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Sample GSM915122 Query DataSets for GSM915122
Status Public on Jun 30, 2014
Title op450_AD (exon level)
Sample type RNA
 
Source name neocortex of AD patient
Organism Homo sapiens
Characteristics age: 78
Sex: male
pmi: 88
disease status: Alzheimer's disease (AD)
tissue: neocortex
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using Trizol reagents. Samples were first processed for rRNA depletion with the RiobMinus Human/Mouse Transcriptome Isolation Kit (Invitrogen). cDNA synthesis and amplification were then performed using the GeneChip Whole Transcript (WT) cDNA Synthesis and Amplification Kit (Affymetrix).
Label biotin
Label protocol Samples were fragmented and end-labeled using the WT Sense Target Labeling Kit (Affymetrix).
 
Hybridization protocol Samples were hybridized to Affymetrix GeneChip Human Exon 1.0 ST arrays at 45°C for 16 hours, then washed and stained in a Fluidics Station 450.
Scan protocol GeneChips were scanned by a GCS3000 Scanner (Affymetrix).
Data processing CEL files were generated using Affymetrix GCOS software and exported to the Partek Genomics Suite V6.3. After GC content and Robust Multi-Chip analysis (RMA) background corrections, data across different batches were subject to quantile normalization.

Probe group file: HuEx-1_0-st-v2.r2.pgf
Meta-probeset file: HuEx-1_0-st-v2.r2.dt1.hg18.core.mps
Genome build: hg18
 
Submission date Apr 13, 2012
Last update date Jun 30, 2014
Contact name Michelle GK Tan
E-mail(s) michelle.tan.g.k@sgh.com.sg
Organization name Singapore General Hospital
Department Clinical Translational Research
Street address 20 College Road
City Singapore
ZIP/Postal code 169856
Country Singapore
 
Platform ID GPL5188
Series (1)
GSE37264 Genome-wide profiling of altered gene expression in the neocortex of Alzheimer's disease (exon level)
Relations
Alternative to GSM915106 (gene-level analysis)

Data table header descriptions
ID_REF
VALUE Quantile-normalized, log2 base signals derived from Partek Genomic Suite

Data table
ID_REF VALUE
2315588 5.42868
2315589 5.02562
2315591 3.8884
2315594 4.64574
2315595 1.94415
2315596 2.0889
2315598 3.47343
2315602 2.75663
2315603 5.75512
2315604 2.23786
2315607 2.77908
2315638 6.33964
2315639 3.54967
2315640 5.52411
2315641 4.60619
2315642 2.80524
2315643 6.74423
2315644 5.52755
2315645 6.5536
2315690 4.1954

Total number of rows: 232479

Table truncated, full table size 3619 Kbytes.




Supplementary file Size Download File type/resource
GSM915122_13_op450_22.CEL.gz 19.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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