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Sample GSM523519 Query DataSets for GSM523519
Status Public on Mar 01, 2011
Title Pulmonary artery_no stimulation_ex vivo
Sample type RNA
 
Source name pulmonary artery, no stimulation, 24hours, ex vivo
Organism Mus musculus
Characteristics gender: female
strain: BALB/c
age: 5 week old
tissue: pulmonary artery
Treatment protocol In vivo study, aortic root, pulmonary artery, aorta and spleen were isolated from mice in 3 groups: 1) intraperitoneal injection of 20mg of LPS priming only, 2) oral administration of FK565 (100mg) for consecutive days 3) oral administration of FK565 (100mg) for consecutive days 1 day after LPS priming, at day 2, 4, and 7. Ex vivo study, each tissue of aortic root, pulmonary artery and aorta sterilely isolated from mice (BALB/c) was cultured in a 96-well plate with EBM-2 medium and EGM-2 (Lonza) in the presence of FK565 (10μg/mL, N=6) or none (N=6) in a CO2 (5%) incubator at 37°C for 24 hours.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using the RNeasy Fibrous Tissue (Qiagen Inc., Valencia, CA, USA) and amplified using Amino Allyl MessageAmp™ II aRNA Amplification Kit (Ambion, Austin, TX, USA). RNA quality and concentration was determined by analysis with NanoDrop at the Harvard-Partners Center for Genetics and Genomics (Harvard Medical School, Cambridge, MA USA).
Label Cy3
Label protocol Nimblegen one-color cy3 labeling
 
Hybridization protocol Hybridization was performed for 19h at 42C to the mouse Nimblegen Gene Expression arrays (090901_MM9_EXP_HX12, Roche NimbleGen, Madison, WI, USA) .
Scan protocol GeneChips were scanned using the Gene Pix 4000B (Molecular Devices Corporation) .
Description pulmonary artery, no stimulation, 24hours, ex vivo
Data processing The raw data (tif.) 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, version 2.5. (Roche NimbleGen, Inc.).
 
Submission date Mar 17, 2010
Last update date Mar 01, 2011
Contact name Hisanori Nishio
Organization name Kyushu University
Department Pediatrics
Street address Maidashi 3-1-1, Higashi-ku
City Fukuoka
ZIP/Postal code 812-8582
Country Japan
 
Platform ID GPL10192
Series (1)
GSE20930 Gene expression in tissues of Mus musculus with innate immunity stimulation

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

Data table
ID_REF VALUE
AB000096 1141.298
AB000490 63.232403
AB001425 54.109306
AB001435 222.8268
AB001539 1522.4326
AB001750 1095.9645
AB001926 2240.4604
AB003502 4999.8633
AB004048 273.1002
AB005662 139.7959
AB005665 49.59289
AB005909 41.294792
AB006034 112.197815
AB006103 28.142502
AB007407 47.595097
AB008928 146.04494
AB009369 81.93089
AB010088 46.81069
AB010122 435.1596
AB011499 220.43518

Total number of rows: 44170

Table truncated, full table size 815 Kbytes.




Supplementary file Size Download File type/resource
GSM523519_384563A12_532.calls.gz 2.7 Mb (ftp)(http) CALLS
GSM523519_384563A12_532.pair.gz 2.6 Mb (ftp)(http) PAIR
Processed data included within Sample table
Processed data provided as supplementary file

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