NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM3242916 Query DataSets for GSM3242916
Status Public on Jul 23, 2024
Title EG_2is_4
Sample type RNA
 
Source name Embryonic germ cells, 2i
Organism Mus musculus
Characteristics Sex: Female
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 5.531733564
100009600_at 5.229706846
100009609_at 3.439977209
100009614_at 5.480617118
100012_at 3.931832725
100017_at 8.827649139
100019_at 9.805651878
100033459_at 3.939110104
100034251_at 3.953149176
100034748_at 5.605001465
100036520_at 5.721710385
100036521_at 5.341638614
100036523_at 6.036880325
100036537_at 4.568124494
100036768_at 4.564114935
100037258_at 9.561897285
100037260_at 6.203645761
100037262_at 5.824552587
100037278_at 7.372767708
100037396_at 4.835526503

Total number of rows: 21187

Table truncated, full table size 442 Kbytes.




Supplementary file Size Download File type/resource
GSM3242916_NML2010052702.CEL.gz 4.0 Mb (ftp)(http) CEL
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap