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Sample GSM851698 Query DataSets for GSM851698
Status Public on Feb 10, 2012
Title rrd2_root induction.12h.28C_rep3
Sample type RNA
 
Source name rrd2 explant
Organism Arabidopsis thaliana
Characteristics strain: Landsberg erecta
genotype: rrd2 mutant
tissue: cultured explant
Treatment protocol Explants from 4-day-old seedlings were cultured on B5 medium supplemented with 0.5 mg/L IBA at 28C for 12 h for the induction of lateral root formation.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted with TRIzol (Invitrogen) and purified with the RNeasy Micro Kit (QIAGEN).
Label Biotin
Label protocol Biotinylated cRNA was prepared from total RNA with the GeneChip 3' IVT Express Kit (Affymetrix).
 
Hybridization protocol Hybridization, washing, and staining procedures were conducted with Fluidics Station 450 as described in the GeneChip Expression Analysis Technical Manual (Affymetrix).
Scan protocol Scanning procedure was conducted with GeneChip Scanner 3000 7G as described in the GeneChip Expression Analysis Technical Manual (Affymetrix).
Data processing GCOS (MAS5.0).
 
Submission date Dec 21, 2011
Last update date Aug 15, 2018
Contact name Munetaka Sugiyama
E-mail(s) sugiyama@ns.bg.s.u-tokyo.ac.jp
Phone +81-3-3814-0368
Fax +81-3-3814-0139
Organization name The University of Tokyo
Department Botanical Gardens, Graduate School of Science
Street address Hakusan 3-7-1, Bunkyo-ku
City Tokyo
ZIP/Postal code 112-0001
Country Japan
 
Platform ID GPL198
Series (1)
GSE34595 Transcript profile changes associated with lateral root fasciation in temperature-sensitive mutants
Relations
Reanalyzed by GSE118579

Data table header descriptions
ID_REF
VALUE GCOS-calculated signal intensity
ABS_CALL The call in an absolute analysis of wild type plant that indicates if the transcript was present (P), absent (A), marginal (M), or no call (NC).
DETECTION P-VALUE p-value that indicates the significance level of the detection call.

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 57.1421 M 0.0629293
AFFX-BioB-M_at 72.618 P 0.000258358
AFFX-BioB-3_at 24.3486 A 0.102165
AFFX-BioC-5_at 1420.65 P 4.42873e-05
AFFX-BioC-3_at 1186.81 P 8.14279e-05
AFFX-BioDn-5_at 3622.96 P 4.42873e-05
AFFX-BioDn-3_at 5131.41 P 4.42873e-05
AFFX-CreX-5_at 16509 P 4.42873e-05
AFFX-CreX-3_at 23668.1 P 4.42873e-05
AFFX-DapX-5_at 7.38639 A 0.617401
AFFX-DapX-M_at 4.50135 A 0.83416
AFFX-DapX-3_at 2.17473 A 0.953518
AFFX-LysX-5_at 27.4431 A 0.39692
AFFX-LysX-M_at 24.4978 A 0.227636
AFFX-LysX-3_at 34.775 M 0.050229
AFFX-PheX-5_at 2.06452 A 0.98333
AFFX-PheX-M_at 3.24798 A 0.58862
AFFX-PheX-3_at 9.15005 A 0.724854
AFFX-ThrX-5_at 5.27804 A 0.60308
AFFX-ThrX-M_at 12.9919 A 0.60308

Total number of rows: 22810

Table truncated, full table size 680 Kbytes.




Supplementary file Size Download File type/resource
GSM851698.CEL.gz 2.0 Mb (ftp)(http) CEL
GSM851698.CHP.gz 123.4 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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