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Sample GSM2536218 Query DataSets for GSM2536218
Status Public on Mar 13, 2020
Title TetOff_3 (gene)
Sample type RNA
 
Source name CD4+ T cell line stably transfected with TetOff vector
Organism Homo sapiens
Characteristics cell type: Jurkat
Treatment protocol NA
Growth protocol Jurkat-TetOff were maintained in RPMI with 300 ug/ml geneticin and both Jurkat-Tat72 and Jurkat-Tat101 cell lines were maintained in RPMI with 300 ug/ml geneticin 300 ug/ml hygromycin B and (BD Biosciences and Clontech, respectively)
Extracted molecule total RNA
Extraction protocol Extracted with Qiagen RNeasy mini columns (Qiagen)
Label biotin
Label protocol Samples were enzymatically fragmented and biotinylated using the WT Terminal Labeling Kit (Affymetrix)
 
Hybridization protocol Samples were hybridized using Affymetrix hybridization kit materials • Heat cocktails at 99° for 5 minutes, then 42° for 5 minutes centrifuge at max speed for 1 minute (N.B. this deviates from Affy SOP). • Transfer 200μl of hyb solution to each array, then tape holes and parafilm. • Hybridize 16 hours at 45° at 60rpm• Fluidics washing is FS450_0001
Scan protocol Affymetrix Gene ChIP Scanner 3000 7G
Data processing Data were processed using EASANA from GenoSplice technology. GC background correction were applied to probe intensities (core), gene and exon level expression were summarized from the corrected intensities and then quantile normalized.
HuEx-1_0-st-v2.r2.pgf
HuEx-1_0-st-v2.r2.dt1.hg18.core.mps
 
Submission date Mar 14, 2017
Last update date Mar 13, 2020
Contact name Pierre de la Grange
E-mail(s) pierre.delagrange@genosplice.com
Organization name GenoSplice technology
Department Paris Biotech Santé
Street address 29, rue du Faubourg Saint-Jacques
City Paris
ZIP/Postal code 75014
Country France
 
Platform ID GPL5175
Series (1)
GSE96579 Modifications induced by HIV-1 Tat protein in cellular splicing mechanisms
Relations
Alternative to GSM2536206 (exon-level analysis)

Data table header descriptions
ID_REF
VALUE Quantile gene and normalized gene level expression values (log2) from EASANA (GenoSplice technology)

Data table
ID_REF VALUE
3948543 9.11616
3063807 8.222052
3096575 7.875683
2949118 7.929033
3227645 10.47769
4014076 3.827399
2637819 2.913258
3850234 9.249212
3719161 10.17891
2916345 7.891046
2342904 7.057078
3817464 8.927799
2408437 7.607754
3932148 8.752659
3375091 6.712025
3653619 9.712183
2818035 6.212959
3063795 7.708598
2359282 9.300107
2981874 8.011506

Total number of rows: 22011

Table truncated, full table size 363 Kbytes.




Supplementary file Size Download File type/resource
GSM2536218_TetOff_3.CEL.gz 24.5 Mb (ftp)(http) CEL
Processed data included within Sample table

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