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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461 to 470 of 1,043 Results

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
DYNADIV Team(UMR DIADE) Jun 9, 2022 The main focus of DYNADIV Team is tounderstand how biodiversity of tropical plants is shaped through evolutionary forces resulting from human and environmental impacts. Its activity is essentially based on population genetics but also integrates a multidisciplinary approach inclu...
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....
AQP_PgPIP1-1.pdb Sep 2, 2020 - Aquaporins in Pearl Millet: genomic, coding and protein sequences chemical/x-pdb - 165.3 KB - MD5: e25597696c37b79fd9c4e96d8c318e98 Data Protein data bank file for Plasma Membrane Intrinsic Protein 1-1 from pearl millet
AQP_PgPIP1-3.pdb Sep 2, 2020 - Aquaporins in Pearl Millet: genomic, coding and protein sequences chemical/x-pdb - 163.9 KB - MD5: 6c7b3408aed3bf5532a5185c472a8404 Data Protein data bank file for Plasma Membrane Intrinsic Protein 1-3 from pearl millet

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

DYNADIV Team(UMR DIADE)

Jun 9, 2022

The main focus of DYNADIV Team is tounderstand how biodiversity of tropical plants is shaped through evolutionary forces resulting from human and environmental impacts. Its activity is essentially based on population genetics but also integrates a multidisciplinary approach inclu...

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....

AQP_PgPIP1-1.pdb

Sep 2, 2020 - Aquaporins in Pearl Millet: genomic, coding and protein sequences

chemical/x-pdb - 165.3 KB -

Data

Protein data bank file for Plasma Membrane Intrinsic Protein 1-1 from pearl millet

AQP_PgPIP1-3.pdb

Sep 2, 2020 - Aquaporins in Pearl Millet: genomic, coding and protein sequences

chemical/x-pdb - 163.9 KB -

Data

Protein data bank file for Plasma Membrane Intrinsic Protein 1-3 from pearl millet

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