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Sample GSM1231758 Query DataSets for GSM1231758
Status Public on Dec 01, 2014
Title HMLEN Vector Control; replicate 2
Sample type RNA
 
Channel 1
Source name HMLEN cells transduced with pLEX-MCS vector
Organism Homo sapiens
Characteristics cell line: HMLEN
treatment: Vector Control
emt phenotype: Epithelial
colony formation ability: Weak
Extracted molecule total RNA
Extraction protocol Total RNA were extracted using RNAeasy mini-prep kit from Qiagen
Label Cy5
Label protocol The testing RNA samples and universal human reference RNA (Agilent) were labeled with CTP-cy5 and CTP-cy3, respectively, Using Agilent Quick Amp Labeling Kit.
 
Channel 2
Source name Universal Mouse Reference RNA
Organism Homo sapiens
Characteristics sample type: Universal Mouse Reference RNA
cell line: Mix of 10 human cell lines
Extracted molecule total RNA
Extraction protocol Total RNA were extracted using RNAeasy mini-prep kit from Qiagen
Label Cy3
Label protocol The testing RNA samples and universal human reference RNA (Agilent) were labeled with CTP-cy5 and CTP-cy3, respectively, Using Agilent Quick Amp Labeling Kit.
 
 
Hybridization protocol Each cy5 labeled testing sample was mixed with equal amount cy3-labeled reference sample and fragmented and blocked (Agilent Gene Expression Hybridization Kit), and samples were applied to microarrays enclosed in Agilent SureHyb-enabled hybridization chambers. After hybridization, slides were washed sequential
Scan protocol Scanned on an Agilent G2565BA scanner.
Images were quantified using Agilent Feature Extraction Software (version 9.5.3.1).
Description See Agilent Catalog #740000 for detail
Stable cell lines were generated using pLEX based lentivirus system and selected for puromycin resistance. Cells were then cultured without puromycin in normal mammaliam cell culture condition till they were about 90% conflunecy before harvesting.
Data processing Agilent Feature Extraction Software (v 9.5.3.1) was used for background subtraction and linear Lowess normalization.
 
Submission date Sep 16, 2013
Last update date Jun 13, 2022
Contact name Yong Wei
E-mail(s) yongwei@princeton.edu
Phone 6148058904
Organization name Princeton University
Street address 227 Lewis Thomas Laboratory, Washington Road
City Princeton
State/province NJ
ZIP/Postal code 08544
Country USA
 
Platform ID GPL17077
Series (2)
GSE50888 HMLEN cells with Vector Control vs SNAIL vs SNAIL/FBXO11
GSE50889 Vector Control vs SNAIL vs SNAIL/FBXO11

Data table header descriptions
ID_REF
VALUE Lowess normalized log2 ration of test/reference (Cy5/Cy3); Flag values applied

Data table
ID_REF VALUE
A_23_P117082 -0.177
A_33_P3246448 -4.756
A_33_P3318220 0.384
A_33_P3236322 -0.677
A_33_P3319925 0.052
A_21_P0000509 -5.908
A_21_P0000744 -1.307
A_24_P215804 0.020
A_23_P110167 -0.274
A_33_P3211513 0.009
A_23_P103349 0.149
A_32_P61480 1.405
A_33_P3788124 0.398
A_33_P3414202 -0.724
A_33_P3316686 2.121
A_33_P3300975 2.198
A_33_P3263061 0.213
A_33_P3261373 -0.014
A_24_P278460 0.504
A_21_P0013109 0.401

Total number of rows: 50599

Table truncated, full table size 984 Kbytes.




Supplementary file Size Download File type/resource
GSM1231758_HMLEN-CNT-2.txt.gz 6.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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