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Sample GSM6864528 Query DataSets for GSM6864528
Status Public on Dec 20, 2022
Title MYB86P_2
Sample type RNA
 
Source name Total RNA was extracted from panicle of OsMYB14-ov-23 shortly before heading, transgenic, biological replicate 2
Organism Oryza sativa
Characteristics cultivar: cv. Ilmi
genotype: OsMYB86-ov-23
tissue: panicle
Treatment protocol Total RNA was extracted from flag leaves and panicles at 6 days before heading (DBH) of the transgenic (23 line) and WT plants and used for the microarray experiments
Growth protocol Rice seeds (Oryza sativa L. cv. Ilmi and OsMYB86-ov-23) were geminated on MS0 (Murashige and Skoog) medium, incubated in a growth chamber (28°C, 2 days in dark followed by 2 days in the light), and then transferred into soil and grown in a greenhouse (16-h-light/8-h-dark cycle).
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from the transgenic and WT rice plants using TRI REAGENT® (Molecular Research Center, www.mrcgene.com)
Label Cy3
Label protocol Labeling was performed by NimbleGen Systems Inc., Madison, WI USA, following their standard operating protocol. See www.nimblegen.com.
 
Hybridization protocol Hybridization was performed by NimbleGen Systems Inc., Madison, WI, USA following their standard operating protocol. See www.nimblegen.com.
Scan protocol Scanning was performed by NimbleGen Systems Inc., Madison, WI USA, following their standard operating protocol. See www.nimblegen.com.
Description Total RNA was extracted from panicle of OsMYB14-ov-23 shortly before heading, transgenic, biological replicate 2
Data processing The raw data (.pair file) was subjected to RMA (Robust Multi-Array Analysis; Irizarry et al. Biostatistics 4(2):249), quantile normalization (Bolstad et al. Bioinformatics 19(2):185), and background correction as implemented in the NimbleScan software package, version 2.4.27 (Roche NimbleGen, Inc.).
 
Submission date Dec 20, 2022
Last update date Dec 23, 2022
Contact name Yeon-Ki Kim
E-mail(s) kim750a11@gmail.com
Phone 82-31-321-6351
Organization name GreenGene Biotech Inc.
Department GreenGene Biotech Inc.
Lab Genomics & Genetics Ins.
Street address 38-2 Namdong
City Yongin
State/province Kyonggido
ZIP/Postal code 449-728
Country South Korea
 
Platform ID GPL14568
Series (1)
GSE221391 Transcriptome analysis of the over-expression of OsMYB14, an R2R3-MYB Transcription Factor in Rice

Data table header descriptions
ID_REF
VALUE RMA-normalized, averaged gene-level signal intensity

Data table
ID_REF VALUE
Os03g0388900 2043.52
Os09g0502900 189.183
Os08g0511900 8455.18
Os05g0457200 6637.14
Os04g0643200 7474.8
Os12g0221400 881.019
Os04g0499300 9490.62
Os11g0592400 230.105
Os06g0186500 97.6668
Os02g0503100 193.317
Os05g0130100 147.321
Os02g0187100 1158.8
Os05g0196100 800.777
Os01g0628700 163.086
Os05g0490800 1489.65
Os04g0137500 6364.31
Os01g0195400 18107.4
Os06g0141000 1910.44
Os03g0805600 5042.58
Os06g0259000 109.077

Total number of rows: 31588

Table truncated, full table size 635 Kbytes.




Supplementary file Size Download File type/resource
GSM6864528_MYB86P_2_532_nm_norm_RMA.pair.gz 2.1 Mb (ftp)(http) PAIR
Processed data included within Sample table
Processed data provided as supplementary file

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