characteristics.text: ERC000011
characteristics.characteristic: ENA-CHECKLIST
characteristics.text: 2013-12-12T17:01:17Z
characteristics.characteristic: ENA-FIRST-PUBLIC
characteristics.text: 2018-03-08T16:41:37Z
characteristics.characteristic: ENA-LAST-UPDATE
characteristics.text: SAMEA2177596
characteristics.characteristic: External Id
characteristics.text: Cancer Research UK Cambridge Institute
characteristics.characteristic: INSDC center name
characteristics.text: 2013-12-12T17:01:17Z
characteristics.characteristic: INSDC first public
characteristics.text: 2018-03-08T16:41:37Z
characteristics.characteristic: INSDC last update
characteristics.text: public
characteristics.characteristic: INSDC status
characteristics.text: ERS345690
characteristics.characteristic: SRA accession
characteristics.text: E-MTAB-1827:0SQ40
characteristics.characteristic: Submitter Id
characteristics.text: ArrayExpress
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_0009737
characteristics.characteristic: broker name
characteristics.text: hepatocyte
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/CL_0000182
characteristics.characteristic: cell type
characteristics.text: house mouse
characteristics.characteristic: common name
characteristics.text: Protocols: The liver material was isolated from three adult (three month) C57/BL6 males obtained from Charles River UK. The investigation was approved by the ethics committee and followed the Cambridge Institute guidelines for the use of animals in experimental studies under home office license PPL80/2197. All tissues were treated post mortem with 1% formaldehyde as previously described (Schmidt et al., Methods 48(3) July 2009 doi:10.1016/j.ymeth.2009.03.001). The ChIP assays were performed as previously described (Schmidt et al., 2009). Protein-bound DNA was immunoprecipitated with antibodies against COT2/COUP-TFII (R&D Systems, PP-H7147-00), FoxA1 (Abcam, ab5089), ER (Santa-Cruz, sc-543), FoxA2 (Santa-Cruz, sc-6554) and P300 (Santa-Cruz, sc-585). For the ChIP-exo library preparation, the immunoprecipitated chromatin was end-repaired, ligated to the TruSeq P7 exo-adapter, nick repaired, digested with the lambda and the RecJf exonucleases. The digested DNA was extracted, second-strand synthesised with the P7 primer, ligated to the TruSeq P5 exo-adapter and finally amplified with 18 PCR cycles. A 2% agarose gel was used to select 200-300 bp DNA fragments.
characteristics.characteristic: description
characteristics.text: 0SQ40
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_0002861
characteristics.characteristic: individual
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: liver
characteristics.characteristic: organism part
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: fresh specimen
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/OBI_0000971
characteristics.characteristic: specimen with known storage state
characteristics.text: C57/BL6
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_0004472
characteristics.characteristic: strain
characteristics.text: 0SQ40
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_0002861
characteristics.characteristic: title