Data has been deposited in GEO database, accession numbers Proteins were isolated from three replicates from 107 CD30hi and CD30lo cells using differ ential detergent fractionation, trypsin digested and analyzed by 2D LC ESI MS MS using a LCQ Deca XP Plus as glucose metabolism described. The experimental mass spectra and tandem mass spectra were searched, against an in silico Inhibitors,Modulators,Libraries trypsin digested non redundant pro tein database which included all annotated chicken and MDV proteins, with search criteria as described. Pep tide identification used decoy database searching and only peptides identified with p 0. 05 were used for fur ther analysis, the differentially expressed proteins were then identified at p 0. 05 as described. Data has been deposited in PRIDE database accession numbers 14847 14852.

We searched the mass spectra for evi dence phosphorylation of the conserved canonical resi dues regulating proteasome mediated degradation and destabilization of inhibitor of nu clear factor kappa B kinase and IKK B exactly as for non modified peptides except that we searched expli citly for an additional 80 Da Inhibitors,Modulators,Libraries added to unphosphorylated amino acids and calculated probabilities for phosphopeptides using decoy database searching, the de gree of phosphorylation, as described. Co immmunoprecipitation of Meq interacting proteins Meq interacting proteins were identified by chromatin immunoprecipitation assays with polyclonal anti Meq antibody. MSB 1 cells were grown in Leibowitzs L 15 and McCoy 5A media supplemented with fetal bovine serum, penicillin at 37 C.

Cells were cross linked with formaldehyde, which was added directly to the culture medium. The culture medium was removed and washed twice with ice cold phosphate buffer saline containing protease inhibitor cocktail. ChIP was done using the Chromatin Immunoprecipitation Assay kit exactly following manufacturers Inhibitors,Modulators,Libraries recommendations. Immunoprecipitation was performed with anti Meq polyclonal antibody, incubated overnight at 4 C. The DNA Meq antibody complexes were purified using Protein A agarose salmon sperm DNA beads. The purified complex sample was reverse cross linked separating the DNA from Meq and its interacting Inhibitors,Modulators,Libraries proteins. Proteins that were co immunoprecipitated with Meq were analyzed and identi fied by 2D LC ESI MS MS as described above. Plasmid construction The CD30 promoters of six different chicken lines were amplified by PCR with Pfu poly merase and primers CD30 F and CD30 R. The amplified promoters were ligated into pCRW2. 1 TOPOW producing pCRW2. 1 CD30 plasmids. The cytomegalovirus promoter in the pd2EGFP Inhibitors,Modulators,Libraries N1 plasmid was removed by digestion with XhoI and VspI, linear DNA was blunt sellekchem ended by T4 DNA polymerase and then self ligated pro ducing pd2EGFPCMV. CD30 promoters were released from the pCRW2.