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Sample GSM122872 Query DataSets for GSM122872
Status Public on Sep 08, 2006
Title MAQC_AFX_5_D4
Sample type RNA
 
Source name MAQC sample D, i.e., MAQC samples A and B mixed at 25%:75% ratio (A:B).
Organism Homo sapiens
Characteristics NA
Extracted molecule total RNA
Label biotin
Label protocol MAQC samples were processed following Affymetrix one-cycle sample preparation protocol with 5 ug of total RNA (Please refer to GeneChip Expression Analysis Technical Manual for details) and hybridized to Human Genome U133 Plus 2.0 array (catalog #900470, #900466 or #900467).
 
Hybridization protocol Affymetrix GeneChip Operating Software (GCOS) is used to automate the control of GeneChip Fluidics Stations and Scanners.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
Description NA
Data processing The CEL file data were analyzed with BioConductor to generate probeset level data using the justPlier() function. Probe-level data were quantile normalized before PLIER summarization per test site (20 arrays). An offset value of 16 was then added to each probeset-level data point.
 
Submission date Jul 24, 2006
Last update date Aug 28, 2018
Contact name Leming Shi
E-mail(s) lemingshi@fudan.edu.cn
Phone +86-18616827008
Organization name Fudan University
Department School of Life Sciences
Lab Center for Pharmacogenomics
Street address 2005 Songhu Road
City Shanghai
ZIP/Postal code 200438
Country China
 
Platform ID GPL570
Series (1)
GSE5350 MicroArray Quality Control (MAQC) Project
Relations
Reanalyzed by GSE119087

Data table header descriptions
ID_REF Manufacturer's probe (or probeset) ID
VALUE BioConductor-calculated PLIER Signal intensity with the addition of an offset value of 16.
Flag_Detection Flag information was generated using mas5calls() function in BioConductor: P = Present, A = Absent, and M = Marginal.

Data table
ID_REF VALUE Flag_Detection
1552256_a_at 585.81945 P
1552257_a_at 540.09542 P
1552258_at 41.02662 A
1552261_at 145.67382 A
1552263_at 92.36795 P
1552264_a_at 414.99908 P
1552266_at 62.67737 A
1552269_at 23.35004 A
1552271_at 40.88558 A
1552272_a_at 56.65782 A
1552274_at 382.55555 P
1552275_s_at 454.946 P
1552276_a_at 109.09639 A
1552277_a_at 294.56266 P
1552278_a_at 47.7619 A
1552279_a_at 129.13106 P
1552280_at 32.7992 A
1552281_at 82.5658 A
1552283_s_at 369.72545 P
1552286_at 87.46307 P

Total number of rows: 54675

Table truncated, full table size 1185 Kbytes.




Supplementary file Size Download File type/resource
GSM122872_AFX_5_D4.CEL.gz 8.3 Mb (ftp)(http) CEL

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