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Sample GSM328682 Query DataSets for GSM328682
Status Public on Mar 05, 2010
Title Lcl-balanced-9
Sample type RNA
 
Source name 46,XY,t(11;22)(q23;q11)pat
Organism Homo sapiens
Characteristics Cell type: Lymphoblastoid cell lines
Gender: Male
Age: 17.01
Growth protocol Cells were cultured in RPMI-1640 Medium with GlutaMAX (Gibco, Invitrogen), supplemented with 10% (v/v) Fetal calf serum, and 1% (v/v) penicillin and streptomycin at 37oC in 5% CO2
Extracted molecule total RNA
Extraction protocol TRIzol reagent (Invitrogen, Carlsbad, NM, USA), cleaned on RNeasy columns (Qiagen) according to the manufacturers' instructions
Label biotin
Label protocol 200ng of total RNA were amplified and labeled using the Message Amp II-biotin Enhanced reagents (Ambion; catalog #AM1791)
 
Hybridization protocol Affymetrix HG-U133 Plus 2.0 arrays were hybridized with 11 microgramme of labeled, amplified cRNA , washed, stained and scanned according to the protocol described in Affymetrix GeneChip® Expression Analysis Manual (Fluidics protocol EukGeWS2v5_450)
Scan protocol Scanning was done on an Affymetrix GeneChip Scanner 7G
Description Comparison of the transcriptomes of cell lines from control and t(11;22)(q23;q11) individuals.
Data processing Normalized expression signals were calculated from Affymetrix CEL files using RMA (Irizarry et al., 2003).
 
Submission date Oct 08, 2008
Last update date Aug 28, 2018
Contact name Frédéric Schütz
E-mail(s) [email protected]
Organization name Swiss Institute of Bioinformatics
Street address Batiment Amphipole
City Lausanne
ZIP/Postal code 1015
Country Switzerland
 
Platform ID GPL570
Series (1)
GSE13122 The Effect of Translocation-Induced Nuclear Re-organization on Gene Expression
Relations
Reanalyzed by GSE119087

Data table header descriptions
ID_REF
VALUE Log2 normalized expression signal

Data table
ID_REF VALUE
1007_s_at 7.236344429
1053_at 7.899293664
117_at 5.504299802
121_at 7.885295257
1255_g_at 2.742873485
1294_at 7.736618356
1316_at 5.389367151
1320_at 4.122869505
1405_i_at 7.766441261
1431_at 3.568610853
1438_at 4.198265466
1487_at 7.231646095
1494_f_at 4.559812447
1552256_a_at 8.594403073
1552257_a_at 7.59757117
1552258_at 4.71245775
1552261_at 4.587313401
1552263_at 8.567052131
1552264_a_at 8.05047275
1552266_at 2.40674944

Total number of rows: 54675

Table truncated, full table size 1212 Kbytes.




Supplementary file Size Download File type/resource
GSM328682.CEL.gz 8.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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