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Sample GSM915112 Query DataSets for GSM915112
Status Public on Jun 30, 2014
Title op388_AD (exon level)
Sample type RNA
 
Source name neocortex of AD patient
Organism Homo sapiens
Characteristics age: 83
Sex: male
pmi: 29
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 GSM915096 (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 5.90602
2315589 5.05736
2315591 4.60697
2315594 5.34783
2315595 1.69467
2315596 2.50569
2315598 4.0801
2315602 3.60927
2315603 6.57896
2315604 3.30949
2315607 3.49683
2315638 7.22781
2315639 4.39334
2315640 6.04162
2315641 4.45772
2315642 2.8858
2315643 6.86865
2315644 4.49386
2315645 6.28376
2315690 5.22724

Total number of rows: 232479

Table truncated, full table size 3617 Kbytes.




Supplementary file Size Download File type/resource
GSM915112_3_op388_22.CEL.gz 18.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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