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Sample GSM1315590 Query DataSets for GSM1315590
Status Public on Sep 29, 2014
Title WT5E
Sample type RNA
 
Source name wild type MEF 5, 3h EtOH
Organism Mus musculus
Characteristics cell type: primary mouse embryonic fibroblast (e14.5)
strain: C57Bl/6 x 129Sv (F1)
Treatment protocol 10ul of 100mM 2',2'-dipyridyl or ethanol vehicle was added to each plate and plates were returned to normoxia 5% CO2 incubator for 3hrs. Medium was then removed from the plates and Trizol reagent was added directly to plate.
Growth protocol 10 cm dishes of each p4 wild type and CBP/p300 compound homozygous conditional MEF were plated at 1x10^6 cells/dish in 20ml DMEM+10%FBS containing Cre recombinase expressing adenovirus at an MOI of 100 and grown in a 3% O2 5%CO2 incubator. Medium was changed 16hrs later for 10ml DMEM + 10%FBS and MEFs were grown for 48hrs in 3% O2 5%CO2 incubator. MEFs were transferred to a normoxia 5% CO2 incubator and grown for 24hrs.
Extracted molecule total RNA
Extraction protocol RNA was isolated using the standard Trizol instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix 3’IVT Express protocol starting with 100 ng of total RNA (GeneChip 3’ IVT Express Kit 702646 Rev. 8, 2008-2010, Affymetrix)
 
Hybridization protocol Following fragmentation, 5 microgram of cRNA was hybridized for 16 hr at 45C on each array. GeneChips were washed and stained in the Affymetrix GeneTitan system.
Scan protocol GeneChips were scanned using the Affymetrix GeneTitan system.
Data processing Probe signals were quantile normalized and summarized by the RMA algorithm using the Affymetrix Expression Console Software v1.1
 
Submission date Jan 28, 2014
Last update date Sep 30, 2014
Contact name Suzanne J Baker
E-mail(s) suzanne.baker@stjude.org
Organization name St Jude Children's Research Hospital
Department Developmental Neurobiology
Street address 262 Danny Thomas Place
City Memphis
State/province TN
ZIP/Postal code 38105
Country USA
 
Platform ID GPL11180
Series (2)
GSE54452 Expression data from wild type and CBP/p300 null MEFs +/- 3hr treatment with 100uM dipyridyl (DP)
GSE54454 Genome-wide and single-cell analyses reveal target gene context-dependent relationship between Crebbp recruitment and both constitutive and signal-responsive gene expression.

Data table header descriptions
ID_REF
VALUE Values represent log2(Signal) as summarized using RMA

Data table
ID_REF VALUE
1415670_PM_at 10.1601
1415671_PM_at 11.00189
1415672_PM_at 10.52246
1415673_PM_at 9.426949
1415674_PM_a_at 10.0936
1415675_PM_at 8.882504
1415676_PM_a_at 10.88325
1415677_PM_at 8.88573
1415678_PM_at 9.397543
1415679_PM_at 10.63629
1415680_PM_at 9.084503
1415681_PM_at 9.947412
1415682_PM_at 7.519853
1415683_PM_at 11.07871
1415684_PM_at 7.420171
1415685_PM_at 6.456171
1415686_PM_at 8.618458
1415687_PM_a_at 10.97989
1415688_PM_at 9.627541
1415689_PM_s_at 8.049798

Total number of rows: 45141

Table truncated, full table size 1027 Kbytes.




Supplementary file Size Download File type/resource
GSM1315590_lhk274-htmg430pm.CEL.gz 2.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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