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Sample GSM1152172 Query DataSets for GSM1152172
Status Public on Sep 11, 2014
Title Whole lung Scnn1b-Tg, PND 0, biological replicate 1
Sample type RNA
 
Source name Scnn1b-Tg, whole lung
Organism Mus musculus
Characteristics strain: C57Bl/6N Tac
genotype: Scnn1b-Transgenic
age (postnatal day): PND 0 (<24 hrs)
Treatment protocol Not applicable; no treatment; mice are either wildtype or Scnn1b-transgenic and were harvested at post natal days 0, 3, 10, and 42.
Growth protocol Mouse whole lung (left lobe); mice grown under specific-pathogen-free conditions in micro-isolator cages
Extracted molecule total RNA
Extraction protocol Whole lungs were dissected and stored in RNALater until extraction using Qiagen RNAeasy columns, followed by ethanol precipitation
Label biotin
Label protocol RNAs were processed for hybridization to Affymetrix Mouse Gene ST 1.0 microarrays using the Affymetrix GeneChip Whole Transcript Sense Target Labeling Kit and Ambion WT Expression Kit, according to manufacturer's recommended protocol.
 
Hybridization protocol Affymetrix GeneChip Hybridization Oven 640 for 16 hours at 45 degrees. Washing and staining was performed in the Affymetrix GeneChip Fluidics Station 450, protocol FS450_0007.
Scan protocol Affymetrix GeneChip Scanner 3000 7G
Description whole lung (left lobe) pooled samples from newborn (post natal day 0) Scnn1b-transgenic males (animal numbers 2375, 2376)
Data processing CEL files were imported into Partek Genomics Suite v6.5, and exon-level log2 intensities were obtained through RMA background correction, GC content and sequence adjustment, quantile normalization, and median polish probeset summarization. Gene-level log2 intensity were summarized as the mean of exon probesets.
MoGene-1_0-st-v1.r4.pgf
MoGene-1_0-st-v1.r4.mps
 
Submission date May 31, 2013
Last update date Sep 12, 2014
Contact name Hong Dang
E-mail(s) dangh@email.unc.edu
Organization name UNC Chapel Hill
Department CF Center
Street address 7027 Thurston-Bowles Bldg. CB#7248
City Chapel Hill
State/province NC
ZIP/Postal code 27599
Country USA
 
Platform ID GPL6246
Series (2)
GSE47546 Gene expression in whole lung and pulmonary macrophages reflects the dynamic pathology associated with airway surface dehydration [left lobe only]
GSE47551 mRNA expression data from either wild-type mice or Scnn1b-transgenic mice at post-natal days 0, 3, 10, and 42

Data table header descriptions
ID_REF
VALUE Mean log2 intensity from exon-level probesets, normalized by RMA background correction, GC content and sequence adjustment, quantile normalization, and median polish probeset summarization (Partek Genomics Suite v6.5).

Data table
ID_REF VALUE
10605884 6.67758
10411593 4.82052
10351644 4.69891
10461553 3.63252
10436128 3.78959
10411595 4.90948
10485979 3.45595
10545940 6.86883
10521515 4.70796
10486081 4.47662
10595900 6.63716
10485982 10.7114
10606001 7.08521
10461558 6.14062
10411609 7.6368
10595892 3.49898
10571467 5.7652
10411611 4.42277
10595895 4.52996
10546047 4.32962

Total number of rows: 35556

Table truncated, full table size 586 Kbytes.




Supplementary file Size Download File type/resource
GSM1152172_Lung_Scnn1b-Tg_PND0_rep1_40.CEL.gz 4.2 Mb (ftp)(http) CEL
Processed data included within Sample table

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