TropGeneDB statistics

Tool stats & trends

Looking to identify usage trends or leading experts?


TropGeneDB specifications


Unique identifier OMICS_03259
Name TropGeneDB
Restrictions to use None
Database management system MySQL
Community driven No
Data access File download, Browse
User data submission Not allowed
Maintained Yes

Publications for TropGeneDB

TropGeneDB citations


Tolerance to mild salinity stress in japonica rice: A genome wide association mapping study highlights calcium signaling and metabolism genes

PLoS One
PMCID: 5771603
PMID: 29342194
DOI: 10.1371/journal.pone.0190964
call_split See protocol

[…] onverted to missing data. The missing data were imputed using Beagle v4.0 []. The final resulting matrix involves 235 individuals and 30 314 markers and can be downloaded in HapMap format from study “Genotypes”, study type “GreenRice_panel_GBS_data”. […]


Rice diversity panel provides accurate genomic predictions for complex traits in the progenies of biparental crosses involving members of the panel

PMCID: 5787227
PMID: 29138904
DOI: 10.1007/s00122-017-3011-4
call_split See protocol

[…] a minor allele frequency (MAF, threshold of 2.5%) among the RP accessions and PP lines, considered together, led to a final working set of 43,686 SNP loci. The genotypic data are available at, (Choose Tab Studies) as GS-Ruse_CREA_GBSgenotype_RP&PP. […]


Genome wide association analysis for heat tolerance at flowering detected a large set of genes involved in adaptation to thermal and other stresses

PLoS One
PMCID: 5289576
PMID: 28152098
DOI: 10.1371/journal.pone.0171254

[…] ing Beagle v3.3.2 []. Finally, when the distance between two consecutive markers was below 1 kb, the marker with the lowest MAF was discarded.The phenotypic and genotypic data are available at, (Choose Tab Studies) as “ORYTAGE_indica_Heat-tolerance_167-accessions_21-traits”, and “ORYTAGE_indica_GBS-genotype_167-accessions_13160-SNP” […]


A first genetic map of date palm (Phoenix dactylifera) reveals long range genome structure conservation in the palms

BMC Genomics
PMCID: 4023600
PMID: 24735434
DOI: 10.1186/1471-2164-15-285

[…] selecting only microsatellite DNA markers with significant (~500 bp) surrounding sequence. Location of the downloaded markers on the coconut genetic map was obtained from six coconut markers were associated with genomic sequence. BLASTN with an e-value cutoff of 10e-05 was used to identify homologous regions on the oil palm chromosomes for th […]


Looking to check out a full list of citations?

TropGeneDB institution(s)
UMR Amélioration Génétique et Adaptation des Plantes Méditerranéennes et Tropicales (AGAP), CIRAD, TA A-108/03, Montpellier, France; UMR Intertryp, CIRAD, Campus International de Baillarguet, Montpellier, France; UMR Amélioration Génétique et Adaptation des Plantes Méditerranéennes et Tropicales (AGAP), CIRAD, TA A-108/03, Montpellier, France

TropGeneDB reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review TropGeneDB