NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1264242 Query DataSets for GSM1264242
Status Public on Jan 08, 2014
Title Caulobacter_crescentus_DccrM_rep3
Sample type RNA
 
Source name Caulobacter crescentus, delta_CCNA_00382 (ccrM)
Organism Caulobacter vibrioides NA1000
Characteristics genotype: delta-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, delta_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 14, 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)
GSE52375 Expression analysis of Caulobacter crescentus NA1000 delta-CCNA_00382 (ccrM) [DccrM] vs Caulobacter crescentus NA1000 wild type [WT]

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

Data table
ID_REF VALUE
CCNA_00001 12.6763
CCNA_00002 10.3152
CCNA_00003 10.3693
CCNA_00004 10.3776
CCNA_00005 12.5378
CCNA_00006 12.6536
CCNA_00007 13.708
CCNA_00008 13.8466
CCNA_00009 7.9146
CCNA_00010 13.7684
CCNA_00011 9.0818
CCNA_00012 9.3718
CCNA_00013 10.5337
CCNA_00014 9.6332
CCNA_00015 12.4634
CCNA_00016 7.3949
CCNA_00017 7.62
CCNA_00018 10.7246
CCNA_00019 8.1364
CCNA_00020 12.7573

Total number of rows: 3878

Table truncated, full table size 69 Kbytes.




Supplementary file Size Download File type/resource
GSM1264242_DccrM_3_US22502600A04_SLOT01_S01_Green.pair.gz 1.1 Mb (ftp)(http) PAIR
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap
External link. Please review our privacy policy.