Urine protein profiling with surface-enhanced laser-desorption/ionization time-of-flight mass spectrometry

Schaub, Stefan; Wilkins, John A.; Weiler, Tracey; Sangster, Kevin T.; Rush, David; Nickerson, Peter

doi:10.1111/j.1523-1755.2004.00352.x

Cited by 312 publications

(238 citation statements)

References 24 publications

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“…However, based on the known molecular weight of cystatin SN (14,312 Da for the mature chain), and the convergence with 2D results, it is most likely that the most discriminant peak corresponds to this protein. In addition, double-charged ions are occasionally generated and detected by SELDI-TOF MS [20]. The peak at m/z 7155 could therefore also correspond to the same compound that would be detected as a doublecharged ion.…”

Section: Proteome Analysismentioning

confidence: 99%

Multi-omics profiling reveals that eating difficulties developed consecutively to artificial nutrition in the neonatal period are associated to specific saliva composition

Morzel

Neyraud

Brignot

et al. 2015

Journal of Proteomics

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Prolonged enteral or parenteral nutrition in neonatal periods sometimes results in eating difficulties persisting for years, with reduced food intake through the oral route and thereby reduced stimulation of the oral cavity. Aiming at describing the consequences on oral physiology, saliva of 21 children with eating difficulties (ED) was compared to that of 23 healthy controls, using various omics and targeted methods. Overall, despite heterogeneity within the groups (age, medication etc.), the three spectral methods (MALDI-TOF, SELDI-TOF, 1 H NMR) allowed discriminating ED and controls, confirming that oral stimulation by food intake plays a role in shaping the composition of saliva. Saliva of ED patients exhibited a lower antioxidant status and lower levels of the salivary protease inhibitors cystatins. Other discriminant features (IgA1, dimethylamine) may relate to modified oral and/or intestinal microbial ecology. Finally, salivary profiles of ED patients were partly comparable to those of subjects with exacerbated gustatory sensitivities, in particular with reduced abundance of cystatin SN and higher abundance of zinc-alpha-2-glycoprotein. Whether this translates taste hypersensitivity and contributes to the eating difficulties deserves further attention.

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Section: Proteome Analysismentioning

confidence: 99%

Multi-omics profiling reveals that eating difficulties developed consecutively to artificial nutrition in the neonatal period are associated to specific saliva composition

Morzel

Neyraud

Brignot

et al. 2015

Journal of Proteomics

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“…It is found that midstream sample of the second morning urine is optimal and was already used in several studies. [30,31] Urinary proteins have been shown to remain stable long enough to perform reliable proteome analysis. In addition, urine can be stored for several years, even at -20°C, without significant alterations in its proteome.…”

Section: Urinary Proteomicsmentioning

confidence: 99%

Challenges of Genomics and Proteomics in Nephrology

et al. 2009

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An increasing number of patients suffering from renal diseases and limitations in standard diagnostic and therapeutic approaches has created an intense interest in applying genomics and proteomics in the field of nephrology. Genomics has provided a vast amount of information, linking the gene activity with disease. However, proteomic technologies allow us to understand proteins and their modifications, elucidating properties of cellular behavior that may not be reflected in analysis of gene expression. The application of these innovative approaches has recently yielded the promising new urinary biomarkers for acute kidney injury and chronic kidney disease, thus providing a better insight in renal pathophysiology and establishing the basis for new therapeutic strategies. Despite significant improvements in therapeutics, the mortality and morbidity associated with acute renal failure (ARF) remain high. The lack of early markers for ARF causes an unacceptable delay in initiating therapy. These biomarker panels will probably be useful for assessing the duration and severity of ARF, and for predicting progression and adverse clinical outcomes. Kidney failure leads to the uremic syndrome characterized by accumulation of uremic toxins, which are normally cleared by the kidneys. Proteomics has gained considerable interest in this field, as a new and promising analytical approach to identify new uremic toxins. The urinary proteome as a tool for biomarker discovery is still in its early phase. A major challenge will be the integration of proteomics with genomics data and their functional interpretation in conjunction with clinical results and epidemiology.

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“…tubular epithelial cells) and (b) it may represent the whole kidney allograft. However, urine has variable and changing physicochemical properties (dilution, pH) and cellular components (epithelial cells, leukocytes, red blood cells), which can affect its protein content [11]. Furthermore, stability of proteins under these changing conditions may be impaired [12].…”

Section: Concept Of An Unbiased Proteomics-based Approach To Develop mentioning

confidence: 99%

“…acute rejection vs. no rejection) can now be analyzed for differences in their respective proteomes. The advantages of SELDI-TOF MS are its user friendliness and high-throughput capabilities [11]. The major disadvantages are a limited sensitivity to detect proteins and a low resolution and mass accuracy of the generated spectra [8,22].…”

Section: General Aspectsmentioning

confidence: 99%

Proteomics and Renal Transplantation: Searching for Novel Biomarkers and Therapeutic Targets

Schaub¹,

Wilkins²,

Nickerson³

2008

Proteomics in Nephrology - Towards Clinical Applications

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Renal transplantation has emerged as the preferred option for many patients with endstage renal failure. While significant progress has been achieved in short-term outcomes, long-term survival has only marginally improved. Adaptation of immunosuppressive drugs to the individual needs of every patient at every time point after transplant will be essential to improve long-term outcomes. Thus, assays are required that detect allograft injury very early, which implies frequent noninvasive measurements (e.g. in urine or serum). In this review, we describe important general aspects in urine biomarker discovery using proteomics and discuss currently published studies. Although proteomics has the potential to provide insights into complex pathophysiological processes and reveal novel diagnostic biomarkers as well as therapeutic drug targets, the actual status of urine proteomic activities in renal transplantation is still far from reaching these ambitious goals. Copyright © 2008 S. Karger AG, Basel Current Problems in Renal TransplantationAlthough short-term renal allograft survival has continuously improved over the last two decades and acute clinical rejection episodes have been significantly reduced, long-term outcome became only marginally better [1,2]. There are several possible interpretations for this contradictory finding. First, due to the growing gap between the increasing number of patients waiting for a deceased donor organ and the decreasing availability of organs with excellent quality, more marginal donors with pre-existing kidney pathologies have been used in recent years

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Urine protein profiling with surface-enhanced laser-desorption/ionization time-of-flight mass spectrometry

Abstract: SELDI-TOF-MS offers a unique platform for high throughput urine protein profiling; however, standardization of analysis conditions is critical, and both extrinsic and intrinsic factors must be taken into account for accurate data interpretation.

Cited by 312 publications

References 24 publications

Multi-omics profiling reveals that eating difficulties developed consecutively to artificial nutrition in the neonatal period are associated to specific saliva composition

Multi-omics profiling reveals that eating difficulties developed consecutively to artificial nutrition in the neonatal period are associated to specific saliva composition

Challenges of Genomics and Proteomics in Nephrology

Proteomics and Renal Transplantation: Searching for Novel Biomarkers and Therapeutic Targets

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