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In Papyro Comparison of TMM (edgeR), RLE (DESeq2), and MRN Normalization Methods for a Simple Two-Conditions-Without-Replicates RNA-Seq Experimental Design

Frontiers in genetics, 2016-09, Vol.7 (n° 164), p.164-164

Maza, Elie

2016

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TomExpress, a unified tomato RNA‐Seq platform for visualization of expression data, clustering and correlation networks

The Plant journal : for cell and molecular biology, 2017-11, Vol.92 (4), p.727-735

2017

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Interaction of two MADS-box genes leads to growth phenotype divergence of all-flesh type of tomatoes

Nature communications, 2021-11, Vol.12 (1), p.6892-6892, Article 6892

2021

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Comprehensive transcript profiling of two grapevine rootstock genotypes contrasting in drought susceptibility links the phenylpropanoid pathway to enhanced tolerance

Journal of experimental botany, 2015-09, Vol.66 (19), p.5739-5752

2015

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Overexpression of the class D MADS-box gene Sl-AGL11 impacts fleshy tissue differentiation and structure in tomato fruits

Journal of experimental botany, 2017-10, Vol.68 (17), p.4869-4884

2017

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Transcriptome profiling of sorted endoreduplicated nuclei from tomato fruits: how the global shift in expression ascribed to DNA ploidy influences RNA‐Seq data normalization and interpretation

The Plant journal : for cell and molecular biology, 2018-01, Vol.93 (2), p.387-398

2018

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Optimization of an RNA-Seq Differential Gene Expression Analysis Depending on Biological Replicate Number and Library Size

Frontiers in plant science, 2018-02, Vol.9, p.108-108

2018

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The auxin-responsive transcription factor SlDOF9 regulates inflorescence and flower development in tomato

Nature plants, 2022-04, Vol.8 (4), p.419

2022

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Grapevine Rootstocks Differentially Affect the Rate of Ripening and Modulate Auxin-Related Genes in Cabernet Sauvignon Berries

Frontiers in plant science, 2016-02, Vol.7, p.69-69

2016

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Transition to ripening in tomato requires hormone-controlled genetic reprogramming initiated in gel tissue

Plant physiology (Bethesda), 2023-01, Vol.191 (1), p.610-625

2023

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Comprehensive Profiling of Ethylene Response Factor Expression Identifies Ripening-Associated ERF Genes and Their Link to Key Regulators of Fruit Ripening in Tomato

Plant physiology (Bethesda), 2016-03, Vol.170 (3), p.1732-1744

2016

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Histone posttranslational modifications rather than DNA methylation underlie gene reprogramming in pollination‐dependent and pollination‐independent fruit set in tomato

The New phytologist, 2021-01, Vol.229 (2), p.902-919

2021

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Selenium Biofortification Impacts the Tomato Fruit Metabolome and Transcriptional Profile at Ripening

Journal of agricultural and food chemistry, 2023-09, Vol.71 (36), p.13554-13565

2023

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Comparison of normalization methods for differential gene expression analysis in RNA-Seq experiments: A matter of relative size of studied transcriptomes

Communicative & integrative biology, 2013-11, Vol.6 (6), p.e25849-e25849

2013

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Development of the Adapted Pivot Test method for descriptive sensory analyses with young untrained students

Journal of sensory studies, 2022-10, Vol.37 (5), p.n/a

2022

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Ploidy‐specific transcriptomes shed light on the heterogeneous identity and metabolism of developing tomato pericarp cells

The Plant journal : for cell and molecular biology, 2024-05, Vol.118 (4), p.997-1015

2024

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Haplotype-resolved genome assembly and implementation of VitExpress, an open interactive transcriptomic platform for grapevine

Proceedings of the National Academy of Sciences - PNAS, 2024-06, Vol.121 (23), p.e2403750121

2024

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Ethylene signaling modulates tomato pollen tube growth through modifications of cell wall remodeling and calcium gradient

The Plant journal : for cell and molecular biology, 2021-08, Vol.107 (3), p.893-908

2021

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Proteomic Analysis of Chloroplast-to-Chromoplast Transition in Tomato Reveals Metabolic Shifts Coupled with Disrupted Thylakoid Biogenesis Machinery and Elevated Energy-Production Components

