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Sample GSM1212440 Query DataSets for GSM1212440
Status Public on Jun 04, 2014
Title TET1-FL
Sample type RNA
 
Source name HEK293T_TET1-FL expression plasmid
Organism Homo sapiens
Characteristics cell line: HEK293T
transfected with: TET1-FL expression plasmid
Treatment protocol mTET1-CD, TET1-CD, mTET1-FL, TET1-FL expression plasmid or empty vector was transfected into HEK293T cells by using OPTI-MEM (Invitrogen) and FuGene HD transfection reagent (Roche). Three days after transfection, overexpressed cells were purified with fluorescent activated cell sortng. Lentiviral shRNA-mediated TET1 knockdown were also established in HEK293T cells, and one control and two TET1 knockdown clones were identified.
Growth protocol HEK293T cells were cultured in Dulbecco's Modified Eagle Medium modified with 10% fetal bovine serum and 100 μg/ml streptomycin-penicillin.
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol 100 ng of total RNA were amplified using the Ambion WT Expression Kit and cDNA were biotin labelled using Affymetrix GeneChip WT Terminal Labeling protocol.
 
Hybridization protocol Affymetrix GeneChip Human Gene 2.0 ST arrays were hybridized to 5.5ug of biotin labeled cDNA, washed and stained according to Affymetrix protocol.
Scan protocol GeneChips were scanned using GeneChip Scanner 3000 (Affymetrix)
Description Sample 7
Data processing The data were analyzed using the Affymetrix Gene Expression Console (v.1.3.1) with RMA (Robust Multi-array Average) normalization algorithm.
 
Submission date Aug 20, 2013
Last update date Jun 04, 2014
Contact name CHUNLEI JIN
E-mail(s) jincl1980@gmail.com
Organization name The University of Texas MD Anderson Cancer Center
Street address 1515 Holcombe Blvd
City Houston
State/province TX
ZIP/Postal code 77030
Country USA
 
Platform ID GPL16686
Series (2)
GSE44039 TET1 is a maintenance DNA demethylase that prevents methylation spreading in adult cells
GSE50016 TET1 is a maintenance DNA demethylase that prevents methylation spreading in adult cells [cDNA microarray]

Data table header descriptions
ID_REF
VALUE RMA normalized and log2 transformed expression values

Data table
ID_REF VALUE
16657436 5.63434
16657440 7.538653
16657445 4.471973
16657447 2.100184
16657450 10.89142
16657469 8.121761
16657473 5.945212
16657476 6.859519
16657480 4.522382
16657485 4.986878
16657489 5.792871
16657492 6.887209
16657502 8.19066
16657506 6.330577
16657509 5.087253
16657514 6.580914
16657527 6.042686
16657529 6.326553
16657534 6.53846
16657554 7.24385

Total number of rows: 53981

Table truncated, full table size 943 Kbytes.




Supplementary file Size Download File type/resource
GSM1212440_YC-04-03-2013-HuGene-TET1-FL_Temple.CEL.gz 8.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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