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Sample GSM1562231 Query DataSets for GSM1562231
Status Public on Jul 01, 2015
Title DMSO treated EB, replicate 1
Sample type RNA
 
Source name DMSO treated EB
Organism Homo sapiens
Characteristics source cell line: BG01V
source cell type: Human ES cell line (hESC)
cell type: hESC-derived embryoid body (EB)
treated with: DMSO (control)
Treatment protocol Media changes were given every 5-7 days with the differentiation media. Compound treatment was generally given between the day 2 and day 4 of EB formation for 48 hours time point.
Growth protocol The embryoid body formation was initiated with an ES cell count of 1million cells per ml. The ES cells were resuspended in conditioned medium (Globalstem) containing 1% PVA (Sigma). This suspension was added to low attachment petri plates (Tarsons) and incubated at 37°C for 48 hours without disturbing the plates. The EBs were allowed to grow in size and were visualized at regular intervals under the light microscope. Once the clumping of cells was clearly evident, the EBs were transferred to DMEM medium (Invitrogen) supplemented with 20% KSR (Invitrogen) and 10% FBS (Biological Industries) onto 0.1% gelatin pre-coated dishes.
Extracted molecule total RNA
Extraction protocol Trizol 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 2 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 GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Data processing Gene expression microarray data was normalized using RMA method followed by median to all the samples.
 
Submission date Dec 09, 2014
Last update date Jul 01, 2015
Contact name Genotypic technology
E-mail(s) sudha.rao@genotypic.co.in
Organization name Genotypic Technology
Street address 259, Apoorva 4th cross,80 feet Road,RMV 2ND STAGE
City Bangalore
State/province Karnataka
ZIP/Postal code 560094
Country India
 
Platform ID GPL10739
Series (2)
GSE64001 Gene expression profiling of Human ES cell line (hESC) derived embryoid body (EB) treated with H3R17methylation inhibitor TBBD
GSE64274 Gene and miRNA expression profiling of Human ES cell line (hESC) derived embryoid body (EB) treated with H3R17methylation inhibitor TBBD

Data table header descriptions
ID_REF
VALUE Normalized values (log base2)

Data table
ID_REF VALUE
7911322 6.523342436
7911320 6.748376401
7911319 6.670545073
7911318 6.542221102
7911317 9.221870194
7911316 7.234953702
7911315 6.515348466
7911314 8.501308364
7911313 6.432410772
7911312 6.753111757
7911311 8.004878588
7911310 6.394328059
7911328 4.992980341
7911327 5.550484626
7911326 5.289729344
7911325 5.306571427
7911324 5.555718902
7896737 6.226260924
7896739 5.344017096
7896741 5.471213805

Total number of rows: 247312

Table truncated, full table size 4803 Kbytes.




Supplementary file Size Download File type/resource
GSM1562231_JNCASR_S1C1_2011-04-09_HuGene-1_0-st-v1_.CEL.gz 3.8 Mb (ftp)(http) CEL
Processed data included within Sample table

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