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Sample GSM1274581 Query DataSets for GSM1274581
Status Public on Jan 08, 2014
Title Caulobacter_crescentus_wild_type_rep2 (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
Hybridization protocol Hybridization was performed following the standard operating protocol of Nimblegen. See
Scan protocol Scanning was performed on an Agilent High-Resolution Microarray scanner at 2 µm resolution.
Description Caulobacter crescentus, wild type, replicate 2
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
VALUE RMA-normalized, averaged gene-level signal intensity

Data table
CCNA_00001 13.2974
CCNA_00002 10.41
CCNA_00003 9.7425
CCNA_00004 9.9743
CCNA_00005 10.7295
CCNA_00006 12.9711
CCNA_00007 13.1206
CCNA_00008 13.6794
CCNA_00009 8.0121
CCNA_00010 14.6181
CCNA_00011 9.5739
CCNA_00012 8.402
CCNA_00013 9.6877
CCNA_00014 9.6352
CCNA_00015 11.8695
CCNA_00016 7.2415
CCNA_00017 7.3802
CCNA_00018 9.3401
CCNA_00019 8.48
CCNA_00020 12.3129

Total number of rows: 3932

Table truncated, full table size 70 Kbytes.

Supplementary file Size Download File type/resource
GSM1274581_WT_2_US22502600A02_SLOT01_S01_Green.pair.gz 1.1 Mb (ftp)(http) PAIR
Processed data included within Sample table

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