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Sample GSM1274580 Query DataSets for GSM1274580
Status Public on Jan 08, 2014
Title Caulobacter_crescentus_wild_type_rep1 (Plac::CCNA_00382)
Sample type RNA
 
Source name Caulobacter crescentus, wild type
Organism Caulobacter vibrioides NA1000
Characteristics genotype: wild type
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, wild type, replicate 1
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 13.5926
CCNA_00002 10.3694
CCNA_00003 9.9017
CCNA_00004 9.8881
CCNA_00005 10.6721
CCNA_00006 12.9718
CCNA_00007 13.0608
CCNA_00008 13.8425
CCNA_00009 7.9071
CCNA_00010 14.5766
CCNA_00011 9.7749
CCNA_00012 8.2335
CCNA_00013 9.8647
CCNA_00014 9.5099
CCNA_00015 11.7463
CCNA_00016 7.1164
CCNA_00017 7.3603
CCNA_00018 9.5459
CCNA_00019 8.6184
CCNA_00020 12.3207

Total number of rows: 3932

Table truncated, full table size 70 Kbytes.




Supplementary file Size Download File type/resource
GSM1274580_WT_1_US22502600A01_SLOT01_S01_Green.pair.gz 1.1 Mb (ftp)(http) PAIR
Processed data included within Sample table

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