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Sample GSM1326661 Query DataSets for GSM1326661
Status Public on Oct 14, 2014
Title Setd2 wild type mESCs, biological rep2
Sample type RNA
Source name Setd2 wild type mESCs, biological rep2
Organism Mus musculus
Characteristics tissue: murine embryonic stem cells
genotype: Wild type
strain: 129SV/C57BL/6
Treatment protocol No specific treatment
Growth protocol Setd2 wt and ko mESCs were cultured on feeder cells in standard ES medium,then trypsinized ES cells were transferred on gelatin-coated cell culture dish, cultured for half an hour, then supernatant ES cells were collected and transferred to new gelatin-coated cell culture dish for 1 passage to maximumly remove feeder cells,two days later, mESCs were collected for microarray analysis.
Extracted molecule total RNA
Extraction protocol QIAGEN RNeasy Kit extraction of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix GeneChip® mouse genome 430 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000.
Description Gene expression data from Setd2 wild type mESCsbiological rep2.
Data processing The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and use Gene Spring Software 11 to normalize data. The trimmed mean target intensity of each array was set to log2.
Submission date Feb 12, 2014
Last update date Oct 14, 2014
Contact name Qiuhua Huang
Phone 0086-21-34187717
Organization name Shanghai Institute of Hematology
Street address 197 ruijin road II
City Shanghai
ZIP/Postal code 200025
Country China
Platform ID GPL1261
Series (2)
GSE54931 Comparison of gene expression pattern between Wild-type and Setd2 knockout mESCs [Affymetrix]
GSE54933 Gene expression pattern between Wild-type and Setd2 knockout mESCs

Data table header descriptions
VALUE Log2(signal intensity)

Data table
1415670_at 10.619799
1415671_at 11.978105
1415672_at 12.906941
1415673_at 11.828402
1415674_a_at 11.54327
1415675_at 10.295038
1415676_a_at 13.146886
1415677_at 9.270288
1415678_at 11.525239
1415679_at 11.794291
1415680_at 10.87506
1415681_at 11.611795
1415682_at 10.149998
1415683_at 12.819838
1415684_at 9.587373
1415685_at 10.803341
1415686_at 9.779504
1415687_a_at 10.464089
1415688_at 12.133298
1415689_s_at 9.080493

Total number of rows: 45037

Table truncated, full table size 917 Kbytes.

Supplementary file Size Download File type/resource
GSM1326661_Setd2.wt.2_Mouse430_2_.CEL.gz 3.3 Mb (ftp)(http) CEL
Processed data included within Sample table

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