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Sample GSM1179415 Query DataSets for GSM1179415
Status Public on Aug 30, 2013
Title Top1_shRNA_1
Sample type RNA
 
Source name cultured cortical neurons
Organism Mus musculus
Characteristics treatment: Top1_shRNA
cell type: cultured cortical neurons
strain: C57BL6
Treatment protocol After 7 days in vitro, mouse cortical neurons were treated with drug or vehicle. After 24 or 72 hrs drug treatement, total RNA was prepared.
Growth protocol Mouse cortical neurons were cultured from E13-15 mouse embryos for 7 days in vitro.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from mouse cortical neurons using Trizol reagent.
Label biotin
Label protocol RNA was labeled using the Affymetrix/Ambion WT Expression kit, combined with Affymetrix GeneChip WT terminal labeling kit.
 
Hybridization protocol Arrays for experiments (1) and (3) were washed and stained using the Affymetrix Gene Fluidics station 450. Hybridization was performed at 48˚C for 17 hours. Arrays for other experiments were run using the Affymetrix GeneTitan system. Steps subsequent to hybridization were performed with the Beckman Coulter FXP Target Express Robot. Hybridization was performed at 45˚C for 16 hours with the Affymetrix GeneTitan instrument, controlled using AGCC software.
Scan protocol GeneTitan arrays were scanned using the Affymetrix GeneTitan instrument, controlled by AGCC software. Individual arrays were scanned using the Affymetrix GeneChip Scanner 3000 7G Plus with autoloader.
Description MoGene-2_1-st
Gene Expression data for dose response to Topotecan treatment of mouse cultured cortical neurons
Data processing Arrays were normalized and expression values determined using Affymetrix Expression Console. Linear RMA normalization was used for all experiments.
 
Submission date Jul 02, 2013
Last update date Aug 30, 2013
Contact name Chandri Yandava
E-mail(s) yandava@email.unc.edu
Organization name University of North Carolina at Chapel Hill
Department Carolina Institute for Developmental Disabilities
Street address 101 Renee Lynne Court
City Carrboro
State/province NC
ZIP/Postal code 27510
Country USA
 
Platform ID GPL17400
Series (2)
GSE43899 Co-ordinate inhibiton of autism candidate genes by topoisomerase inhibitors [array]
GSE43900 Co-ordinate inhibition of autism candidate genes by topoisomerase inhibitors

Data table header descriptions
ID_REF
VALUE Linear RMA signal

Data table
ID_REF VALUE
17210850 3.68682
17210852 6.31978
17210855 104.1085
17210869 404.4399
17210883 16.74113
17210887 332.2454
17210904 28.30575
17210912 576.0102
17210947 21.80097
17210953 68.65449
17210984 343.3403
17210994 10.49949
17210996 4.750439
17210998 13.7638
17211000 88.47476
17211004 439.1887
17211023 84.50223
17211033 15.24523
17211043 146.1149
17211066 24.26379

Total number of rows: 41345

Table truncated, full table size 722 Kbytes.




Supplementary file Size Download File type/resource
GSM1179415_Top1_shRNA_1.CEL.gz 4.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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