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Sample GSM949296 Query DataSets for GSM949296
Status Public on Mar 02, 2021
Title Bcl-xAS-transfected 786-O cells_replicate 4_Cy3 vs. Control empty vector-transfected 786-O cells_replicate 4_Cy5
Sample type RNA
 
Channel 1
Source name Control empty vector-transfected 786-O cells
Organism Homo sapiens
Characteristics cell line: 786-O
original tissue: clear cell renal cell cancer (CCRCC)
transfection: control
Treatment protocol Cells were transfected with 6 μg of Bcl-xAS expression construct or with 6 μg of empty vector (pCEP) as control using 3:1 FuGENE HD reagent (Promega). At 24 h after transfection, total RNA was extracted.
Growth protocol 786-O cells were cultivated in 147.8 cm2 cell culture plates with Dulbecco's Modified Eagle Medium (DMEM) supplemented with 10% FBS. To perform four biological replicates, we cultivated four plates in parallel.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted with Trizol reagent following the manufacturer's instructions. Total RNA was DNase-I-treated and purified using the Illustra RNAspin Mini kit (GE Healthcare) following the manufacturer's instructions.
Label Cy5
Label protocol 200 ng of total RNA was labelled following the Agilent Two-color Low Input Quick Amp Labeling Protocol Version 6.5.
 
Channel 2
Source name Bcl-xAS-transfected 786-O cells
Organism Homo sapiens
Characteristics cell line: 786-O
original tissue: clear cell renal cell cancer (CCRCC)
transfection: Bcl-xAS
Treatment protocol Cells were transfected with 6 μg of Bcl-xAS expression construct or with 6 μg of empty vector (pCEP) as control using 3:1 FuGENE HD reagent (Promega). At 24 h after transfection, total RNA was extracted.
Growth protocol 786-O cells were cultivated in 147.8 cm2 cell culture plates with Dulbecco's Modified Eagle Medium (DMEM) supplemented with 10% FBS. To perform four biological replicates, we cultivated four plates in parallel.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted with Trizol reagent following the manufacturer's instructions. Total RNA was DNase-I-treated and purified using the Illustra RNAspin Mini kit (GE Healthcare) following the manufacturer's instructions.
Label Cy3
Label protocol 200 ng of total RNA was labelled following the Agilent Two-color Low Input Quick Amp Labeling Protocol Version 6.5.
 
 
Hybridization protocol 300 ng of cRNA was hybridized following the Agilent Two-color Low Input Quick Amp Labeling Protocol Version 6.5.
Scan protocol Scanned on an Agilent G2565CA Microarray Scanner System.
Description Bcl-xAS_rep4_Cy3/Ctl_rep4_Cy5
Bcl-xAS-transfected 786-O cells, biological replicate 4 of 4, Cy3 labelled vs. empty vector-transfected 786-O cells, biological replicate 4 of 4, Cy5 labelled.
Data processing Linear and lowess-normalized data (Processed Signal Column by Feature Extractor Agilent Software v.10.7.1.1) was transformed to log2 ratios for test/reference samples.
 
Submission date Jun 17, 2012
Last update date Mar 02, 2021
Contact name Angela A. Fachel
E-mail(s) anf2032@med.cornell.edu
Organization name Weill Cornell Medicine
Street address 1300 York Ave
City New York
State/province New York
ZIP/Postal code 10065
Country USA
 
Platform ID GPL13607
Series (1)
GSE38766 Expression profile of human 786-O cells overexpressing Bcl-xAS lncRNA

Data table header descriptions
ID_REF
VALUE Normalized log2 ratio (Bcl-xAS overexpression / empty vector control)

Data table
ID_REF VALUE
1 0.566923676
2 0.380852236
3 0.382626893
4 -0.458329062
5 0.461652859
6 -0.326443576
7 -0.147597914
8 0.11502785
9 1.438513069
10 -1.783832199
11 0.573547121
12 0.937264245
13 1.194378045
14 0.327687364
15 -0.528378972
16 1.527247003
17 0.05246742
18 -1.462105753
19 0.656204582
20 -0.041723412

Total number of rows: 62976

Table truncated, full table size 1115 Kbytes.




Supplementary file Size Download File type/resource
GSM949296_US09423728_252800412315_S01_GE2_107_Sep09_2_4.txt.gz 6.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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