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Sample GSM915121 Query DataSets for GSM915121
Status Public on Jun 30, 2014
Title op340_AD (exon level)
Sample type RNA
 
Source name neocortex of AD patient
Organism Homo sapiens
Characteristics age: 63
Sex: female
pmi: 48
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 GSM915105 (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 6.50555
2315589 5.71279
2315591 4.89324
2315594 3.62931
2315595 1.93922
2315596 1.68177
2315598 3.71009
2315602 3.57197
2315603 5.73469
2315604 2.62538
2315607 3.01914
2315638 6.69483
2315639 4.82077
2315640 5.92943
2315641 5.13186
2315642 4.57194
2315643 6.12684
2315644 5.72699
2315645 5.97413
2315690 5.24374

Total number of rows: 232479

Table truncated, full table size 3615 Kbytes.




Supplementary file Size Download File type/resource
GSM915121_12_op340_22.CEL.gz 18.5 Mb (ftp)(http) CEL
Processed data included within Sample table

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