- Data integration and modelling with R
- Systems biology analysis and visualization pipeline in R and Python
Petek, M., Zagorščak, M., Blejec, A. et al. pISA-tree - a data management framework for life science research projects using a standardised directory tree. Sci Data 9, 685 (2022). https://doi.org/10.1038/s41597-022-01805-5
Factorial experiment:
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one or multiple genotypes AND/OR
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under single and multiple abiotic/biotic stressors AND/OR
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experiment duration: hours, days, ... : time-series experimental design AND/OR
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tissue: single or multiple
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Omics' strategies:
- Hormonomics
- Transcriptomics
- Proteomics
- Metabolomics
- Phenomics
- ...
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Combination of targeted and untargeted measurements
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Phenomics data should be preprocessed, i.e. this protocol does not include image analysis
Protocol for the integration of multi-omics data and deep phenotyping of potato cv. Désirée under single- and combined abiotic stress responses is available at _p_ADAPTOmics
- Integration of multi-omics data and deep phenotyping provides insights into responses to single and combined abiotic stress in potato, Plant Physiology, Volume 197, Issue 4, April 2025, kiaf126, https://doi.org/10.1093/plphys/kiaf126