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dc.contributor.authorSlade, Peter G.
dc.contributor.authorWilliams, Michelle V.
dc.contributor.authorChiang, Alison
dc.contributor.authorIffrig, Elizabeth
dc.contributor.authorTannenbaum, Steven Robert
dc.contributor.authorWishnok, John S.
dc.date.accessioned2012-02-10T16:20:54Z
dc.date.available2012-02-10T16:20:54Z
dc.date.issued2011-07
dc.date.submitted2011-06
dc.identifier.issn1535-9476
dc.identifier.issn1535-9484
dc.identifier.urihttp://hdl.handle.net/1721.1/69076
dc.description.abstractDuring inflammation, the resulting oxidative stress can damage surrounding host tissue, forming protein-carbonyls. The SJL mouse is an experimental animal model used to assess in vivo toxicological responses to reactive oxygen and nitrogen species from inflammation. The goals of this study were to identify the major serum proteins modified with a carbonyl functionality and to identify the types of carbonyl adducts. To select for carbonyl-modified proteins, serum proteins were reacted with an aldehyde reactive probe that biotinylated the carbonyl modification. Modified proteins were enriched by avidin affinity and identified by two-dimensional liquid chromatography tandem MS. To identify the carbonyl modification, tryptic peptides from serum proteins were subjected to avidin affinity and the enriched modified peptides were analyzed by liquid chromatography tandem MS. It was noted that the aldehyde reactive probe tag created tag-specific fragment ions and neutral losses, and these extra features in the mass spectra inhibited identification of the modified peptides by database searching. To enhance the identification of carbonyl-modified peptides, a program was written that used the tag-specific fragment ions as a fingerprint (in silico filter program) and filtered the mass spectrometry data to highlight only modified peptides. A de novo-like database search algorithm was written (biotin peptide identification program) to identify the carbonyl-modified peptides. Although written specifically for our experiments, this software can be adapted to other modification and enrichment systems. Using these routines, a number of lipid peroxidation-derived protein carbonyls and direct side-chain oxidation proteins carbonyls were identified in SJL mouse serum.en_US
dc.description.sponsorshipNational Institutes of Health (U.S.) (NCI Program Project Grant CA26731)en_US
dc.description.sponsorshipMassachusetts Institute of Technology. Center for Environmental Health Sciences (NIEHS grant P30 ES002109)en_US
dc.language.isoen_US
dc.publisherAmerican Society for Biochemistry and Molecular Biologyen_US
dc.relation.isversionofhttp://dx.doi.org/10.1074/mcp.M111.007658en_US
dc.rightsCreative Commons Attribution-Noncommercial-Share Alike 3.0en_US
dc.rights.urihttp://creativecommons.org/licenses/by-nc-sa/3.0/en_US
dc.sourceProf. Tannenbaum via Howard Silveren_US
dc.titleA filtered database search algorithm for endogenous serum protein carbonyl modifications in a mouse model of inflammationen_US
dc.typeArticleen_US
dc.identifier.citationSlade, P. G. et al. “A Filtered Database Search Algorithm for Endogenous Serum Protein Carbonyl Modifications in a Mouse Model of Inflammation.” Molecular & Cellular Proteomics 10.10 (2011): M111.007658-M111.007658.en_US
dc.contributor.departmentMassachusetts Institute of Technology. Department of Biological Engineeringen_US
dc.contributor.departmentMassachusetts Institute of Technology. Department of Chemical Engineeringen_US
dc.contributor.approverTannenbaum, Steven Robert
dc.contributor.mitauthorTannenbaum, Steven Robert
dc.contributor.mitauthorSlade, Peter G.
dc.contributor.mitauthorWilliams, Michelle V.
dc.contributor.mitauthorChiang, Alison
dc.contributor.mitauthorIffrig, Elizabeth
dc.contributor.mitauthorWishnok, John S.
dc.relation.journalMolecular and Cellular Proteomicsen_US
dc.eprint.versionAuthor's final manuscripten_US
dc.type.urihttp://purl.org/eprint/type/JournalArticleen_US
eprint.statushttp://purl.org/eprint/status/PeerRevieweden_US
dspace.orderedauthorsSlade, P. G.; Williams, M. V.; Chiang, A.; Iffrig, E.; Tannenbaum, S. R.; Wishnok, J. S.en
dc.identifier.orcidhttps://orcid.org/0000-0002-2325-552X
mit.licenseOPEN_ACCESS_POLICYen_US
mit.metadata.statusComplete


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