Type of the analyses
Name Description Type
Transcriptome of Oryza sativa in response to Meloidogyne graminicola

Gene expression profiling of the susceptible rice Oryza sativa (Nipponbare) in response to the root-knot nematode Meloidogyne graminicola, a major pest of rice (Oryza sativa L.) in Asia and in Central America. Dual RNA-seq, that is the simultaneous sequencing of the two organisms, was performed on M. graminicola-infected rice plants. RNA-seq data were obtained from 10 libraries coming from two biological replicates (1 and 2) of the following samples: mock-inoculated rice root tips (Oryza sativa... read more

The analysis of transcriptomes, or a set of all the RNA molecules in a specific cell, tissue etc.
Transcriptome of Oryza glaberrima in response to Meloidogyne graminicola

Gene expression profiling of the resistant rice Oryza glaberrima (TOG5681) in response to the root-knot nematode Meloidogyne graminicola, a major pest of rice (Oryza sativa L.) in Asia and in Central America. Dual RNA-seq, that is the simultaneous sequencing of the two organisms, was performed on M. graminicola-infected rice plants. RNA-seq data were obtained from 8 libraries coming from two biological replicates (1 and 2) of the following samples: mock-inoculated rice root tips (Oryza glaberrima... read more

The analysis of transcriptomes, or a set of all the RNA molecules in a specific cell, tissue etc.
Whole Genome Assembly and Annotation for Dom Sufid
Whole Genome Assembly and Annotation for Basmati334
Genome Wild Expression in early reproductive stages in rice

5 species of rices have been analyzed at the developmental stage (determinate and indeterminate stages) at three biological replicates: O. sativa japonica (Niponbarre), O. sativa Indica (IR64), O. rufipogon (W1654-2), O. glaberrima (Tog5681) and O. barthii (B88). For expression analysis, we collected 15 immature panicles each from at least 10 plants per accession, per stage, collected from 4 to 15 d after floral induction (i.e. transfer to short day conditions) for each biological replicate. For sample... read more

The analysis of transcriptomes, or a set of all the RNA molecules in a specific cell, tissue etc.
Gene expression profiling of reproductive meristem types in early rice inflorescences by laser microdissection

We used a precise laser microdissection and RNA-sequencing approach in Oryza sativa ssp. japonica cv. Nipponbare to produce quantitative data that describe the landscape of gene expression in four different meristem types: the rachis meristem, the primary branch meristem, the elongating primary branch meristem (including axillary meristems), and the spikelet meristem.

The analysis of transcriptomes, or a set of all the RNA molecules in a specific cell, tissue etc.
Transcriptional rice responses to PGPR Burkholderia

Nipponbare rice grown in Magenta pots in a 6 times diluted Hoagland solutions (with a layer of perlite to sustain the seed). Plants were inoculated with either nothing, Burkholderia vietnamiensis LMG10929, Paraburkholderia kururiensis M130 or Paraburkholderia phytofirmans PsJN. A RNA extraction of leaves and roots was performed at 7 day post inoculation (dpi), and RNAseq was done on polyA mRNAs, on three replicates per condition per organ.

The analysis of transcriptomes, or a set of all the RNA molecules in a specific cell, tissue etc.
Genome annotation of 12 rice varieties

Genome assemblies from 12 rice varieties (https://doi.org/10.1038/s41597-020-0438-2) have been fully annoted.

Annotation of a genome.
Genome sequencing and assembly of 12 rice varieties

Genome assemblies from 12 rice varieties (https://doi.org/10.1038/s41597-020-0438-2)

Sequence assembly capable on a very large scale such as assembly of whole genomes. [http://edamontology.org]
Whole Genome Assembly and Annotation of ZS97

The Rice Information GateWay (RIGW) was upgraded to Version 3.0 with the release of GAP-FREE reference genome assemblies, ZS97RS3.

Annotation of a genome.

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