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Sample GSM915116 Query DataSets for GSM915116
Status Public on Jun 30, 2014
Title op9_CNT (exon level)
Sample type RNA
 
Source name neocortex of control patient
Organism Homo sapiens
Characteristics age: 79
Sex: female
pmi: 29
disease status: control
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 GSM915100 (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 5.84624
2315589 4.73826
2315591 4.17358
2315594 4.64414
2315595 2.98366
2315596 3.72726
2315598 4.29961
2315602 3.10625
2315603 5.61101
2315604 2.38795
2315607 2.45796
2315638 6.75388
2315639 3.98703
2315640 5.94103
2315641 4.51343
2315642 2.51478
2315643 6.88776
2315644 5.23252
2315645 6.10357
2315690 4.3582

Total number of rows: 232479

Table truncated, full table size 3617 Kbytes.




Supplementary file Size Download File type/resource
GSM915116_7_op9_22.CEL.gz 19.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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