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Sample GSM123268 Query DataSets for GSM123268
Status Public on Jul 27, 2007
Title brain_Down_syndrome_sampleid_jg1740
Sample type RNA
Source name human post-mortem brain tissue, Down syndrome
Organism Homo sapiens
Characteristics Disease_status: Down syndrome
Age (years): 61
Gender: Female
Post mortem interval (hours): Unknown
Braak stage: Unknown
Cause of death: Unknown
Biomaterial provider Prof. Anthony Holland, Cambridge Brain Bank, Department of Pathology, Addenbrooke's Hospital, University of Cambridge, UK
Extracted molecule total RNA
Extraction protocol Total RNA was isolated from human postmortem brain tissue using Trizol (Invitrogen, USA) or Tri reagent (Sigma, UK) total RNA isolation kits according to the manufacturer's instructions.
Label Biotin
Label protocol Double-stranded cDNA was synthesised from 5 micrograms of total RNA using Superscript II double-stranded cDNA synthesis kit (Invitrogen, USA), purified, then in-vitro transcribed and labelled using BioArray HighYield RNA transcript Labeling Kit (Enzo Life Sciences, USA)
Hybridization protocol Following fragmentation, 15 micrograms of cRNA were hybridised to Affymetrix Human Genome 133A GeneChips for 16 hours at 45oC with constant rotation at 60rpm. Chips were washed and stained according to manufacturer's instructions using the Affymetrix GeneChip Fluidics Station 400.
Scan protocol Affymetrix HG-U133A GeneChips were scanned with the Agilent GeneArray Scanner
Description none
Data processing The raw data (CEL files) were read into R statistical package and normalised using the robust multi-chip average (RMA) method (Irizarray et al, 'Exploration, normalization and summaries of high density oligonucleotide array probe level data', Biostatistics, 2003).
Submission date Jul 25, 2006
Last update date Apr 27, 2020
Contact name Sabine Bahn
Organization name University of Cambridge
Lab Cambridge Centre for Neuropsychiatric Research
Street address Tennis Court Road
City Cambridge
ZIP/Postal code CB2 1QT
Country United Kingdom
Platform ID GPL96
Series (1)
GSE5390 Expression profiling of human adult postmortem brain tissue from Down syndrome and healthy control subjects
Reanalyzed by GSE149466

Data table header descriptions
ID_REF Probe-set ID
VALUE RMA normalised signal intensity

Data table
1007_s_at 10.12496331
1053_at 5.128083126
117_at 5.858279561
121_at 7.976879689
1255_g_at 4.060714738
1294_at 6.599051808
1316_at 6.176397025
1320_at 4.429089359
1405_i_at 4.058369064
1431_at 4.109387559
1438_at 6.455647372
1487_at 7.198237782
1494_f_at 6.205750295
1598_g_at 9.464889701
160020_at 7.778275867
1729_at 7.158637446
177_at 4.611622911
1773_at 5.304973754
179_at 8.895460677
1861_at 6.491189288

Total number of rows: 22283

Table truncated, full table size 496 Kbytes.

Supplementary file Size Download File type/resource
GSM123268.cel.gz 3.3 Mb (ftp)(http) CEL

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