UMR DIADE

DIversity - Adaptation - plant DEvelopment

The DIADE Research Unit aims to understand the diversification of tropical plants, one of the main original reservoirs of biodiversity, and for which conservation, management and exploitation are an important issue for Sustainable Development.

The nine teams forming the Unit belong to IRD, University of Montpellier, CIRAD, and CNRS.

CERES Team

DYNADIV Team

PANEEC Team

EVOGEC Team

ADvENS Team

AgroLD

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451 to 460 of 1,032 Results

CulebrONT_Data-Xoo-sub.zip Aug 18, 2022 - Test data, reports and documentation for CulebrONT software: a streamlined long reads multi-assembler pipeline for prokaryotic and eukaryotic genomes ZIP Archive - 314.2 MB - MD5: c1d4d4fb38546ad3e07c34c25203ab73 Data Dataset used to test CulebrONT code
CulebrONT_PCJ_supplemental.pdf Aug 18, 2022 - Test data, reports and documentation for CulebrONT software: a streamlined long reads multi-assembler pipeline for prokaryotic and eukaryotic genomes Adobe PDF - 1.1 MB - MD5: 491db3bc9c1d44f16d9eb0a4ce2f4c43 Documentation Supplementary information related to CulebrONT pipeline implementation
CulebrONT_REPORT_Data-Xoo-sub.zip Aug 18, 2022 - Test data, reports and documentation for CulebrONT software: a streamlined long reads multi-assembler pipeline for prokaryotic and eukaryotic genomes ZIP Archive - 27.0 MB - MD5: 063d9231f2ccd8e571191ab2c2ef503d DataDocumentation Final report generated by CulebrONT software using the test dataset Data-Xoo-sub.zip
CulebrONT_REPORTS.zip Aug 18, 2022 - Test data, reports and documentation for CulebrONT software: a streamlined long reads multi-assembler pipeline for prokaryotic and eukaryotic genomes ZIP Archive - 813.6 MB - MD5: 595aa262a2ffcd91fb88d785cd3fa4dc DataDocumentation Reports generated by the CulebrONT software with data from different organisms (rice, nematoda, bacteria) as described in the PCJ manuscript
Fasta files for InpactorDB: A Plant classified lineage-level LTR retrotransposon reference library for free-alignment methods based on Machine Learning Feb 1, 2021 - EVOGEC Team Guyot, Romain; Orozco-Arias, Simon; Isaza, Gustavo, 2021, "Fasta files for InpactorDB: A Plant classified lineage-level LTR retrotransposon reference library for free-alignment methods based on Machine Learning", https://doi.org/10.23708/QCMOUA, DataSuds, V2 Here, we present InpactorDB a semi-curated dataset composed of 130,511 elements from 195 plant genomes belonging to 108 plant species, classified down to the lineage level. This dataset has been used to train two deep neural networks (one fully connected and one convolutional) fo...
InpactorDB_non-redundant_V2.format.fasta Feb 1, 2021 - Fasta files for InpactorDB: A Plant classified lineage-level LTR retrotransposon reference library for free-alignment methods based on Machine Learning Unknown - 564.5 MB - MD5: e7d6bb2820ebf82252f7f39a4f583641 Data Fasta file for InpactorDB V2. NON-redundant database of LTR retrotransposons.
InpactorDB_redundant_V2_format.fasta.zip Feb 1, 2021 - Fasta files for InpactorDB: A Plant classified lineage-level LTR retrotransposon reference library for free-alignment methods based on Machine Learning ZIP Archive - 292.5 MB - MD5: 9f7291811eedd0b03d410035f24ae59c Data Fasta file for InpactorDB V2. Redundant database of LTR retrotransposons.
Racine 2.2 Sep 18, 2020 - CERES Team Faye, Awa; Chopart, Jean-Louis; Sine, Bassirou; Grondin, Alexandre; Laplaze, Laurent, 2019, "Racine 2.2", https://doi.org/10.23708/CKRDBW, DataSuds, V2, UNF:6:fVTiCa1QVm8CD3Jna7gAdg== [fileUNF] RACINE2.2 est une application de traitement de données racinaires fondée sur des comptages, sur le terrain, d’impacts de racine au travers d’une grille placée sur un profil de sol. Cette méthode permet de mesurer les intersections entre un plan représenté par ce profil de sol et...
Racine2_2_V10.xlsm Sep 18, 2020 - Racine 2.2 MS Excel Spreadsheet - 5.0 MB - MD5: 8012ce30b4ca5df89866f219664916cc Code Application (runs in MS.Excel)
Aquaporins in Pearl Millet: genomic, coding and protein sequences Sep 2, 2020 - CERES Team Grondin, Alexandre; Affortit, Pablo; Tranchant-Dubreuil, Christine; De La Fuente Canto, Carla; Mariac, Cedric; Gantet, Pascal; Vadez, Vincent; Vigouroux, Yves; Laplaze, Laurent, 2020, "Aquaporins in Pearl Millet: genomic, coding and protein sequences", https://doi.org/10.23708/WVCG5O, DataSuds, V1 Pearl millet (Pennisetum glaucum (L) R. Br.) is a key cereal for food security in arid and semi-arid regions but its yield is increasingly threatened by water stress. Physiological mechanisms consisting in saving water or increasing water use efficiency can alleviate that stress....

