characteristics.text: ERC000011
characteristics.characteristic: ENA-CHECKLIST
characteristics.text: 2018-01-15T17:04:14Z
characteristics.characteristic: ENA-FIRST-PUBLIC
characteristics.text: 2017-09-06T12:55:01Z
characteristics.characteristic: ENA-LAST-UPDATE
characteristics.text: SAMEA104284489
characteristics.characteristic: External Id
characteristics.text: The University of Texas at Dallas
characteristics.characteristic: INSDC center name
characteristics.text: 2018-01-15T17:04:14Z
characteristics.characteristic: INSDC first public
characteristics.text: 2017-09-06T12:55:01Z
characteristics.characteristic: INSDC last update
characteristics.text: public
characteristics.characteristic: INSDC status
characteristics.text: ERS1909467
characteristics.characteristic: SRA accession
characteristics.text: E-MTAB-6050:INPUT_GM0h
characteristics.characteristic: Submitter Id
characteristics.text: ArrayExpress
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_0009737
characteristics.characteristic: broker name
characteristics.text: GM12878
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_0002784
characteristics.characteristic: cell line
characteristics.text: B cell
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/CL_0000236
characteristics.characteristic: cell type
characteristics.text: human
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/NCBITaxon_9606
characteristics.characteristic: common name
characteristics.text: Protocols: GM12878 cell line was obtained from Coriell Biorepository and maintained as recommended by the supplier. Cells were infected with Sendai Virus Cantell Strain (ATCC VR-907) from Charles River Laboratories was used. We infected cells at 3000 HA units per 1 million cells (or at ~1x10e8 EID50). At indicated time after infection, cells were cross linked with 1% formaldehyde as described previously in Kim et al PNAS 108:7391-7396 (2011). Original reference for ChIP immunopreciptiation protocol can be found in the supplementary methods: http://www.pnas.org/content/suppl/2003/06/09/1332764100.DC1/2764SuppMaterialsandMethods.pdf ref: doi: 10.1073/pnas.1332764100 Chromatin was prepared and immunoprecipitated as previously described (Kim, Y.J., Cecchini, K.R. & Kim, T.H. Conserved, developmentally regulated mechanism couples chromosomal looping and heterochromatin barrier activity at the homeobox gene A locus. Proc Natl Acad Sci U S A 108, 7391-6 (2011)). We have used anti-Histone H3K27Ac antibody from Abcam (cat #Ab4729). ThruPLEX® DNA-seq Kit from Rubicon Genomics was used for multiplexed ChIP-seq library prep of chromatin. Indexed samples were quantitated with qPCR and mixed in equimolar amounts. Input sample was prepared with an Illumina DNA-seq kit.
characteristics.characteristic: description
characteristics.text: normal
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/PATO_0000461
characteristics.characteristic: disease
characteristics.text: Sendai virus cantell strain (ATCC VR-907)
characteristics.characteristic: infect
characteristics.text: Homo sapiens
characteristics.characteristic: organism
characteristics.text: Homo sapiens
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/NCBITaxon_9606
characteristics.characteristic: organism
characteristics.text: blood
characteristics.characteristic: organism part
characteristics.text: Homo sapiens
characteristics.characteristic: scientific_name
characteristics.text: INPUT_GM0h
characteristics.characteristic: title