characteristics.text: ERC000011
characteristics.characteristic: ENA-CHECKLIST
characteristics.text: 2014-06-24T17:01:42Z
characteristics.characteristic: ENA-FIRST-PUBLIC
characteristics.text: 2018-03-08T17:09:41Z
characteristics.characteristic: ENA-LAST-UPDATE
characteristics.text: SAMEA2342641
characteristics.characteristic: External Id
characteristics.text: University of Manchester
characteristics.characteristic: INSDC center name
characteristics.text: 2014-06-24T17:01:42Z
characteristics.characteristic: INSDC first public
characteristics.text: 2018-03-08T17:09:41Z
characteristics.characteristic: INSDC last update
characteristics.text: public
characteristics.characteristic: INSDC status
characteristics.text: ERS400331
characteristics.characteristic: SRA accession
characteristics.text: E-MTAB-2283:SHY3_12hr_rep1
characteristics.characteristic: Submitter Id
characteristics.text: ArrayExpress
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_0009737
characteristics.characteristic: broker name
characteristics.text: Rex1GFPd2
characteristics.characteristic: cell line
characteristics.text: embryonic stem cell
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/CL_0002322
characteristics.characteristic: cell type
characteristics.text: house mouse
characteristics.characteristic: common name
characteristics.text: Protocols: Rex1GFPd2 mouse ES cells were maintained in NDiff N2B27 media in the presence of CHIR99021 and PD0325901 as described in Yang et al., 2012. For time series of differentiation, the media containing inhibitor was removed and replaced with NDiff N2B27 media as time indicated. ES cells were cross-linked as described in Lee et al., 2006. Yang SH, Kalkan T, Morrisroe C, Smith A, Sharrocks AD. (2012) PLoS Genet. 2012;8(12):e1003112. A genome-wide RNAi screen reveals MAP kinase phosphatases as key ERK pathway regulators during embryonic stem cell differentiation. Lee TI, Johnstone SE, Young RA. (2006) Nat Protoc. 1(2):729-48. Chromatin immunoprecipitation and microarray-based analysis of protein location. FAIRE-seq was performed as described in Simon et al., 2012, with the following modifications. The crosslinked material was sheared by water bath sonication using bio-rupter for 17 mins, at high level, 30 secs on/ 30 secs off, 4 C. The size of sheared DNA fragments was between 100 bp to 300 bp, with median size around 200 bp. Simon JM, Giresi PG, Davis IJ, Lieb JD. (2012) Nat Protoc. 7(2):256-67. Using formaldehyde-assisted isolation of regulatory elements (FAIRE) to isolate active regulatory DNA.
characteristics.characteristic: description
characteristics.text: Mus musculus
characteristics.characteristic: organism
characteristics.text: Mus musculus
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/NCBITaxon_10090
characteristics.characteristic: organism
characteristics.text: Mus musculus
characteristics.characteristic: scientific_name
characteristics.text: male
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/PATO_0000384
characteristics.characteristic: sex
characteristics.text: SHY3_12hr_rep1
characteristics.characteristic: title