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Sample GSM986402 Query DataSets for GSM986402
Status Public on Apr 10, 2013
Title lung_vehicle_d35_M4
Sample type RNA
 
Source name Lung, saline, d35
Organism Mus musculus
Characteristics strain/background: C57BL6/J
gender: male
tissue: lung homogenate
treatment: saline
time point: day 35
Treatment protocol Mice were intratracheally treated with bleomycin or saline once. Lung tissue was harvested from sacrificed mice at 7 timepoints following treatment.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated from the mouse lung tissue of bleomycin- and saline-treated mice across 7 time points (1, 2, 7, 14, 21, 28, and 35 days, n=8 per group) and homogenized in QIAzol reagent.
Label biotin
Label protocol Purified total RNA was amplified and labeled using NuGen Ovation kits (NuGEN Technologies, Inc., San Carlos, CA).
 
Hybridization protocol RNA from samples was hybridized to Affymetrix Mouse 430 2.0 arrays. Array washing and staining were performed according to standard Affymetrix protocols.
Scan protocol Array scanning was performed according to standard Affymetrix protocols.
Description vehicle_d35_M4
Data processing Probe level data was curated by first mapping individual probe sequences to their most current genome sequences. Probes which were non-uniquely mapped to specific genes or contained outdated mappings were discarded, and the remaining probes were summarized into probesets and normalized using Robust Multi-array Average (RMA). Probes expressed at low levels across all samples were subsequently discarded. The probe curation and normalization were performed in an internal pipeline using R and SAS.
 
Submission date Aug 15, 2012
Last update date Apr 11, 2013
Contact name Sriram Sridhar
E-mail(s) [email protected]
Phone 6178771485
Organization name MedImmune
Department Translational Medicine
Street address 1 MedImmune Way
City Gaithersburg
State/province MD
ZIP/Postal code 20878
Country USA
 
Platform ID GPL1261
Series (1)
GSE40151 Bleomycin induces molecular changes directly relevant to idiopathic pulmonary fibrosis: A model for “active” disease.

Data table header descriptions
ID_REF
VALUE RMA-normalized expression value for curated Affymetrix Mouse 430 2.0 probes passing background correction

Data table
ID_REF VALUE
1424262_at 4.943315955
1437835_a_at 9.485609184
1439244_a_at 11.03709029
1443733_x_at 9.934279761
1415966_a_at 12.39688419
1424700_at 9.593350549
1433854_at 11.68151582
1437093_at 9.106949948
1437810_a_at 5.945212113
1438559_x_at 13.54574452
1440162_x_at 8.648460012
1443849_x_at 12.34880669
1460563_at 10.23014514
1438320_s_at 11.04060025
1455875_x_at 12.59824399
1438054_x_at 10.08046903
1420023_at 9.425082875
1415670_at 11.0464881
1415671_at 11.9970066
1415674_a_at 10.88243779

Total number of rows: 32688

Table truncated, full table size 743 Kbytes.




Supplementary file Size Download File type/resource
GSM986402_EA10089_123324_MOUSE430_2_D35M4.CEL.gz 3.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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