10.05.2013 | K. W. Hallgren; D. Zhang; M. Kinter; B. Willard; K. L. Berkner, Journal of Proteome Research, 2013

γ-Carboxylated Glu (Gla) is a post-translational modification required for the activity of vitamin K-dependent (VKD) proteins that has been difficult to study by mass spectrometry due to the properties of this negatively charged residue. Gla is generated by a single enzyme, the γ-glutamyl ...

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10.05.2013 | Ying Zhao; Junfang Wu; Jia V. Li; Ning-Yi Zhou; Huiru Tang; Yulan Wang, Journal of Proteome Research, 2013

The gut microbiome is known to be extensively involved in human health and disease. In order to reveal the metabolic relationship between host and microbiome, we monitored recovery of the gut microbiota composition and fecal profiles of mice after gentamicin and/or ceftriaxone treatments. ...

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10.05.2013 | Narciso Couto; Naglis Malys; Simon J. Gaskell; Jill Barber, Journal of Proteome Research, 2013

Glutathione reductase (Glr1) is a low abundance protein involved in defense mechanisms against reactive oxygen species. Expressed on cytosolic ribosomes, the same gene, GLR1, uses alternative start codons to generate two forms of Glr1. Translation from the first AUG codon generates the ...

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09.05.2013 | Siwei Tang; Chen Bai; Pengyuan Yang; Xian Chen, Journal of Proteome Research, 2013

Major vault protein (MVP) is the predominant constituent of the vault particle, the largest known ribonuclear protein complex. Although emerging evidence have been establishing the links between MVP (vault) and multidrug resistance (MDR), little is known regarding exactly how the MDR activity ...

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09.05.2013 | Sílvia O. Diaz; António S. Barros; Brian J. Goodfellow; Iola F. Duarte; Eulália Galhano; Cristina Pita; Maria do Céu ..., Journal of Proteome Research, 2013

Given the recognized lack of prenatal clinical methods for the early diagnosis of preterm delivery, intrauterine growth restriction, preeclampsia and gestational diabetes mellitus, and the continuing need for optimized diagnosis methods for specific chromosomal disorders (e.g., trisomy 21) ...

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08.05.2013 | Natalja P. Nørskov; Mette Skou Hedemann; Helle Nygaard Lærke; Knud Erik Bach Knudsen, Journal of Proteome Research, 2013

A multicompartmental nontargeted LC–MS metabolomics approach was used to study the metabolic responses on plasma and urine of hypercholesterolemic pigs after consumption of diets with contrasting dietary fiber composition (whole grain rye with added rye bran versus refined wheat). To study ...

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08.05.2013 | Evgeny Kanshin; Stephen W. Michnick; Pierre Thibault, Journal of Proteome Research, 2013

Phosphorylation is a reversible protein modification that regulates major cellular processes such as cell division, growth, and differentiation through highly dynamic and complex signaling pathways. Large-scale phosphoproteomics analyses have been greatly facilitated using affinity ...

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06.05.2013 | Brian A. Risk; Wendy J. Spitzer; Morgan C. Giddings, Journal of Proteome Research, 2013

Proteogenomic searching is a useful method for identifying novel proteins, annotating genes and detecting peptides unique to an individual genome. The approach, however, can be laborious, as it often requires search segmentation and the use of several unintegrated tools. Furthermore, many ...

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06.05.2013 | Stefan Tenzer; Albertomaria Moro; Jörg Kuharev; Ashwanth Christopher Francis; Laura Vidalino; Alessandro Provenzani; ..., Journal of Proteome Research, 2013

RALY is a member of the heterogeneous nuclear ribonucleoproteins, a family of RNA-binding proteins generally involved in many processes of mRNA metabolism. No quantitative proteomic analysis of RALY-containing ribonucleoparticles (RNPs) has been performed so far, and the biological role of ...

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06.05.2013 | Nadin Neuhauser; Nagarjuna Nagaraj; Peter McHardy; Sara Zanivan; Richard Scheltema; Jürgen Cox; Matthias Mann, Journal of Proteome Research, 2013

Computational analysis of shotgun proteomics data can now be performed in a completely automated and statistically rigorous way, as exemplified by the freely available MaxQuant environment. The sophisticated algorithms involved and the sheer amount of data translate into very high ...

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