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Status
Public on Jul 18, 2019
Title
CCS 1062
Sample type
RNA
Source name
surgically resected human sarcoma sample
Organism
Homo sapiens
Characteristics
tissue: surgically resected human sarcoma sample
Treatment protocol
Dox ON samples were treated with Dox (0.2µg/ml) containing medium for indicated hours.
Growth protocol
G1297; DMEM+10%FBS, PS/MEF; DMEM+10%FBS, PS, NEAA, L-Glu, 2-ME/iPSCs; Knockout DMEM+15%FBS, PS, NEAA, L-Glu, 2-ME, LIF
Extracted molecule
total RNA
Extraction protocol
RNeasy Plus Mini kit
Label
Biotin
Label protocol
Samples were enzymatically fragmented and biotinylated using the WT Terminal Labeling Kit (Affymetrix)
Hybridization protocol
Samples were hybridized using Affymetrix hybridization kit materials • Heat cocktails at 99℃ for 5 minutes, then 45℃ for 5 minutes centrifuge at max speed for 1 minute (N.B. this deviates from Affy SOP). • Transfer 80μl of hyb solution to each array, then tape holes and parafilm. • Hybridize 17 hours at 45° at 60rpm• Fluidics washing is FS450_0007
Scan protocol
Affymetrix Gene ChIP Scanner 3000 TG
Data processing
Data were processed using Genespring software.
Submission date
Jan 25, 2016
Last update date
Jul 18, 2019
Contact name
Yasuhiro Yamada
E-mail(s)
yyamada@m.u-tokyo.ac.jp
Organization name
University of Tokyo
Department
Department of Molecular Pathology
Street address
7-3-1 Hongo, Bunkyo-ku
City
Tokyo
ZIP/Postal code
113-0033
Country
Japan
Platform ID
GPL6244
Series (2)
GSE77203
Cell-type dependent enhancer binding of the EWS/ATF1 fusion gene in clear cell sarcomas
GSE77205
Cell-type dependent enhancer binding of the EWS/ATF1 fusion gene in clear cell sarcomas
Data table header descriptions
ID_REF
VALUE
Quantile normalized gene level expression values from Genespring GX
Data table
ID_REF
VALUE
7896736
119.030235
7896738
23.051529
7896740
23.396343
7896742
523.7257
7896744
91.78885
7896746
902.68176
7896748
56.671703
7896750
26.35849
7896752
293.43976
7896754
158.27466
7896756
128.59525
7896759
128.14188
7896761
121.140076
7896779
142.14232
7896798
167.99905
7896817
112.70257
7896822
217.8454
7896859
63.760292
7896861
24.67197
7896863
71.51796
Total number of rows: 28869 Table truncated, full table size 497 Kbytes .Supplementary file
Size
Download
File type/resource
GSM2045991_CCS_1062_HuGene-1_0-st-v1_.CEL.gz
4.1 Mb
(ftp) (http)
CEL
Processed data included within Sample table