Abstract:
:An efficient means for the identification of prognostic and predictive biomarkers is essential in today's cancer management. A new approach toward biomarker discovery has therefore been proposed, where pathways instead of individual proteins would be monitored and targeted. Recently, the 'secretome', a biological fluid that may be enriched with secreted and/or shed proteins from adjacent disease-relevant cancer cells, has been targeted for biomarker discovery. We describe a novel method for secretome analysis using "stacking gels", label-free relative quantitation, and pathway analysis. The protocol presented here increases the throughput of secretome analysis by approximately 1 order of magnitude compared to earlier methodologies. In the first application, six cancer cell lines from three different tissues were studied. The global secretome data sets obtained were analyzed using pathway analysis software to attempt integrating the experimental findings into a cellular signaling context. This suggested that several secretome proteins might be interconnected with intracellular canonical pathways. This, in turn, may eventually allow the use of secretomes for discovery of pathway-based biomarkers. When this strategy was applied to two breast cancer cell lines, it appeared that the IGF signaling and the plasminogen activating system may be differentially regulated in invasive breast cancer, but this remains speculative until it is verified in a clinical setting. In summary, the methodology proposed optimizes cell culture with sample fractionation and LC-MS to obtain the highest yield from cultured cell secretomes, with a focus on rational biomarker discovery through putative linkage with cancer relevant pathways.
journal_name
J Proteome Resjournal_title
Journal of proteome researchauthors
Lawlor K,Nazarian A,Lacomis L,Tempst P,Villanueva Jdoi
10.1021/pr8008572subject
Has Abstractpub_date
2009-03-01 00:00:00pages
1489-503issue
3eissn
1535-3893issn
1535-3907pii
10.1021/pr8008572journal_volume
8pub_type
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journal_title:Journal of proteome research
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abstract::Protein microarrays consist of known proteins spotted onto solid substrates and are used to perform highly multivariate assessments of protein-binding interactions. Human protein arrays are routinely applied to pathogen detection, immune response biomarker profiling, and antibody specificity profiling. Here, we descri...
journal_title:Journal of proteome research
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journal_title:Journal of proteome research
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journal_title:Journal of proteome research
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journal_title:Journal of proteome research
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journal_title:Journal of proteome research
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更新日期:2011-07-01 00:00:00
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journal_title:Journal of proteome research
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更新日期:2015-09-04 00:00:00
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更新日期:2013-03-01 00:00:00
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journal_title:Journal of proteome research
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更新日期:2020-03-06 00:00:00
abstract::Investigation of how diatoms cope with the rapid fluctuations in iron bioavailability in marine environments may facilitate a better understanding of the mechanisms underlying their ecological success, in particular their ability to proliferate rapidly during favorable conditions. In this study, using in vivo biochemi...
journal_title:Journal of proteome research
pub_type: 杂志文章
doi:10.1021/pr5004664
更新日期:2014-12-05 00:00:00
abstract::The Baculoviral IAP repeat-containing protein 5 (BIRC5), also known as inhibitor of apoptosis protein survivin, is a member of the chromosomal passenger complex and a key player in mitosis. To investigate the function of BIRC5 in liver regeneration, we analyzed a hepatocyte-specific BIRC5-knockout mouse model using a ...
journal_title:Journal of proteome research
pub_type: 杂志文章
doi:10.1021/pr401188r
更新日期:2014-06-06 00:00:00
abstract::Quantitative analysis of protein biomarkers in plasma is typically done by ELISA, but this method is limited by the availability of high-quality antibodies. An alternative approach is protein immunoprecipitation combined with multiple reaction monitoring mass spectrometry (IP-MRM). We compared IP-MRM to ELISA for the ...
journal_title:Journal of proteome research
pub_type: 杂志文章
doi:10.1021/pr400877e
更新日期:2013-12-06 00:00:00
abstract::Mass spectrometry (MS) has become an accessible tool for whole proteome quantitation with the ability to characterize protein expression across thousands of proteins within a single experiment. A subset of MS quantification methods (e.g., SILAC and label-free) monitor the relative intensity of intact peptides, where t...
journal_title:Journal of proteome research
pub_type: 杂志文章
doi:10.1021/acs.jproteome.7b00699
更新日期:2018-01-05 00:00:00
abstract::In Thailand, diabetes mellitus is the most significant risk factor for melioidosis, a severe disease caused by Burkholderia pseudomallei. In this study, neutrophils isolated from healthy or diabetic subjects were infected with B. thailandensis E555, a variant strain with a B. pseudomallei-like capsular polysaccharide ...
