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Sample GSM2282074 Query DataSets for GSM2282074
Status Public on May 01, 2017
Title rCNT inhalation 4days + 24h M3_4h.4d.24h
Sample type RNA
Source name M3 4h 4d 24h
Organism Mus musculus
Characteristics exposure: rCNT inhalation 4h per day
exposure method: inhalation
time: 4d + 24h
Treatment protocol mice lung tissue samples collected 24h after final exposure. Tissue samples stored in RNAlater in -80ºC
Growth protocol Female C57BL/6 mice (7-8 weeks old) were housed in groups of four in stainless steel cages, bedded with aspen chip and were provided with standard mouse chow diet and tab water ad lib. 12 h dark/light cycle was used in the animal room temperature being 20-21 degree celcius and humidity of 40-45 %.
Extracted molecule total RNA
Extraction protocol RNA isolation from the lung samples was done with TRIsure (phenol-chloroform extraction) and the quantity and purity was determined by NanoDrop spectrophotometer. Further quality check of the total RNA was performed with the Agilent BioAnalyzer, according to the manufacturer's recommendations.
Label Cy3
Label protocol Samples were amplified using T7 RNA polymerase method and the cRNAs were further labeled with Cy3 and Cy5 dye, according to the manufacturer's recommendations.
Hybridization protocol Labeled cRNAs were hybridized to Agilent 2-color 60-mer oligo arrays, , according to the manufacturer's recommendations.
Scan protocol Slides were washed and scanned with Agilent Microarray scanner G2505C, according to the manufacturer's recommendations.
Data processing Raw intensity values were obtained from Agilent Feature Extraction software and quality checked according to Agilent standard procedures. The median foreground intensities were imported into R software and analyzed with BioConductor package Limma.
Submission date Aug 16, 2016
Last update date May 01, 2017
Contact name Dario Greco
Organization name Tampere University
Department Faculty of Medicine and Health Technology
Lab Finnish Hub for Development and Validation of Integrated Approaches (FHAIVE)
Street address Arvo ylpön Katu 34
City Tampere
ZIP/Postal code 33520
Country Finland
Platform ID GPL13912
Series (1)
GSE85711 Inhalation and oropharyngeal aspiration exposure to rod-like carbon nanotubes induces highly similar airway inflammation and biological pathways in mouse lungs

Data table header descriptions
VALUE Log2 transformation and quantile normalization

Data table
1 14.59935510784
2 5.30833021598047
3 5.59640237838836
4 5.59640237838836
5 6.01958501650681
6 5.59640237838836
7 5.8894973914976
8 10.305150420482
9 5.56843926121507
10 5.84832876148871
11 5.90824949703442
12 5.24754085430452
13 8.00248222778222
14 11.6406113006253
15 6.22056340829043
16 5.66893964289153
17 9.44568350852522
18 7.18447691513928
19 10.13384472055
20 13.0568962266791

Total number of rows: 62976

Table truncated, full table size 1396 Kbytes.

Supplementary file Size Download File type/resource
GSM2282074_Pool23+Pool24_US23502401_252800516534_S01_GE2_1100_Jul11_1_4.txt.gz 6.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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