Abstract
To increase our current understanding of cellular processes, such as cell signaling and division, knowledge is needed about the spatial and temporal organization of the proteome at different organizational levels. These levels cover a wide range of length and time scales: from the at...
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PMID: 21094684
PDF is available here.
Abstract
We provide a proof of principle for such an approach. Using a set of protein complexes representing known interactors in their unbound form, we show that a standard docking program can distinguish the true interactors from a background of 922 non-redundant potential interactors. We additionally show...
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PMID: 21326236
PDF is available here.
Abstract
The biosyntheses of oligosaccharides and glycoconjugates are conducted by glycosyltransferases. These extraordinarily diverse and widespread enzymes catalyze the formation of glycosidic bonds through the transfer of a monosaccharide from a donor molecule to an acceptor molecule, with the stereochemi...
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PMID: 21301100
PDF is available here.
Abstract
We performed the first high-throughput and comprehensive proteomic profiling of the rat hippocampal proteome. Using a combination of 2-D LC-MS and data analysis with the Rosetta Elucidator(®) system, we identified 1340 unique proteins. Functional classification showed that most of these were associ...
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PMID: 21268280
PDF is available here.
Abstract
We have shown previously that the scaffold protein MEK1 partner (MP1) is localized to late endosomes by the adaptor protein p14. Using conditional gene disruption of p14 in livers of mice (p14(Δhep) ) we analyzed protein and transcript signatures in tissue samples. Further biological network analys...
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PMID: 21268275
PDF is available here.
Abstract
The ability to sequence DNA rapidly, inexpensively and in a high-throughput fashion provides a unique opportunity to sequence whole genomes of a large number of species. The cataloging of protein-coding genes from these species, however, remains a non-trivial task with the majority o...
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PMID: 21246734
PDF is available here.
Abstract
We review several emerging targeted technologies to chart both N-terminal acetylation as well as acetylation at the lysine side chain, on a proteome-wide scale, highlighting in particular studies that have expanded the biological knowledge on the appearance and function of these common but functiona...
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PMID: 21246731
PDF is available here.
Abstract
Within a mammalian organism, the interaction among cells both at short and long distances is mediated by soluble factors released by cells into the extracellular environment. The secreted proteins may involve extracellular matrix proteins, proteinases, growth factors, protein hormone...
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PMID: 21241017
PDF is available here.
Abstract
The identification, quantitation and global characterisation of all proteins within a given proteome are extremely challenging. This is due to the absolute detection limits of technology as well as the dynamic range in expression of proteins; and the extreme diversity and heterogenei...
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PMID: 21241016
PDF is available here.
Abstract
Two enzymatic methods commonly used in N-terminal sequence analysis of blocked proteins are presented: one uses pyroglutamate aminopeptidase for N(α)-pyrrolidone carboxyl-proteins in solution or blotted onto a membrane, and the other uses acylaminoacyl-peptide hydrolase for N(α)-ac...
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PMID: 21400688
PDF is available here.
Abstract
Spinosad bait is used to control western cherry fruit fly, Rhagoletis indifferens Curran (Diptera: Tephritidae), by killing flies before they oviposit. However, effects of different insecticide baits on management of reproductively mature flies are largely unknown. Objectives here were to determine m...
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PMID: 21404858
PDF is available here.
Abstract
We now show that AKT inhibition induces the expression and phosphorylation of multiple receptor tyrosine kinases (RTKs). In a wide spectrum of tumor types, inhibition of AKT induces a conserved set of RTKs, including HER3, IGF-1R, and insulin receptor. This is in part due to mTORC1 inhibition and in...
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PMID: 21215704
PDF is available here.
Abstract
We introduce several PRNP gene mutations (such as, PrP-KDEL, PrP-3AV, PrP-A117V, PrP-G114V, PrP-P102L and PrP-E200K) into the cultured cells in order to explore the pathogenic mechanism of familial prion disease....
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PMID: 21298055
PDF is available here.
Abstract
The hexosamine biosynthesis pathway (HBP) flux and protein O-linked N-acetyl-glucosamine (O-GlcNAc) levels have been implicated in mediating the adverse effects of diabetes in the cardiovascular system. Activation of these pathways with glucosamine has been shown to mimic some of the...
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PMID: 21494549
PDF is available here.
Abstract
We describe a workflow for proteomic semi-quantitative expression profiling of liver from rats treated with a known hepatotoxicant using a multiplexed isobaric labeling strategy and multi-dimensional liquid chromatography....
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PMID: 20972766
PDF is available here.
Abstract
In recent years, several global omics technologies have been increasingly used to better understand the molecular mechanisms of drug toxicity. Two-dimensional difference gel electrophoresis (2D-DIGE) is a large-scale proteomics high-resolution gel-based quantitative method widely used to detect prot...
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PMID: 20972754
PDF is available here.
Abstract
Xenobiotics, including therapeutic agents, can produce a variety of beneficial, as well as adverse, effects in mammals. One potential source of drug-mediated toxicity stems from metabolic activation of the parent compound, typically catalyzed by one or more members of the cytochrome P450 family of e...
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PMID: 20972760
PDF is available here.
Abstract
We have utilized a model protein, cytochrome c, to guide us in identifying 1,4-BQ- and 1,4-BQ-thioether derived site-specific protein modifications. LC-MS/MS analyses reveals that these modifications occur selectively on lysine and glutamic acid residues of the target protein, and that these modific...
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PMID: 20972762
PDF is available here.
Abstract
We have used cytochrome c and model peptides to view adduction profiles of quinone-thioether metabolites, and have determined by MALDI-TOF analysis that these electrophiles target specific residues within these model systems....
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PMID: 20972761
PDF is available here.
Abstract
The isolation of a given protein, free of all other biomolecules, is the primary objective of any protein purification scheme. Classical chromatographic procedures have been designed to exploit particular distinguishing features of individual target proteins, such as size, physico-chemical propertie...
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PMID: 20978957
PDF is available here.
Abstract
Fast protein liquid chromatography (FPLC) is a form of high-performance chromatography that takes advantage of high resolution made possible by small-diameter stationary phases. It was originally developed for proteins and features high loading capacity, biocompatible aqueous buffer systems, fast fl...
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PMID: 20978981
PDF is available here.
Abstract
We show how UPLC/MS can be used to separate and identify intact proteins....
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PMID: 20978979
PDF is available here.
Abstract
Blood handling routines have been worked out that result in consistent protein analytic results in clinical practice. It would seem reasonable to build on this experience when devising handling routines for new protein biomarker discovery. Consequently, normal blood sample handling precautions apply...
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PMID: 20949401
PDF is available here.