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Sample GSM1274579 Query DataSets for GSM1274579
Status Public on Jan 08, 2014
Title Caulobacter_crescentus_Plac::CCNA_00382_rep3
Sample type RNA
 
Source name Caulobacter crescentus, Plac::CCNA_00382 (ccrM)
Organism Caulobacter vibrioides NA1000
Characteristics genotype: Plac::CCNA_00382 (ccrM)
Growth protocol Cells were cultivated at 28°C in minimal medium (M2G) and harvested in exponential phase (O.D.660nm 0.3).
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using Trizol and the PureLink RNA kit (Invitrogen); a Dnase I treatment was performed before a second purification on PureLink columns. RNA quality and concentration was determined by analysis with a Bioanalyzer and a Nanodrop.
Label Cy3
Label protocol Labeling was performed following the standard operating protocol of Nimblegen. See www.nimblegen.com.
 
Hybridization protocol Hybridization was performed following the standard operating protocol of Nimblegen. See www.nimblegen.com.
Scan protocol Scanning was performed on an Agilent High-Resolution Microarray scanner at 2 µm resolution.
Description Caulobacter crescentus, Plac::CCNA_00382 (ccrM), replicate 3
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 (Roche NimbleGen, Inc.).
 
Submission date Nov 25, 2013
Last update date Jan 09, 2014
Contact name Diego Gonzalez
Organization name University of Lausanne
Department Department of Fundamental Microbiology
Lab Prof. Justine Collier
Street address Quartier UNIL-Sorge, Bâtiment Biophore
City Lausanne
ZIP/Postal code 1015
Country Switzerland
 
Platform ID GPL17931
Series (1)
GSE52722 Expression analysis of Caulobacter crescentus NA1000 Plac::CCNA_00382 (ccrM) vs Caulobacter crescentus

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

Data table
ID_REF VALUE
CCNA_00001 13.1039
CCNA_00002 9.6174
CCNA_00003 9.3633
CCNA_00004 9.5705
CCNA_00005 10.7554
CCNA_00006 13.1091
CCNA_00007 13.0923
CCNA_00008 14.1952
CCNA_00009 7.8791
CCNA_00010 14.4162
CCNA_00011 9.3377
CCNA_00012 7.9627
CCNA_00013 9.6942
CCNA_00014 9.0389
CCNA_00015 11.4861
CCNA_00016 7.1171
CCNA_00017 7.4266
CCNA_00018 10.2107
CCNA_00019 7.9795
CCNA_00020 12.0742

Total number of rows: 3932

Table truncated, full table size 70 Kbytes.




Supplementary file Size Download File type/resource
GSM1274579_CcrMOE_3_US22502600A02_SLOT02_S01_Green.pair.gz 1.1 Mb (ftp)(http) PAIR
Processed data included within Sample table

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