Remarkable reproducibility of enzyme activity profiles in tomato fruits grown under contrasting environments provides a roadmap for studies of fruit metabolism, Plant Physiol, vol.164, pp.1204-1221, 2014. ,
Modeling protein destiny in developing fruit, Plant Physiol, 2019. ,
URL : https://hal.archives-ouvertes.fr/hal-02327302
Regulation of pyridine nucleotides metabolism along tomato fruit development through transcript and protein profiling, Front. Plant Sci, 2019. ,
, FastQC: A Quality Control Tool for High Throughput Sequence Data, 2010.
Trimmomatic: a flexible trimmer for Illumina sequence data, Bioinformatics, vol.30, pp.2114-2120, 2014. ,
Mapping RNA-seq reads with STAR, Curr. Protoc. Bioinforma, 2015. ,
HTSeq-A Python framework to work with high-throughput sequencing data, Bioinformatics, vol.31, pp.166-169, 2015. ,
Phenol extraction of proteins for proteomic studies of recalcitrant plant tissues, Methods Mol. Biol, vol.355, pp.9-14, 2007. ,
, ProteoWizard: open source software for rapid proteomics tools development, vol.24, pp.2534-2536, 2008.
PROTICdb, A web-based application to store, track, query, and compare plant proteome data, Proteomics, vol.5, pp.2069-2081, 2005. ,
URL : https://hal.archives-ouvertes.fr/hal-00306584
The PROTICdb database for 2-DE proteomics, Plant Proteomics, pp.279-304, 2007. ,
Management and dissemination of MS proteomic data with PROTICdb: example of a quantitative comparison between methods of protein extraction, Proteomics, vol.13, pp.1457-1466, 2013. ,
TandemPipeline: a tool to manage sequence redundancy for protein inference and phosphosite identification, J. Proteome Res, vol.2, issue.16, pp.494-503, 2017. ,
URL : https://hal.archives-ouvertes.fr/hal-01484169
MassChroQ: a versatile tool for mass spectrometry quantification, Proteomics, vol.11, 2011. ,
URL : https://hal.archives-ouvertes.fr/hal-01481216
Peptide filtering differently affects the performances of XIC-based quantification methods, J. Proteomics, vol.193, pp.131-141, 2019. ,
URL : https://hal.archives-ouvertes.fr/hal-02327322
A "proteomic ruler" for protein copy number and concentration estimation without spike-in standards, Mol. Cell. Proteom, vol.13, pp.3497-3506, 2014. ,