journal_title:Journal of proteome research
pub_type: 杂志文章
doi:10.1021/acs.jproteome.9b00166
更新日期:2019-07-05 00:00:00
abstract::During vertebrate central nervous system development, the apical neuroepithelium is bathed with embryonic Cerebrospinal Fluid (e-CSF) which plays regulatory roles in cortical cell proliferation and maintenance. Here, we report the first proteomic analysis of human e-CSF and compare it to an extensive proteomic analysi...
journal_title:Journal of proteome research
pub_type: 杂志文章
doi:10.1021/pr070247w
更新日期:2007-09-01 00:00:00
abstract::Reported in this work are the development of mass spectrometric immunoassay (MSIA) devices and methods for the qualitative analysis of IGF-1 and -2, and the rigorous quantification of IGF-1 from human plasma. A method involving addition of SDS in moderate concentration to unfractionated plasma for disrupting IGF/IGFBP...
journal_title:Journal of proteome research
pub_type: 杂志文章
doi:10.1021/pr0499388
更新日期:2004-07-01 00:00:00
abstract::The secreted proteins of bacteria are usually accompanied by virulence factors, which can cause inflammation and damage host cells. Identifying the secretomes arising from the interactions of bacteria and host cells could therefore increase understanding of the mechanisms during initial pathogenesis. The present study...
journal_title:Journal of proteome research
pub_type: 杂志文章
doi:10.1021/acs.jproteome.6b00584
更新日期:2017-01-06 00:00:00
abstract::Protein post-translational modification by ubiquitin-fold modifier 1, UFM1, regulates many biological processes such as response to endoplasmic reticulum stress and regulation of tumor progression. A recent study has indicated that the UFM1-binding and PCI domain-containing protein 1 (UFBP1) is required for the conjug...
journal_title:Journal of proteome research
pub_type: 杂志文章
doi:10.1021/acs.jproteome.7b00843
更新日期:2018-04-06 00:00:00
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journal_title:Journal of proteome research
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更新日期:2012-03-02 00:00:00
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journal_title:Journal of proteome research
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更新日期:2009-01-01 00:00:00
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journal_title:Journal of proteome research
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更新日期:2012-02-03 00:00:00
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journal_title:Journal of proteome research
pub_type: 杂志文章
doi:10.1021/pr070313u
更新日期:2007-11-01 00:00:00
abstract::The phagosome is very important to host immunity and tissue homeostasis maintenance. The destiny of the phagosome is closely associated with the outcome of the pathogen within. Most pathogens are successfully delivered to the lysosome and destroyed via the fusion of the phagosome with the lysosome. Mycobacterium tube...
journal_title:Journal of proteome research
pub_type: 杂志文章,评审
doi:10.1021/pr300125t
更新日期:2012-05-04 00:00:00
abstract::Metabolic profiling technology, a massive information provider, has promoted the understanding of the metabolism of multicomponent medicines and its interactions with endogenous metabolites, which was previously a challenge in clarification. In this study, an untargeted GC/MS-based approach was employed to investigate...
journal_title:Journal of proteome research
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doi:10.1021/acs.jproteome.6b00015
更新日期:2016-06-03 00:00:00
abstract::Blood is an ideal window for viewing our health and disease status. Because blood circulates throughout the entire body and carries secreted, shed, and excreted signature proteins from every organ and tissue type, it is thus possible to use the blood proteome to achieve a comprehensive assessment of multiple-organ phy...
journal_title:Journal of proteome research
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更新日期:2013-05-03 00:00:00
abstract::Mequindox is used as a veterinary antibiotic drug. As part of systematic investigations into mequindox as a veterinary medicine and its subsequent applications in food safety, we conducted the investigation to assess the metabolic response of mice to mequindox using metabonomics, which combines NMR metabolic profiles ...
journal_title:Journal of proteome research
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更新日期:2011-11-04 00:00:00
abstract::Human milk is a rich source of bioactive proteins that support the early growth and development of the newborn. Although the major components of the protein fraction in human milk have been studied, the expression and relative abundance of minor components have received limited attention. We examined the expression of...
journal_title:Journal of proteome research
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更新日期:2011-04-01 00:00:00
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更新日期:2010-04-05 00:00:00