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Sample GSM659399 Query DataSets for GSM659399
Status Public on Jan 22, 2011
Title OvCLMixRefC1(3) vs. OVTOKO
Sample type RNA
 
Channel 1
Source name OvCLMixRefC1(41 cell lines)
Organism Homo sapiens
Characteristics sample type: OvCLMixRefC1(41 cell lines)
cell type: 41 ovarian cell lines
Growth protocol All cell line cultures used for arrays were harvested at 50-70% confluency, centrifuged, and quick frozen. The growth media for the various lines were as follows:
All cell lines were characterized using mtDNA sequence prior to use
A2780: RPMI1640 Medium (ATCC) plus 10% FBS and 0.25 U.ml insulin.
CAOV3: DMEM Medium plus 10% FBS and 4.5 g.L glucose
COLO704, HEY, OV2008, C90: RPMI1640 medium plus 10% FBS
DOV13, MCAS: Eagle's Minimal Essential Medium (ATCC) plus 15% FBS
EFO21, EFO27: RPMI1640 Medium 20% FBS and 1% MEM Non-Essential Amino Acid Solution (ATCC)
ES-2: McCoy's 5A Medium (ATCC) plus 10% FBS
HEY-C2: DMEM/F12 (ATCC) plus 10% FBS
KK, KOC-7c, KURAMOCHI: RPMI1640 Medium plus 10% FBS and 1% MEM Non-Essential Amino Acid Solutioin and 0.25 U/ml insulin
OAW28, OAW42: DMEM (ATCC) plus 10% FBS
OV167, OV177, OV207: MEM (Fisher Sci.) plus 20% FBS
OVCA420, OVCA429: MEM plus 10%FBS
OVCA432: Eagle's Minimal Essential Medium
All cultures were supplimented with !% penicillin-streptomycin and 1% l-glutamine
Extracted molecule total RNA
Extraction protocol Total RNA extracted using Qiagen Rneasy Kit following manufacturer's protocol
Label Cy3
Label protocol RNA were labeled with Cy3-CTP or Cy5-CTP using the Quick-Amp Labeling Kit (Agilent) following manufacturer's instructions
 
Channel 2
Source name OVTOKO
Organism Homo sapiens
Characteristics pd-0332991 ic50 in umol: 0.036
pd-0332991 se: 0.009
pd-0332991 sensitivity: Sensitive
cell line: OVTOKO
cell type: Ovarian cell line
Growth protocol All cell line cultures used for arrays were harvested at 50-70% confluency, centrifuged, and quick frozen. The growth media for the various lines were as follows:
All cell lines were characterized using mtDNA sequence prior to use
A2780: RPMI1640 Medium (ATCC) plus 10% FBS and 0.25 U.ml insulin.
CAOV3: DMEM Medium plus 10% FBS and 4.5 g.L glucose
COLO704, HEY, OV2008, C90: RPMI1640 medium plus 10% FBS
DOV13, MCAS: Eagle's Minimal Essential Medium (ATCC) plus 15% FBS
EFO21, EFO27: RPMI1640 Medium 20% FBS and 1% MEM Non-Essential Amino Acid Solution (ATCC)
ES-2: McCoy's 5A Medium (ATCC) plus 10% FBS
HEY-C2: DMEM/F12 (ATCC) plus 10% FBS
KK, KOC-7c, KURAMOCHI: RPMI1640 Medium plus 10% FBS and 1% MEM Non-Essential Amino Acid Solutioin and 0.25 U/ml insulin
OAW28, OAW42: DMEM (ATCC) plus 10% FBS
OV167, OV177, OV207: MEM (Fisher Sci.) plus 20% FBS
OVCA420, OVCA429: MEM plus 10%FBS
OVCA432: Eagle's Minimal Essential Medium
All cultures were supplimented with !% penicillin-streptomycin and 1% l-glutamine
Extracted molecule total RNA
Extraction protocol Total RNA extracted using Qiagen Rneasy Kit following manufacturer's protocol
Label Cy5
Label protocol RNA were labeled with Cy3-CTP or Cy5-CTP using the Quick-Amp Labeling Kit (Agilent) following manufacturer's instructions
 
 
Hybridization protocol 825 ng each of labeled reference mix (cy3 label) and individual sample (cy5 label) were applied to Whole Human Genome 4X44 microarrays (Agilent G4112F) using the In Situ Hybridization Kit Plus (Agilent) protocol
Scan protocol Slides were read on an Agilent G2505C scanner.
Images were quantified using Agilent Feature Extraction Software (version A.9.5.1).
Data processing Agilent Feature Extraction Software (v 9.5.1) was used for background subtraction and LOWESS normalization;: (1) local background used, (2) special detrend Off, (3) adjust background globally Off, (4) red autoestimate Off, and (5) green autoestimate Off.
normalized log10 ratio (Cy5/Cy3) representing test/reference
Rosetta Resolver (v.7.2.2.0) was used for subsequent analysis of the array data
 
Submission date Jan 21, 2011
Last update date Feb 07, 2011
Contact name Charles L Ginther
E-mail ginther@ucla.edu
Phone 310-586-2667
Organization name UCLA
Department Hem-Onc
Lab Slamon
Street address 2825 Santa Monica Blvd, #200
City Santa Monica
State/province CA
ZIP/Postal code 90404
Country USA
 
Platform ID GPL6480
Series (1)
GSE26805 Expression of p16 and Retinoblastoma Determines Response to CDK 4/6 Inhibition in Ovarian Cancer: Ovarian cancer cell line expression data.

Data table header descriptions
ID_REF
VALUE normalized log10 ratio (Cy5/Cy3) representing test/reference

Data table
ID_REF VALUE
A_24_P101541 0.03733
A_32_P167000 0.23348
A_32_P19135 0.10304
A_23_P408865 0.02737
A_24_P41662 0.09578
A_24_P936232 0.13176
A_23_P167051 -0.2543
A_23_P81233 0.00556
A_23_P143569 0.05721
A_23_P135995 -0.28613
A_24_P337104 0.32047
A_32_P109270 -0.00247
A_23_P108871 -0.16944
A_23_P366366 -0.23447
A_23_P43557 -0.2434
A_23_P15402 -0.37165
A_32_P182299 -0.01127
A_24_P64393 0.13207
A_24_P239664 -0.02086
A_23_P411321 0.17527

Total number of rows: 41005

Table truncated, full table size 839 Kbytes.




Supplementary file Size Download File type/resource
GSM659399_US22502615_251485024432_S01_GE2-v5_95_Feb07_2_Off_1_4.txt.gz 14.2 Mb (ftp)(http) TXT
Raw data provided as supplementary file
Processed data included within Sample table

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