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Sample GSM1240386 Query DataSets for GSM1240386
Status Public on Sep 27, 2013
Title DeltaBcLTF1_Light_r3
Sample type RNA
 
Source name Botrytis cinerea B0510_deltaBcLTF1
Organism Botrytis cinerea
Characteristics genotype: Mutant deltaBcLTF1
light treatment: Light
Growth protocol Wild type B05.10 and the deltaBcLTF1 mutant were grown for 3 days on solid CM before non-sporulating mycelia were transferred to solid CM covered with cellophane overlays. Cultures were incubated for 52 h in darkness, and then half of the cultures were transferred to white light. After 60 min all four cultures (WT-D; WT-L; deltaBcLTF1-D; deltaBcLTF1-L) were harvested.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using the Trizol procedure. Total RNA was treated with the DNA-free kit to remove any trace of DNA (Ambion - Applied Biosystems, France).
Label Cy3
Label protocol Synthesis of double-stranded cDNA and Cy3-labeling were done by PartnerChip (http://www.partnerchip.fr/) using the procedures established by NimbleGen (Roche) and the reagents from Invitrogen (Life technologies, France)
 
Hybridization protocol Hybridization on microarrays were done by PartnerChip (http://www.partnerchip.fr/) using the procedures established by NimbleGen (Roche) and the reagents from Invitrogen (Life technologies, France).
Scan protocol Scanning was performed by PartnerChip (http://www.partnerchip.fr/) using NimbleScan.
Description This sample is of Botrytis cinerea B0510 mutant deltaBcLTF1, subjected to a light stimulation. It is the third of four deltaBcLTF1_light (Delta_L) biological replicates used in this experiment, each from separate cultures.
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 ANAIS website (http://anais.versailles.inra.fr/).
 
Submission date Sep 26, 2013
Last update date Sep 27, 2013
Contact name Adeline SIMON
Organization name INRAE
Lab BIOGER
Street address 22 place de l'agronomie
City Palaiseau
ZIP/Postal code 91120
Country France
 
Platform ID GPL17773
Series (1)
GSE51192 Light and BcLTF1-dependent gene expression profiles in the phytopathogenic fungus Botrytis cinerea

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

Data table
ID_REF VALUE
AL110624 436.616603449568
AL110645 5202.80222844957
AL110650 1040.53347844957
AL110654 189.120954647567
AL110689 18.0051148520944
AL110771 138.405163699966
AL110790 9882.56660344957
AL110824 88.2820427178738
AL110829 600.005353449568
AL110841 9538.30910344957
AL110854 96.4125283493836
AL110857 588.431603449568
AL110862 12829.8053534496
AL110865 17.3473082631096
AL110879 22.0749764256682
AL110895 19.6603826050657
AL110909 335.255978450312
AL110947 291.595353575580
AL110966 20.7875792530540
AL110987 25.3982997262425

Total number of rows: 20885

Table truncated, full table size 688 Kbytes.




Supplementary file Size Download File type/resource
GSM1240386_DeltaN-L3.pair.gz 1.1 Mb (ftp)(http) PAIR
Processed data included within Sample table

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