Plant physiology (Bethesda), 2012-10, Vol.160 (2), p.708-725

2012

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Histone Post Translational Modifications rather than DNA methylation underlie gene reprogramming in pollination-dependent and pollination-independent fruit set in tomato

The New phytologist, 2021, Vol.229 (2), p.902-919

2021

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Prediction of sunflower grain oil concentration as a function of variety, crop management and environment using statistical models

European journal of agronomy, 2014-03, Vol.54, p.84-96

2014

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Comparison of Check‐All‐That‐Apply and Adapted‐Pivot‐Test methods for wine sensory characterization with a panel of untrained students

Journal of sensory studies, 2023-10, Vol.38 (5)

2023

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Genome-wide identification, phylogenetic analysis, expression profiling, and protein–protein interaction properties of TOPLESS gene family members in tomato

Journal of experimental botany, 2014-03, Vol.65 (4), p.1013-1023

2014

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Statistical properties of the quantile normalization method for density curve alignment

Mathematical biosciences, 2013-04, Vol.242 (2), p.129-142

2013

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A robust algorithm for template curve estimation based on manifold embedding

Computational statistics & data analysis, 2014-02, Vol.70, p.373-386

2014

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In Papyro Comparison of TMM (edgeR), RLE (DESeq2), and MRN Normalization Methods for a Simple Two-Conditions-Without-Replicates RNA-Seq Experimental Design

TomExpress, a unified tomato RNA‐Seq platform for visualization of expression data, clustering and correlation networks

Interaction of two MADS-box genes leads to growth phenotype divergence of all-flesh type of tomatoes

Comprehensive transcript profiling of two grapevine rootstock genotypes contrasting in drought susceptibility links the phenylpropanoid pathway to enhanced tolerance

Overexpression of the class D MADS-box gene Sl-AGL11 impacts fleshy tissue differentiation and structure in tomato fruits

Transcriptome profiling of sorted endoreduplicated nuclei from tomato fruits: how the global shift in expression ascribed to DNA ploidy influences RNA‐Seq data normalization and interpretation

Optimization of an RNA-Seq Differential Gene Expression Analysis Depending on Biological Replicate Number and Library Size

The auxin-responsive transcription factor SlDOF9 regulates inflorescence and flower development in tomato

Grapevine Rootstocks Differentially Affect the Rate of Ripening and Modulate Auxin-Related Genes in Cabernet Sauvignon Berries

Transition to ripening in tomato requires hormone-controlled genetic reprogramming initiated in gel tissue

Comprehensive Profiling of Ethylene Response Factor Expression Identifies Ripening-Associated ERF Genes and Their Link to Key Regulators of Fruit Ripening in Tomato

Histone posttranslational modifications rather than DNA methylation underlie gene reprogramming in pollination‐dependent and pollination‐independent fruit set in tomato

Selenium Biofortification Impacts the Tomato Fruit Metabolome and Transcriptional Profile at Ripening

Comparison of normalization methods for differential gene expression analysis in RNA-Seq experiments: A matter of relative size of studied transcriptomes

Development of the Adapted Pivot Test method for descriptive sensory analyses with young untrained students

Ploidy‐specific transcriptomes shed light on the heterogeneous identity and metabolism of developing tomato pericarp cells

Haplotype-resolved genome assembly and implementation of VitExpress, an open interactive transcriptomic platform for grapevine

Ethylene signaling modulates tomato pollen tube growth through modifications of cell wall remodeling and calcium gradient

Proteomic Analysis of Chloroplast-to-Chromoplast Transition in Tomato Reveals Metabolic Shifts Coupled with Disrupted Thylakoid Biogenesis Machinery and Elevated Energy-Production Components

Histone Post Translational Modifications rather than DNA methylation underlie gene reprogramming in pollination-dependent and pollination-independent fruit set in tomato

Prediction of sunflower grain oil concentration as a function of variety, crop management and environment using statistical models

Comparison of Check‐All‐That‐Apply and Adapted‐Pivot‐Test methods for wine sensory characterization with a panel of untrained students

Genome-wide identification, phylogenetic analysis, expression profiling, and protein–protein interaction properties of TOPLESS gene family members in tomato

Statistical properties of the quantile normalization method for density curve alignment

A robust algorithm for template curve estimation based on manifold embedding

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