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Nonlinear models based on leaf architecture traits explain the variability of mesophyll conductance across plant species.
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- Plant, Cell & Environment, 2024, v. 47, n. 12, p. 5158, doi. 10.1111/pce.15059
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- Article
Harnessing the optimization of enzyme catalytic rates in engineering of metabolic phenotypes.
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- PLoS Computational Biology, 2024, v. 20, n. 11, p. 1, doi. 10.1371/journal.pcbi.1012576
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Exploring natural variation of photosynthetic, primary metabolism and growth parameters in a large panel of Capsicum chinense accessions.
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- Planta: An International Journal of Plant Biology, 2015, v. 242, n. 3, p. 677, doi. 10.1007/s00425-015-2332-2
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- Article
Identification of flux trade-offs in metabolic networks.
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- Scientific Reports, 2021, v. 11, n. 1, p. 1, doi. 10.1038/s41598-021-03224-9
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A structural property for reduction of biochemical networks.
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- Scientific Reports, 2021, v. 11, n. 1, p. 1, doi. 10.1038/s41598-021-96835-1
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- Article
Light-independent regulation of algal photoprotection by CO<sub>2</sub> availability.
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- Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-37800-6
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- Article
Data integration across conditions improves turnover number estimates and metabolic predictions.
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- Nature Communications, 2023, v. 14, p. 1, doi. 10.1038/s41467-023-37151-2
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- Article
Cross-stress gene expression atlas of Marchantia polymorpha reveals the hierarchy and regulatory principles of abiotic stress responses.
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- Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-36517-w
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- Article
Genetic basis of plasticity in plants.
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- Journal of Experimental Botany, 2019, v. 70, n. 3, p. 739, doi. 10.1093/jxb/ery404
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- Article
Getting back to nature: a reality check for experiments in controlled environments.
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- Journal of Experimental Botany, 2017, v. 68, n. 16, p. 4463, doi. 10.1093/jxb/erx220
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Can cyanobacteria serve as a model of plant photorespiration? -- a comparative meta-analysis of metabolite profiles.
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- Journal of Experimental Botany, 2016, v. 67, n. 10, p. 2941, doi. 10.1093/jxb/erw068
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- Article
Integration of time-resolved transcriptomics data with flux-based methods reveals stress-induced metabolic adaptation in Escherichia coli.
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- BMC Systems Biology, 2012, v. 6, n. 1, p. 1, doi. 10.1186/1752-0509-6-148
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- Article
Transcriptomic and Metabolomic Analysis of a Pseudomonas-Resistant versus a Susceptible Arabidopsis Accession.
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- International Journal of Molecular Sciences, 2022, v. 23, n. 20, p. 12087, doi. 10.3390/ijms232012087
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- Article
Comparative Analysis Based on Transcriptomics and Metabolomics Data Reveal Differences between Emmer and Durum Wheat in Response to Nitrogen Starvation.
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- International Journal of Molecular Sciences, 2021, v. 22, n. 9, p. 4790, doi. 10.3390/ijms22094790
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Comparative Analysis of ROS Network Genes in Extremophile Eukaryotes.
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- International Journal of Molecular Sciences, 2020, v. 21, n. 23, p. 9131, doi. 10.3390/ijms21239131
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A Biostimulant Obtained from the Seaweed Ascophyllum nodosum Protects Arabidopsis thaliana from Severe Oxidative Stress.
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- International Journal of Molecular Sciences, 2020, v. 21, n. 2, p. 1, doi. 10.3390/ijms21020474
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Machine learning of metabolite–protein interactions from model-derived metabolic phenotypes.
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- NAR Genomics & Bioinformatics, 2024, v. 6, n. 3, p. 1, doi. 10.1093/nargab/lqae114
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- Article
Self- and cross-attention accurately predicts metabolite–protein interactions.
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- NAR Genomics & Bioinformatics, 2023, v. 5, n. 1, p. 1, doi. 10.1093/nargab/lqad008
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- Article
The unraveling of balanced complexes in metabolic networks.
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- Scientific Reports, 2023, v. 13, n. 1, p. 1, doi. 10.1038/s41598-023-32666-6
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- Article
Plasticity of rosette size in response to nitrogen availability is controlled by an RCC1‐family protein.
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- Plant, Cell & Environment, 2021, v. 44, n. 10, p. 3398, doi. 10.1111/pce.14146
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- Article
Low‐temperature tolerance of the Antarctic species Deschampsia antarctica: A complex metabolic response associated with nutrient remobilization.
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- Plant, Cell & Environment, 2020, v. 43, n. 6, p. 1376, doi. 10.1111/pce.13737
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- Article
Identification and classification of ncRNA molecules using graph properties.
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- Nucleic Acids Research, 2009, v. 37, n. 9, p. e66, doi. 10.1093/nar/gkp206
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- Article
Functional centrality as a predictor of shifts in metabolic flux states.
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- BMC Research Notes, 2016, v. 9, p. 1, doi. 10.1186/s13104-016-2117-0
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- Article
Histone retention preserves epigenetic marks during heat stress‐induced transcriptional memory in plants.
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- EMBO Journal, 2023, v. 42, n. 24, p. 1, doi. 10.15252/embj.2023113595
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- Article
Tyr‐Asp inhibition of glyceraldehyde 3‐phosphate dehydrogenase affects plant redox metabolism.
