GEO help: Mouse over screen elements for information.
Status
Public on Jul 18, 2019
Title
CCS 935
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
429.92398
7896738
71.76904
7896740
106.73563
7896742
205.99725
7896744
926.37585
7896746
1653.68
7896748
1294.5471
7896750
30.648415
7896752
817.3199
7896754
166.12566
7896756
121.925446
7896759
182.64832
7896761
132.64415
7896779
140.7425
7896798
181.6297
7896817
135.31464
7896822
174.16248
7896859
57.37481
7896861
31.137547
7896863
81.1606
28869 497 Kbytes .Supplementary file Size Download File type/resource GSM2045989_CCS_935_HuGene-1_0-st-v1_.CEL.gz
3.7 Mb
(ftp) (http) CEL
Processed data included within Sample table
