ArticleData in brief2020
Transcriptomic and proteomic data in developing tomato fruit.
Article in Data in brief, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed.
- Proteomic Analysis of Plants with Binding Immunoglobulin Protein Overexpression Reveals Mechanisms Related to Defense AgainstPlants (Basel, Switzerland) · 2025Article
- Multi-scale phenotyping of senescence-related changes in roots of rapeseed in response to nitrate limitation.Journal of experimental botany · 2025Article
- Metabolite quantification data based onBMC research notes · 2024Article
- An Integrative Transcriptomics and Proteomics Approach to Identify Putative Genes Underlying Fruit Ripening in Tomato near Isogenic Lines with Long Shelf Life.Plants (Basel, Switzerland) · 2023Article
- Multi-omics quantitative data of tomato fruit unveils regulation modes of least variable metabolites.BMC plant biology · 2023Article
- Blue light promotes ascorbate synthesis by deactivating the PAS/LOV photoreceptor that inhibits GDP-L-galactose phosphorylase.The Plant cell · 2023Article
- Genome-Wide Analysis of MYB Transcription Factors and Screening ofInternational journal of molecular sciences · 2023Article
- Effects of Date Palm Waste Compost Application on Root Proteome Changes of Barley (Plants (Basel, Switzerland) · 2023Article
- Proteomic Analysis of Barley (Plants (Basel, Switzerland) · 2022Article
- Comparison of Different Label-Free Techniques for the Semi-Absolute Quantification of Protein Abundance.Proteomes · 2022Article
- Proteomic Analysis of KCNK3 Loss of Expression Identified Dysregulated Pathways in Pulmonary Vascular Cells.International journal of molecular sciences · 2020Article
- Article
- The Taproot Acts as a Storage Organ During Rapeseed Vernalization.Physiologia plantarumArticle
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Authors and funding
12 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Transcriptomic and proteomic analyses were performed on three replicates of tomato fruit pericarp samples collected at nine developmental stages, each replicate resulting from the pooling of at least 15 fruits. For transcriptome analysis, Illumina-sequenced libraries were mapped on the tomato genome with the aim to obtain absolute quantification of mRNA abundance. To achieve this, spikes were added at the beginning of the RNA extraction procedure. From 34,725 possible transcripts identified in the tomato, 22,877 were quantified in at least one of the nine developmental stages. For the proteome analysis, label-free liquid chromatography coupled to tandem mass spectrometry (LC-MS/MS) was used. Peptide ions, and subsequently the proteins from which they were derived, were quantified by integrating the signal intensities obtained from extracted ion currents (XIC) with the MassChroQ software. Absolute concentrations of individual proteins were estimated for 2375 proteins by using a mixed effects model from log
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