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- EMBO Journal, 2021, v. 40, n. 15, p. 1, doi. 10.15252/embj.2020106800
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- Article
Analysis of metabolic alterations in Arabidopsis following changes in the carbon dioxide and oxygen partial pressures.
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- Journal of Integrative Plant Biology, 2014, v. 56, n. 9, p. 941, doi. 10.1111/jipb.12237
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- Article
Maximization of non-idle enzymes improves the coverage of the estimated maximal in vivo enzyme catalytic rates in Escherichia coli.
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- Bioinformatics, 2021, v. 37, n. 21, p. 3848, doi. 10.1093/bioinformatics/btab575
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- Article
L<sub>2,1</sub>-norm regularized multivariate regression model with applications to genomic prediction.
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- Bioinformatics, 2021, v. 37, n. 18, p. 2896, doi. 10.1093/bioinformatics/btab212
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- Article
GeneReg: a constraint-based approach for design of feasible metabolic engineering strategies at the gene level.
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- Bioinformatics, 2021, v. 37, n. 12, p. 1717, doi. 10.1093/bioinformatics/btaa996
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- Article
PC2P: parameter-free network-based prediction of protein complexes.
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- Bioinformatics, 2021, v. 37, n. 1, p. 73, doi. 10.1093/bioinformatics/btaa1089
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- Article
Gene regulatory network inference using fused LASSO on multiple data sets.
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- Scientific Reports, 2016, p. 20533, doi. 10.1038/srep20533
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DeFiNe: an optimisation-based method for robust disentangling of filamentous networks.
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- Scientific Reports, 2015, p. 18267, doi. 10.1038/srep18267
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An automated workflow that generates atom mappings for large‐scale metabolic models and its application to Arabidopsis thaliana.
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- Plant Journal, 2022, v. 111, n. 5, p. 1486, doi. 10.1111/tpj.15903
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- Article
Model‐assisted identification of metabolic engineering strategies for Jatropha curcas lipid pathways.
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- Plant Journal, 2020, v. 104, n. 1, p. 76, doi. 10.1111/tpj.14906
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- Article
Characterization of maximal enzyme catalytic rates in central metabolism of Arabidopsis thaliana.
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- Plant Journal, 2020, v. 103, n. 6, p. 2168, doi. 10.1111/tpj.14890
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- Article
AtRsgA from Arabidopsis thaliana is important for maturation of the small subunit of the chloroplast ribosome.
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- Plant Journal, 2018, v. 96, n. 2, p. 404, doi. 10.1111/tpj.14040
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Unraveling lipid metabolism in maize with time‐resolved multi‐omics data.
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- Plant Journal, 2018, v. 93, n. 6, p. 1102, doi. 10.1111/tpj.13833
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Metabolic robustness in young roots underpins a predictive model of maize hybrid performance in the field.
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- Plant Journal, 2017, v. 90, n. 2, p. 319, doi. 10.1111/tpj.13495
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- Article
Phytotyping<sup>4D</sup>: a light-field imaging system for non-invasive and accurate monitoring of spatio-temporal plant growth.
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- Plant Journal, 2015, v. 82, n. 4, p. 693, doi. 10.1111/tpj.12833
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- Article
Integration of transcriptomics and metabolomics data specifies the metabolic response of Chlamydomonas to rapamycin treatment.
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- Plant Journal, 2015, v. 81, n. 5, p. 822, doi. 10.1111/tpj.12763
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- Article
Combined correlation-based network and mQTL analyses efficiently identified loci for branched-chain amino acid, serine to threonine, and proline metabolism in tomato seeds.
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- Plant Journal, 2015, v. 81, n. 1, p. 121, doi. 10.1111/tpj.12717
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- Article
Corn hybrids display lower metabolite variability and complex metabolite inheritance patterns.
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- Plant Journal, 2011, v. 68, n. 2, p. 326, doi. 10.1111/j.1365-313X.2011.04689.x
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- Article
Growth in fluctuating light buffers plants against photorespiratory perturbations.
- Published in:
- Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-42648-x
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- Article
Identification of gene function based on models capturing natural variability of Arabidopsis thaliana lipid metabolism.
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- Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-40644-9
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- Article
Proteomics and constraint-based modelling reveal enzyme kinetic properties of Chlamydomonas reinhardtii on a genome scale.
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- Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-40498-1
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- Article
Widening the landscape of transcriptional regulation of green algal photoprotection.
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- Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-38183-4
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- Article
Context-Specific Metabolic Model Extraction Based on Regularized Least Squares Optimization.
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- PLoS ONE, 2015, v. 10, n. 7, p. 1, doi. 10.1371/journal.pone.0131875
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- Article
Effects of Varying Nitrogen Sources on Amino Acid Synthesis Costs in Arabidopsis thaliana under Different Light and Carbon-Source Conditions.
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- PLoS ONE, 2015, v. 10, n. 2, p. 1, doi. 10.1371/journal.pone.0116536
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- Article
Concurrent Conditional Clustering of Multiple Networks: COCONETS.
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- PLoS ONE, 2014, v. 9, n. 8, p. 1, doi. 10.1371/journal.pone.0103637
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- Article
Deducing Hybrid Performance from Parental Metabolic Profiles of Young Primary Roots of Maize by Using a Multivariate Diallel Approach.
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- PLoS ONE, 2014, v. 9, n. 1, p. 1, doi. 10.1371/journal.pone.0085435
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- Article