{"database":"ENA","file_versions":[],"scores":null,"additional":{"omics_type":["Genomics"],"center_name":["Alliance for Cellular Signaling Molecular Biology Laboratory, Biology, California Institute of Technology"],"full_dataset_link":["https://www.ebi.ac.uk/ena/browser/view/PRJNA106481"],"scientific_name":["Mus musculus"],"tag":["xref:PubMed:23166526"],"long_description":["RAW 264.7 cells were stimulated with KDO (100 ng/ml), IFN-β (300 pM) and/or 8-Br 100 μM. These ligands were applied individually or in combination with KDO for 60 min and 120 min. Total RNA was extracted using TriPure (Roche) following its protocol. Keywords: designed Overall design: RAW 264.7 cells were stimulated with KDO (100 ng/ml), IFN-β (300 pM) and/or 8-Br 100 μM. These ligands were applied individually or in combination with KDO for 60 min and 120 min. Total RNA was extracted using TriPure (Roche) following its protocol. The detailed procedure is available at http://www.signaling-gateway.org/data/ProtocolLinks.html (AfCS Procedure Protocol PP00000009). Duplicate experiments were done for each treatment. Oligonucleotide array fabrication and annotation 16 K mouse oligonucleotide arrays were fabricated with 15,631 oligomers of 65-bp or 70-bp long. The oligomers were purchased from Operon and Sigma-Genosys and were inkjet-printed onto glass slides by Agilent Technologies. The list of genes is available through the GEO (Gene Expression Omnibus - http://www.ncbi.nlm.nih.gov/geo) as an accession number GPL254. Gene expression analysis The hybridization experiment and analysis were performed as previously described (Park et al., 2004 Zhu et al., 2006 Zhu et al., 2004). Cy5-labeled cRNA (RNA of ligand treated cells) and Cy3-labeled cRNA (RNA of time matched controls) were hybridized in the array. Dye-swap labeling was performed for each pair of samples. The arrays were scanned with Agilent Scanner G2505A (Agilent Technologies) and image files were extracted with background subtraction and dye-normalization using Agilent G2566AA Extraction Software version A.6.1.1 (Agilent Technologies)."],"repository":["ENA"],"description_synonyms":["beta-tubulin56D, Spec-beta, Dmbeta1, BETA 56D, e(-), Tubulin, DELTA AND GAMMA, IFNA@, electron, betaTub1, i168, Cell, IFNA13, B1t, l(1)G0108, B-spec, betaspec, betaSpec, beta1-Tubulin., FLOWERING TIME CONTROL PROTEIN FCA ALPHA, b-Spec, beta-tub, DmelCG5870, l(1)G0074, betatub(56D), l(1)G0198, Beta <eudicots>, kus, beta1tub, negatron, IFN-alphaD, CG9277, beta[[1]]-tubulin, IFL, Elektron, IFN, beta[[1]] tubulin, beta1t, b spectrin, T, beta-particle, FCAALL.331, beta1, beta56D, DmelCG9277, beta, beta1-tub, beta(-), DTB2, Tub, anon-EST:fe1B3, 1t, beta-Tub, e, e-, beta1Tub, beta-spec, SPEC8, i6, DL4180C, BETA, CG5870, beta-Tub56D, Spec, betaTub, Specbeta, IFN-ALPHA"],"name_synonyms":["Mus musculus, Laboratory Mice., House, Mus, Laboratory, Swiss, Mus domesticus, mouse, Mus musculus domesticus, Swiss Mouse, mouse <Mus musculus>, Mouse, House Mice, Swiss Mice, house mouse, Mice, Laboratory Mouse, House Mouse, mice C57BL/6xCBA/CaJ hybrid, domesticus, Mus muscaris"],"additional_accession":[]},"is_claimable":false,"name":"Mus musculus","description":"RAW264.7 cells were treated with KDO, IFN beta and 8Br","dates":{"last_updated":"2025-09-24","first_public":"2014-02-11"},"accession":"PRJNA106481","cross_references":{"GEO":["GSE11449"],"taxon":["10090"],"PubMed":["23166526"]}}