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TranscriptomicsOryza sativa Japonica strain:EFR-XA21 | cultivar:Kitaake Transcriptome or Gene expression
We analyzed the transcriptomic profile of EFR:XA21:GFP rice lines treated with elf18 to identify genes differentially regulated during this response. We sequenced cDNA from EFR:XA21:GFP leaves treated with 500 nM elf18 for 0.5, 1, 3, 6, and 12 h. We also included untreated EFR:XA21:GFP and Kitaake a...
ORGANISM(S): Oryza sativa Japonica Group 
2015-02-12 | E-MTAB-5170 | biostudies-arrayexpress
TranscriptomicsDirect calibration of PICKY-designed microarrays
Picky is an optimal microarray design software which designed the NSF Rice 45K Array. A series of microarray experiments using a one-chip version of this array were conducted to validate as well as to develop a calibration method for Picky designed microarrays. Synthesized samples with known content...
ORGANISM(S): synthetic construct 
2010-06-21 | E-GEOD-14717 | biostudies-arrayexpress
TranscriptomicsImprinted expression of genes and small RNA is triggered by localized demethylation of the maternal genome in rice endosperm
We report that rice endosperm shows a specific hypomethylation of DNA in the maternal genome, preferring regions of high DNA accessibility. Maternally expressed imprinted genes are enriched for hypomethylation at putative promoter regions and transcriptional termini, and paternally expressed genes a...
ORGANISM(S): Oryza sativa 
2013-05-01 | E-GEOD-44898 | biostudies-arrayexpress
TranscriptomicsThe Submergence Tolerance Regulator Sub1A Mediates Stress-responsive Expression of AP2/ERF Transcription Factors
Rice NSF45K microarray experiment to dissect submergence tolerance response in submergence tolerant rice plant, M202(Sub1): We previously characterized the rice (Oryza sativa L.) Sub1 locus encoding three Ethylene Responsive Factor (ERF) transcriptional regulators. Genotypes carrying the Sub1A-1 a...
ORGANISM(S): Oryza sativa 
2010-03-08 | E-GEOD-17704 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of RaxR-regulon members of Xanthomonas oryzae pv. oryzae PXO99A
Xanthomonas oryzae pv. oryzae strain PXO99A, so called Xoo, is disable to infect in rice cultivar carrying Xa21 gene. Disrupted mutant of raxR gene, response regulator of two-component regulatory system (TCS), in Xoo was previously shown to partially retrieve back the bacterial capability to establi...
ORGANISM(S): Xanthomonas oryzae pv. oryzae PXO99A 
2010-09-09 | E-GEOD-14498 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of Density-dependent of Xanthomonas oryzae pv. oryzae PXO99A and PXO99∆ax21
Xanthomonas oryzae pv. oryzae strain PXO99A, so called Xoo, is disable to infect in rice cultivar carrying Xa21 gene. A set of experiments indicated that Ax21 is quorum sensing factor in PXO99 strain. To observe fine-tuned details how Ax21 controls expression of PXO99 in response to change of cell p...
ORGANISM(S): Xanthomonas oryzae pv. oryzae PXO99A 
2012-01-01 | E-GEOD-24989 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of PhoP-regulon members under low Mg2+ Ca2+ condition of Xanthomonas oryzae pv. oryzae PXO99A
In bacteria, two-component regulatory system (TCSs) is generally characterized by a simple phosphotransfer scheme, composed of a sensor domain (a histidine kinase) and a response domain (a response regulator), which is responsible for detection of external stimuli. PhoP-PhoQ TCS of Xanthomonas oryz...
ORGANISM(S): Xanthomonas oryzae pv. oryzae PXO99A 
2008-07-16 | E-GEOD-12099 | biostudies-arrayexpress
ProteomicsO.satival - Leaf, SC (Mcwhiteetal.,cell2020)
abundance based on Spectral counting, Interaction consistency score: 4.8, Coverage: 24
ORGANISM(S): 39947 
2020-00-00 | 54616841 | PAXDB
ProteomicsGmax - Bud, SC (Mcwhiteetal.,cell2020)
abundance based on Spectral counting, Interaction consistency score: 32.1, Coverage: 17
ORGANISM(S): 3847 
2020-00-00 | 7785906 | PAXDB
ProteomicsS.lycopersicum - Leaf, SC (Mcwhiteetal.,cell2020)
abundance based on Spectral counting, Interaction consistency score: 5.0, Coverage: 21
ORGANISM(S): 4081 
2020-00-00 | 3494796433 | PAXDB
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