Variability of healthy human proteome

Pakharukova, Natalia; Пастушкова, Л. Х.; Moshkovskii, Sergei A.; Ларина, И. М.

doi:10.18097/pbmc20125805514

Cited by 7 publications

(2 citation statements)

References 79 publications

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“…57 Numerous studies have demonstrated that a proteomic profile is characterized by significant intra-and interindividual variability, and quite often natural ("normal") variability of some proteins can be comparable to changes observed in pathological processes. 58 In the present study, we sought to determine interindividual plasticity of the NHOEC proteome by 2DE analysis of proteins isolated from three separate age and sex matched healthy individuals. The 2D gel profiles for these samples are shown in Figure 7.…”

Section: Interindividual Plasticity Of Primary Hoec Proteomementioning

confidence: 99%

Proteomic and Bioinformatic Profile of Primary Human Oral Epithelial Cells

Ghosh

Yohannes²,

Bebek

et al. 2012

J. Proteome Res.

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Wounding of the oral mucosa occurs frequently in a highly septic environment. Remarkably, these wounds heal quickly and the oral cavity, for the most part, remains healthy. Deciphering the normal human oral epithelial cell (NHOEC) proteome is critical for understanding the mechanism(s) of protection elicited when the mucosal barrier is intact, as well as when it is breached. Combining 2D gel electrophoresis with shotgun proteomics resulted in identification of 1662 NHOEC proteins. Proteome annotations were performed based on protein classes, molecular functions, disease association and membership in canonical and metabolic signaling pathways. Comparing the NHOEC proteome with a database of innate immunity-relevant interactions (InnateDB) identified 64 common proteins associated with innate immunity. Comparison with published salivary proteomes revealed that 738/1662 NHOEC proteins were common, suggesting that significant numbers of salivary proteins are of epithelial origin. Gene ontology analysis showed similarities in the distributions of NHOEC and saliva proteomes with regard to biological processes, and molecular functions. We also assessed the inter-individual variability of the NHOEC proteome and observed it to be comparable with other primary cells. The baseline proteome described in this study should serve as a resource for proteome studies of the oral mucosa, especially in relation to disease processes.

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Section: Interindividual Plasticity Of Primary Hoec Proteomementioning

confidence: 99%

Proteomic and Bioinformatic Profile of Primary Human Oral Epithelial Cells

Ghosh

Yohannes²,

Bebek

et al. 2012

J. Proteome Res.

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“…However, there seems to be no major movement toward extremely fast omic analysis of several samples per seconds for extremely large sample sets, i.e. millions or even billions of samples, despite the realization that baseline abundances of specific proteoforms or other biomolecular species can substantially vary among (healthy) individuals, in particular in the human population (19)(20)(21), and thus for diagnostic purposes ultimately demanding frequent longitudinal sampling of all individuals in a given population. Only this type of largescale sampling and subsequent (prote)omic analysis will provide the much-needed data for advancing the understanding of population-wide proteome changes and exploiting protein/ proteome analysis for improved diagnostics and therapeutics.…”

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confidence: 99%

High-speed Analysis of Large Sample Sets – How Can This Key Aspect of the Omics Be Achieved?

Cramer

2020

Molecular & Cellular Proteomics

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High-speed analysis of large (prote)omics sample sets at the rate of thousands or millions of samples per day on a single platform has been a challenge since the beginning of proteomics. For many years, electrospray ionisation (ESI)-based mass spectrometry (MS) methods have dominated proteomics due to their high sensitivity and great depth in analysing complex proteomes. However, despite improvements in speed, ESI-based MS methods are fundamentally limited by their sample introduction, which excludes off-line sample preparation/fractionation due to the time required to switch between individual samples/sample fractions, and therefore being dependent on the speed of on-line sample preparation methods such as liquid chromatography. Laser-based ionisation methods have the advantage of moving from one sample to the next without these limitations, being mainly restricted by the speed of modern sample stages, i.e. 10 ms or less between samples. This speed matches the data acquisition speed of modern high-performing mass spectrometers while the pulse repetition rate of the lasers (>1 kHz) provides a sufficient number of desorption/ionisation events for successful ion signal detection from each sample at the above speed of the sample stages. Other advantages of laser-based ionisation methods include the generally higher tolerance to sample additives and contamination compared to ESI MS, and the contact-less and pulsed nature of the laser used for desorption, reducing the risk of cross-contamination. Furthermore, new developments in matrix-assisted laser desorption/ionisation (MALDI) have expanded its analytical capabilities, now being able to fully exploit high-performing hybrid mass analysers and their strengths in sensitivity and MS/MS analysis by generating an ESI-like stable yield of multiply charged analyte ions. Thus, these new developments and the intrinsically high speed of laser-based methods now provide a good basis for tackling extreme sample analysis speed in the omics.

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Proteomic Profiling of the Blood Serum for Prediction of Premature Delivery

2016

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Mass-spectrometric profiling of the serum in women at weeks 16-17 of gestation was carried out in order to detect proteomic predictors of preterm delivery. Changes in the production of 25 proteins (down-regulation for 13 proteins and up-regulation for 12 proteins) were detected in the sera of women whose pregnancies eventuated in premature deliveries. Among them, proteins with various regulatory functions were distinguished: antioxidant enzymes, chaperons, cytoskeleton proteins, cell adhesion molecules, and proteins involved in angiogenesis, proteolysis, transcription, inflammation processes, binding and transportation of various ligands. These results indicated the formation of proteomic imbalance as early as during trimester II, this eventually leading to premature delivery. The detected serum proteins were suggested as markers for early prediction of premature delivery.

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Variability of healthy human proteome

Cited by 7 publications

References 79 publications

Proteomic and Bioinformatic Profile of Primary Human Oral Epithelial Cells

Proteomic and Bioinformatic Profile of Primary Human Oral Epithelial Cells

High-speed Analysis of Large Sample Sets – How Can This Key Aspect of the Omics Be Achieved?

Proteomic Profiling of the Blood Serum for Prediction of Premature Delivery

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