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Sample GSM297449 Query DataSets for GSM297449
Status Public on Jun 10, 2008
Title indica_VS_japonica_B
Sample type RNA
 
Channel 1
Source name indica
Organism Oryza sativa
Characteristics Oryza sativa ssp. indica (9311, China)
Extracted molecule total RNA
Extraction protocol Trizol/RNeasy
Label Cy5
Label protocol amino-allyl and monofunctional dye
 
Channel 2
Source name japonica
Organism Oryza sativa
Characteristics O. sativa ssp. japonica (Nipponbare, Japan)
Extracted molecule total RNA
Extraction protocol Trizol/RNeasy
Label Cy3
Label protocol amino-allyl and monofunctional dye
 
 
Hybridization protocol 42C 50% formamide
Scan protocol Axon GenePix 4000B
Description comparing the expression pattern of heading-stage panicle in six rice lineages.
Data processing The raw signal intensities were normalized by lowess normalization followed with quantile normalization.
 
Submission date Jun 09, 2008
Last update date Jun 09, 2008
Contact name zhiyu peng
Organization name Yale University
Department Molecular, Cellular & Developmental Biology
Lab Xingwang Deng
Street address 165 Prospect
City NEW HAVEN
State/province CT
ZIP/Postal code 06520
Country USA
 
Platform ID GPL1774
Series (1)
GSE11712 Gene expression level of six rice lineages

Data table header descriptions
ID_REF
VALUE Normalized log2 ratio of (chanel1/channel2)
CH1_normalized_intensity Normalized log2 intensity of chanel1
CH2_normalized_intensity Normalized log2 intensity of chanel2

Data table
ID_REF VALUE CH1_normalized_intensity CH2_normalized_intensity
1 -0.394276 8.68279700193133 9.0770734515828
26 -0.212839 9.6472630689492 9.8601019350617
51 -0.0486305 9.7408884377786 9.78951895569922
76 0.689076 10.8007062822789 10.1116301778405
101 -0.00190723 9.27311243520059 9.27501966271011
126 -0.207907 8.53330847552271 8.74121561456976
151 -0.244844 8.65951550600872 8.90435969227182
176 -0.186798 8.64125951070867 8.82805738541512
201 -0.291211 8.80924819047083 9.10045960846095
226 -0.251162 8.5297531764392 8.78091486309746
251 -0.326722 10.0960516417547 10.4227732910166
276 -0.0488402 8.78275346475446 8.83159364093947
301 0.100832 9.01043996213485 8.90960777712696
326 -0.208756 10.9105952500843 11.1193513329288
351 -0.0689596 8.72013980214365 8.78909944838421
376 0.167405 9.02597244984996 8.8585674862988
401 -0.286496 8.67494579874952 8.96144167845792
426 -0.161139 8.93099779951263 9.09213722343035
451 -0.0426735 8.89168511564362 8.93435859820267
476 -0.287418 8.75298888216056 9.04040691407032

Total number of rows: 30000

Table truncated, full table size 1437 Kbytes.




Supplementary file Size Download File type/resource
GSM297449_1_2_B.gpr.gz 2.9 Mb (ftp)(http) GPR
Processed data included within Sample table

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