The Whereabouts of 2D Gels in Quantitative Proteomics

Rabilloud, Thierry

doi:10.1007/978-1-61779-885-6_2

Cited by 24 publications

(8 citation statements)

References 84 publications

(8 reference statements)

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“…Further references for multiple testing theory and applications in gel electrophoresis-based proteome analysis comprise Morris et al (2011), Morris (2013), Langley et al (2013), Corzett et al (2006), Corzett et al (2010), Rabilloud (2012) and references therein, among others. …”

Section: Chaptermentioning

confidence: 99%

Simultaneous Statistical Inference

Dickhaus

2014

105

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Section: Chaptermentioning

confidence: 99%

Simultaneous Statistical Inference

Dickhaus

2014

105

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“…After electrophoresis, the proteins in the gel are stained for visualisation, quantification, and comparison. The various detection methods (radioactivity, dyes, fluorescence, and silver) as well as the data analysis issues that must be taken into account when quantitative comparative analysis of 2D gels is performed have been critically reviewed in a recent work [35]. …”

Section: Fractionationmentioning

confidence: 99%

Proteomic Analyses of the Vitreous Humour

Angi

Kalirai

Coupland

et al. 2012

Mediators of Inflammation

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The human vitreous humour (VH) is a transparent, highly hydrated gel, which occupies the posterior segment of the eye between the lens and the retina. Physiological and pathological conditions of the retina are reflected in the protein composition of the VH, which can be sampled as part of routine surgical procedures. Historically, many studies have investigated levels of individual proteins in VH from healthy and diseased eyes. In the last decade, proteomics analyses have been performed to characterise the proteome of the human VH and explore networks of functionally related proteins, providing insight into the aetiology of diabetic retinopathy and proliferative vitreoretinopathy. Recent proteomic studies on the VH from animal models of autoimmune uveitis have identified new signalling pathways associated to autoimmune triggers and intravitreal inflammation. This paper aims to guide biological scientists through the different proteomic techniques that have been used to analyse the VH and present future perspectives for the study of intravitreal inflammation using proteomic analyses.

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“…Ideally, the in-gel protein detection methods should be very sensitive but also linear in response (i.e., should be able to accurately detect abundance variations) and homogeneous (all classes of proteins should be detected), but this is not often the case (Rabilloud 2012). Despite these amply-known constraints, a frequently neglected limitation is the performance of the 2D electrophoresis itself.…”

Section: De Vs Modern Proteomicsmentioning

confidence: 97%

Proteome signatures—how are they obtained and what do they teach us?

Costa

Ferreira

Amado

et al. 2015

Appl Microbiol Biotechnol

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The dawn of a new Proteomics era, just over a decade ago, allowed for large-scale protein profiling studies that have been applied in the identification of distinctive molecular cell signatures. Proteomics provides a powerful approach for identifying and studying these multiple molecular markers in a vast array of biological systems, whether focusing on basic biological research, diagnosis, therapeutics, or systems biology. This is a continuously expanding field that relies on the combination of different methodologies and current advances, both technological and analytical, which have led to an explosion of protein signatures and biomarker candidates. But how are these biological markers obtained? And, most importantly, what can we learn from them? Herein, we briefly overview the currently available approaches for obtaining relevant information at the proteome level, while noting the current and future roles of both traditional and modern proteomics. Moreover, we provide some considerations on how the development of powerful and robust bioinformatics tools will greatly benefit high-throughput proteomics. Such strategies are of the utmost importance in the rapidly emerging field of immunoproteomics, which may play a key role in the identification of antigens with diagnostic and/or therapeutic potential and in the development of new vaccines. Finally, we consider the present limitations in the discovery of new signatures and biomarkers and speculate on how such hurdles may be overcome, while also offering a prospect for the next few years in what could be one of the most significant strategies in translational medicine research.

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The Whereabouts of 2D Gels in Quantitative Proteomics

Cited by 24 publications

References 84 publications

Simultaneous Statistical Inference

Simultaneous Statistical Inference

Proteomic Analyses of the Vitreous Humour

Proteome signatures—how are they obtained and what do they teach us?

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