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MetabolomicsMulti-omics resources for targeted agronomic improvement of pigmented rice

Pigmented rice (Oryza sativa L.) is a rich source of nutrients, but pigmented lines typically have long life cycles and limited productivity. Here we generated genome assemblies of 5 pigmented rice varieties and evaluated the genetic variation among 51 pigmented rice varieties by reseque...

2023-03-27 | MTBLS3320 | MetaboLights
ProteomicsSWATH-based quantitative proteomics data derived from whole grain of Malaysian local pigmented and non-pigmented rice varieties
Information about protein expression in rice grain across both pigmented and non-pigmented rice varieties is still relatively scarce. The data provided here represent proteomic data obtained from selected 6 Malaysian local rice varieties with varying pigmentations (black, red and white). The selecte...
ORGANISM(S): Oryza sativa (Rice) 
2020-04-27 | PXD018338 | Pride
Oryza sativa indica  pigmented rice  non-pigmented rice  nutritional traits  swath-ms. 
TranscriptomicsTranscriptome and methylome interactions in rice hybrids
This research reports genome-wide measurements of genetic and epigenetic patterns of inheritance through an integrative analysis of BS-seq, RNA-seq, and siRNA-seq data in two inbred parents of the Nipponbare (NPB) and Indica (93-11) variety of rice and their hybrid offspring. We generated integrativ...
ORGANISM(S): Oryza sativa Indica Group 
2012-07-10 | E-GEOD-38480 | biostudies-arrayexpress
UnknownExploring the genetic diversity within traditional Philippine pigmented Rice.
Not available
S-EPMC6491523 | biostudies-literature
ProteomicsProteomic Genotyping: Using Mass Spectrometry to Infer SNP Genotypes in Pigmented and Non-Pigmented Hair
Proteomic genotyping is the use of genetically variant peptides (GVPs), detected in a forensic protein sample, to infer the genotype of corresponding non-synonymous SNP alleles in the donor’s genome. This process does not depend on the presence of accessible or useable DNA in a sample. This makes pr...
ORGANISM(S): Homo sapiens (Human) 
2020-05-27 | PXD016156 | Pride
Proteomic genotyping Hair Hair pigmentation Melanosomes Genetically variant peptides 
TranscriptomicsExpression data from PSARK::IPT and wildtype rice plants
Transgenic rice plants expressing isopentenyltransferase (IPT), an enzyme that catalyzes the rate-limiting step in CK synthesis under the control of SARK, a maturation- and stress-inducible promoter. Increased CK production resulted in sink source alteration and enhanced drought tolerance of the tra...
ORGANISM(S): Oryza sativa Japonica Group 
2011-10-26 | E-GEOD-23211 | biostudies-arrayexpress
GenomicsTranscriptome analysis of pigmented and non-pigmented rice grain - focusing on antioxidant and micronutrient perspectives.
Transcriptome sequencing of pigmented and non-pigmented rice grain using Illumina HiSeq 4000 platform.
PRJEB34340 | ENA
GenomicsGenome resequencing of pigmented rice varieties
Leaves from four pigmented rice varieties were sequenced using Illumina Hi-seq 4000 sequencing technology. Approximately 30x depth of sequencing for each varieties.
PRJEB29070 | ENA
TranscriptomicsProfiling of small RNA populations in tricellular pollen of rice
To investigate the potential function of miRNAs during male gametogenesis in rice, 13-40 nt RNA were extrected from tricellular pollen (TCP) for high-throughput sequencing. We identified 104 unique miRNAs from TCP library, 57 of which are novel derived from 39 pre-miRNAs. This subseries contain one ...
ORGANISM(S): Oryza sativa Indica Group 
2012-03-15 | E-GEOD-29178 | biostudies-arrayexpress
ProteomicsProteome profiling highlights mechanisms underlying pigment and tocopherol accumulation in red and black rice seeds
Rice is a major component of the human diet and feeds more than 50 million people across the globe. Therefore, efforts are being made to improve the nutritional quality of rice seeds in order to make a super-rice cultivar rich in antioxidants and vitamins. We previously developed two rice cultivars,...
ORGANISM(S): Oryza sativa (Rice) 
2023-09-21 | PXD039588 | Pride
Pigmented seeds Proteomics Seeds Rice 
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