaluation of tobacco tree and poplar as feedstock for the bio-based industry
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The proteome under translational control
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A transcriptomics-based kinetic model for ethylene biosynthesis in tomato (Solanum lycopersicum) fruit: development, validation and exploration of novel regulatory mechanisms
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Arabidopsis ensemble reverse-engineered gene regulatory network discloses interconnected transcription factors in oxidative stress
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Introduction to opportunities and pitfalls in functional mass spectrometry based proteomics
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Gibberellins and DELLAs: central nodes in growth regulatory networks
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- Journal Article
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The ABCC6 transporter : what lessons can be learnt from other ATP-binding cassette transporters?
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CathaCyc, a metabolic pathway database built from Catharanthus roseus RNA-Seq data
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- open access
ERBB3 is a marker of a ganglioneuroblastoma/ganglioneuroma-like expression profile in neuroblastic tumours
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Directed module detection in a large-scale expression compendium
(2012) Bacterial molecular networks : methods and protocols. In Methods in Molecular Biology 804. p.131-165 -
- Journal Article
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- open access
Protein-protein interactions: network analysis and applications in drug discovery
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Performance assessment of the anticipatory approach to optimal experimental design for model discrimination
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Minimum information about a cardiac electrophysiology experiment (MICEE): standardised reporting for model reproducibility, interoperability, and data sharing
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Proteomics in chronic kidney disease: the issues clinical nephrologists need an answer for
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Modelling gene and protein regulatory networks with answer set pogramming
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Recycling, clustering, and endocytosis jointly maintain PIN auxin carrier polarity at the plasma membrane
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Integration of 'omics' data: does it lead to new insights into host-microbe interactions?
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Ins and outs of systems biology vis-à-vis molecular biology: continuation or clear cut?