CulebrONT_Data-Xoo-sub.zip

Aug 18, 2022 - Test data, reports and documentation for CulebrONT software: a streamlined long reads multi-assembler pipeline for prokaryotic and eukaryotic genomes

ZIP Archive - 314.2 MB -

Data

Dataset used to test CulebrONT code

CulebrONT_PCJ_supplemental.pdf

Aug 18, 2022 - Test data, reports and documentation for CulebrONT software: a streamlined long reads multi-assembler pipeline for prokaryotic and eukaryotic genomes

Adobe PDF - 1.1 MB -

Documentation

Supplementary information related to CulebrONT pipeline implementation

CulebrONT_REPORT_Data-Xoo-sub.zip

Aug 18, 2022 - Test data, reports and documentation for CulebrONT software: a streamlined long reads multi-assembler pipeline for prokaryotic and eukaryotic genomes

ZIP Archive - 27.0 MB -

DataDocumentation

Final report generated by CulebrONT software using the test dataset Data-Xoo-sub.zip

CulebrONT_REPORTS.zip

Aug 18, 2022 - Test data, reports and documentation for CulebrONT software: a streamlined long reads multi-assembler pipeline for prokaryotic and eukaryotic genomes

ZIP Archive - 813.6 MB -

DataDocumentation

Reports generated by the CulebrONT software with data from different organisms (rice, nematoda, bacteria) as described in the PCJ manuscript

Fasta files for InpactorDB: A Plant classified lineage-level LTR retrotransposon reference library for free-alignment methods based on Machine Learning

Feb 1, 2021 - EVOGEC Team

Guyot, Romain; Orozco-Arias, Simon; Isaza, Gustavo, 2021, "Fasta files for InpactorDB: A Plant classified lineage-level LTR retrotransposon reference library for free-alignment methods based on Machine Learning", https://doi.org/10.23708/QCMOUA, DataSuds, V2

Here, we present InpactorDB a semi-curated dataset composed of 130,511 elements from 195 plant genomes belonging to 108 plant species, classified down to the lineage level. This dataset has been used to train two deep neural networks (one fully connected and one convolutional) fo...

InpactorDB_non-redundant_V2.format.fasta

Feb 1, 2021 - Fasta files for InpactorDB: A Plant classified lineage-level LTR retrotransposon reference library for free-alignment methods based on Machine Learning

Unknown - 564.5 MB -

Data

Fasta file for InpactorDB V2. NON-redundant database of LTR retrotransposons.

InpactorDB_redundant_V2_format.fasta.zip

Feb 1, 2021 - Fasta files for InpactorDB: A Plant classified lineage-level LTR retrotransposon reference library for free-alignment methods based on Machine Learning

ZIP Archive - 292.5 MB -

Data

Fasta file for InpactorDB V2. Redundant database of LTR retrotransposons.

Racine 2.2

Sep 18, 2020 - CERES Team

Faye, Awa; Chopart, Jean-Louis; Sine, Bassirou; Grondin, Alexandre; Laplaze, Laurent, 2019, "Racine 2.2", https://doi.org/10.23708/CKRDBW, DataSuds, V2, UNF:6:fVTiCa1QVm8CD3Jna7gAdg== [fileUNF]

RACINE2.2 est une application de traitement de données racinaires fondée sur des comptages, sur le terrain, d’impacts de racine au travers d’une grille placée sur un profil de sol. Cette méthode permet de mesurer les intersections entre un plan représenté par ce profil de sol et...

Racine2_2_V10.xlsm

Sep 18, 2020 - Racine 2.2

MS Excel Spreadsheet - 5.0 MB -

Code

Application (runs in MS.Excel)

Aquaporins in Pearl Millet: genomic, coding and protein sequences

Sep 2, 2020 - CERES Team

Grondin, Alexandre; Affortit, Pablo; Tranchant-Dubreuil, Christine; De La Fuente Canto, Carla; Mariac, Cedric; Gantet, Pascal; Vadez, Vincent; Vigouroux, Yves; Laplaze, Laurent, 2020, "Aquaporins in Pearl Millet: genomic, coding and protein sequences", https://doi.org/10.23708/WVCG5O, DataSuds, V1

Pearl millet (Pennisetum glaucum (L) R. Br.) is a key cereal for food security in arid and semi-arid regions but its yield is increasingly threatened by water stress. Physiological mechanisms consisting in saving water or increasing water use efficiency can alleviate that stress....

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