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Sample GSM3242911 Query DataSets for GSM3242911
Status Public on Jul 23, 2024
Title EG_FCS_2
Sample type RNA
 
Source name Embryonic germ cells, FCS
Organism Mus musculus
Characteristics Sex: Male
batch: 1
Growth protocol Serum culture conditions contain 15% FCS, 0.1 mM MEM nonessential amino acids, 2 mM l-glutamine, 1 mM sodium pyruvate, 0.1 mM 2-mercaptoethanol and 1000 U/mL LIF in DMEM-F12 with maintenance on a mouse embryonic fibroblast (MEF) feeder layer. 2i culture conditions contain 1 μM PD0325901, 3 μM CHIR99021 and 1000 U/mL LIF in N2B27 medium, maintained on laminin (10 μg/ml). Cells were incubated at 5% CO2, 95% relative humidity.
Extracted molecule total RNA
Extraction protocol RNA (100 ng) was isolated using the Qiagen RNeasy Mini kit.
Label Biotin
Label protocol 100 ng of total RNA was processed using the Ambion WT Expression kit and Affymetrix GeneChip WT Terminal Labelling and Hybridisation kit.
 
Hybridization protocol 100 ng of total RNA was processed using the Ambion WT Expression kit and Affymetrix GeneChip WT Terminal Labelling and Hybridisation kit.
Scan protocol The GeneChip scanner was used to scan all micorarrays.
Data processing Data was preprocessed in R using robust multiarray averaging, variance stabilising transformation and Combat batch correction.
 
Submission date Jul 03, 2018
Last update date Jul 23, 2024
Contact name Kirsten R McEwen
E-mail(s) kirsten.mcewen@imperial.ac.uk
Organization name Imperial College London
Department MRC Clinical Sciences Centre
Lab Reprogramming and Chromatin
Street address Du Cane Road
City London
ZIP/Postal code W12 0NN
Country United Kingdom
 
Platform ID GPL17777
Series (1)
GSE116565 Signalling pathways drive heterogeneity of ground state pluripotency

Data table header descriptions
ID_REF
VALUE glog2 RMA vsn signal

Data table
ID_REF VALUE
100008567_at 5.697143887
100009600_at 5.688477305
100009609_at 3.737715506
100009614_at 5.92421261
100012_at 4.030827883
100017_at 8.542071263
100019_at 10.25386247
100033459_at 3.534333885
100034251_at 3.467358504
100034748_at 5.787784171
100036520_at 5.576750556
100036521_at 4.076976341
100036523_at 6.043946708
100036537_at 4.68024586
100036768_at 4.461347088
100037258_at 9.010062938
100037260_at 6.367933187
100037262_at 5.97183113
100037278_at 7.079377911
100037396_at 5.475968333

Total number of rows: 21187

Table truncated, full table size 442 Kbytes.




Supplementary file Size Download File type/resource
GSM3242911_NML2010052605.CEL.gz 3.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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