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Sample GSM2389470 Query DataSets for GSM2389470
Status Public on Nov 01, 2022
Title NVP.24hr.3
Sample type RNA
 
Channel 1
Source name RNA purified from cultured neurons
Organism Mus musculus
Characteristics tissue: neurons
Growth protocol DIV 21 dissociated mouse hippocampal neurons in 6 well plates were treated by Vehicle, 100 μM AP5, 100 nM NVP-AAM077 or 1 μM Ro25-4891 for 24 hours in a cell culture incubator    
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using RNeasy plus kit (Qiagen)
Label Cy5
Label protocol Briefly, total RNA sample was converted to double-stranded cDNA and then to Cy-dye labeled cRNA using Agilent’s Quick Amp Labeling Kit. The labeled cRNA was purified using RNeasy mini kit (Qiagen, San Diego, CA). cRNA yield and Cy-dye incorporation was determined using ND-1000 spectrophotometer (Thermo Scientific)
 
Channel 2
Source name universal mouse reference (Stratagene, La Jolla, CA)
Organism Mus musculus
Characteristics tissue: universal mouse reference
Growth protocol DIV 21 dissociated mouse hippocampal neurons in 6 well plates were treated by Vehicle, 100 μM AP5, 100 nM NVP-AAM077 or 1 μM Ro25-4891 for 24 hours in a cell culture incubator    
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using RNeasy plus kit (Qiagen)
Label Cy3
Label protocol Briefly, total RNA sample was converted to double-stranded cDNA and then to Cy-dye labeled cRNA using Agilent’s Quick Amp Labeling Kit. The labeled cRNA was purified using RNeasy mini kit (Qiagen, San Diego, CA). cRNA yield and Cy-dye incorporation was determined using ND-1000 spectrophotometer (Thermo Scientific)
 
 
Hybridization protocol 750 ng of the labeled cRNA was fragmented and hybridized to arrays as described in manufacturer’s hybridization kit
Scan protocol Scanned on an Agilent G2565AA scanner.
Images were quantified using Agilent Feature Extraction Software (version A.8.5.1.1).
Description NVP.24hr.3
Data processing  Agilent’s Feature Extraction software 11.0 was used to analyze acquired array images
 
Submission date Nov 14, 2016
Last update date Nov 01, 2022
Contact name Josh Kaminker
Organization name Genentech
Department Bioinformatics and Computational Biology
Street address 1 DNA Way
City South San Francisco
State/province CA
ZIP/Postal code 94080
Country USA
 
Platform ID GPL7202
Series (1)
GSE89802 Neuronal activity stimulates astrocyte proliferation through NMDA receptor-dependent induction of Prostaglandin-Endoperoxide Synthase 2

Data table header descriptions
ID_REF
VALUE normalized log2 ratio (Cy5/Cy3) representing test/reference

Data table
ID_REF VALUE
A_52_P298165 0.105275463
A_52_P96028 0.120974641
A_52_P413492 -2.009127198
A_51_P351598 -0.168455403
A_52_P700056 -2.003569187
A_51_P199778 0.190593745
A_52_P660466 -0.199115639
A_52_P62011 1.036141215
A_51_P134184 0.204729486
A_52_P265820 0.187195921
A_52_P27056 0.111701046
A_52_P61833 0.261053427
A_51_P375631 0.506322039
A_51_P432011 -0.081554649
A_52_P160057 3.178188566
A_52_P633785 0.448578203
A_51_P204237 0.008759161
A_52_P1053160 -0.096798248
A_52_P677891 3.38614829
A_52_P352541 1.895127759

Total number of rows: 20674

Table truncated, full table size 510 Kbytes.




Supplementary file Size Download File type/resource
GSM2389470_Agilent_251486827952_S01_GE2_107_Sep09_1_4.txt.gz 14.5 Mb (ftp)(http) TXT
Processed data included within Sample table

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