"Product ion monitoring" assay for prostate-specific antigen in serum using a linear ion-trap.


:While numerous strategies exist for biomarker discovery, the bottleneck to product development and routine use at the clinic is in the verification phase of candidate biomarkers. The aim of this study was to establish a robust and high-throughput product ion monitoring (PIM) assay that is potentially capable of rapidly verifying candidates from discovery phase experiments. Using prostate-specific antigen (PSA), a model biomarker, and a routinely used mass spectrometer for discovery platforms, an ion trap (LTQ, Thermo), the utility of this instrument to perform PIM was explored. The proteotypic doubly charged intact peptide LSEPAELTDAVK ( m/ z 637) fragmenting to m/ z 943 (PAELTDAVK) was monitored. A limit of detection of 10 attomoles with a coefficient of variation (CV) of <20% was obtained for a purified recombinant PSA digest. Immunoextraction of endogenous PSA from serum using a monoclonal antibody on a 96-well microtiter plate, followed by PIM on the LTQ, enabled quantification of PSA down to less than 1 ng/mL with a limit of detection of 0.1 ng/mL and CVs < 20%. Mascot searching and ion ratio confirmation further supported the conclusion that the quantified moiety in serum was the PSA peptide. We conclude that this methodology could be adapted quickly and easily to other candidates, thus providing a much needed technology to bridge the gap between discovery and validation platforms.


J Proteome Res


Kulasingam V,Smith CR,Batruch I,Buckler A,Jeffery DA,Diamandis EP




Has Abstract


2008-02-01 00:00:00












  • Introduction to the Food and Drug Administration (FDA) regulatory process.

    abstract::FDA oversight of medical devices, including in vitro diagnostic devices (IVDs or laboratory tests), in the United States was a direct result of the passage of the Medical Device Amendments of 1976. This law introduced a series of general controls for medical devices including registration and listing, requirements for...

    journal_title:Journal of proteome research

    pub_type: 杂志文章,评审


    authors: Hackett JL,Gutman SI

    更新日期:2005-07-01 00:00:00

  • Proteins associated with immunopurified granules from a model pancreatic islet beta-cell system: proteomic snapshot of an endocrine secretory granule.

    abstract::beta-Cell granules contain proteins involved in fuel regulation, which when altered, contribute to metabolic disorders including diabetes mellitus. We analyzed proteins present in purified granules from the INS-1E beta-cell model. Fifty-one component proteins were identified by LC-MS/MS including hormones, granins, pr...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Hickey AJ,Bradley JW,Skea GL,Middleditch MJ,Buchanan CM,Phillips AR,Cooper GJ

    更新日期:2009-01-01 00:00:00

  • Evosep One Enables Robust Deep Proteome Coverage Using Tandem Mass Tags while Significantly Reducing Instrument Time.

    abstract::The balance between comprehensively analyzing the proteome and using valuable mass spectrometry time is a genuine challenge in the field of proteomics. Multidimensional fractionation strategies have significantly increased proteome coverage, but often at the cost of increased mass analysis time, despite advances in ma...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Krieger JR,Wybenga-Groot LE,Tong J,Bache N,Tsao MS,Moran MF

    更新日期:2019-05-03 00:00:00

  • Vegetative Cell and Spore Proteomes of Clostridioides difficile Show Finite Differences and Reveal Potential Protein Markers.

    abstract::Clostridioides difficile-associated infection (CDI) is a health-care-associated infection caused, as the name suggests, by obligate anaerobic pathogen C. difficile and thus mainly transmitted via highly resistant endospores from one person to the other. In vivo, the spores need to germinate into cells prior to establi...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Abhyankar WR,Zheng L,Brul S,de Koster CG,de Koning LJ

    更新日期:2019-11-01 00:00:00

  • We are what we eat: food safety and proteomics.

    abstract::In this review, we lead the reader through the evolution of proteomics application to the study of quality control in production processes of foods (including food of plant origin and transgenic plants in particular, but also meat, wine and beer, and milk) and food safety (screening for foodborne pathogens). These top...

    journal_title:Journal of proteome research

    pub_type: 杂志文章,评审


    authors: D'Alessandro A,Zolla L

    更新日期:2012-01-01 00:00:00

  • Oxidized transthyretin in amniotic fluid as an early marker of preeclampsia.

    abstract::Preeclampsia is a pregnancy-specific hypertensive syndrome and a major cause of maternal and fetal morbidity and mortality. At the present time, no reliable screening tests to identify women at risk are available. We have compared the amniotic fluids (AF) proteomic maps of five preeclamptic patients with those of five...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Vascotto C,Salzano AM,D'Ambrosio C,Fruscalzo A,Marchesoni D,di Loreto C,Scaloni A,Tell G,Quadrifoglio F

    更新日期:2007-01-01 00:00:00

  • Detecting Modifications in Proteomics Experiments with Param-Medic.

    abstract::Searching tandem mass spectra against a peptide database requires accurate knowledge of various experimental parameters, including machine settings and details of the sample preparation protocol. In some cases, such as in reanalysis of public data sets, this experimental metadata may be missing or inaccurate. We descr...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: May DH,Tamura K,Noble WS

    更新日期:2019-04-05 00:00:00

  • iTRAQ protein profile differential analysis between somatic globular and cotyledonary embryos reveals stress, hormone, and respiration involved in increasing plantlet regeneration of Gossypium hirsutum L.

    abstract::Somatic embryo development (SED) in upland cotton shows low frequencies of embryo maturation and plantlet regeneration. Progress in increasing the regeneration rate has been limited. Here a global analysis of proteome dynamics between globular and cotyledonary embryos was performed using isobaric tags for relative and...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Ge X,Zhang C,Wang Q,Yang Z,Wang Y,Zhang X,Wu Z,Hou Y,Wu J,Li F

    更新日期:2015-01-02 00:00:00

  • "Differential Visual Proteomics": Enabling the Proteome-Wide Comparison of Protein Structures of Single-Cells.

    abstract::Proteins are involved in all tasks of life, and their characterization is essential to understand the underlying mechanisms of biological processes. We present a method called "differential visual proteomics" geared to study proteome-wide structural changes of proteins and protein-complexes between a disturbed and an ...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Syntychaki A,Rima L,Schmidli C,Stohler T,Bieri A,Sütterlin R,Stahlberg H,Castaño-Díez D,Braun T

    更新日期:2019-09-06 00:00:00

  • Metabolomic Fingerprinting in Various Body Fluids of a Diet-Controlled Clinical Smoking Cessation Study Using a Validated GC-TOF-MS Metabolomics Platform.

    abstract::Untargeted GC-TOF-MS analysis proved to be a suitable analytical platform to determine alterations in the metabolic profile. Several metabolic pathways were found to be altered in a first clinical study comparing smokers against nonsmokers. Subsequently, we conducted a clinical diet-controlled study to investigate alt...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Goettel M,Niessner R,Mueller D,Scherer M,Scherer G,Pluym N

    更新日期:2017-10-06 00:00:00

  • In-depth proteomic and glycomic analysis of the adult-stage Cooperia oncophora excretome/secretome.

    abstract::Cooperia oncophora is one of the most common intestinal parasitic nematodes in cattle worldwide. To date, C. oncophora infections are treated using broad-spectrum anthelmintics. However, during the past decade, reports of anthelmintic resistance in this parasite species have emerged worldwide, necessitating new avenue...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Borloo J,De Graef J,Peelaers I,Nguyen DL,Mitreva M,Devreese B,Hokke CH,Vercruysse J,Claerebout E,Geldhof P

    更新日期:2013-09-06 00:00:00

  • High-throughput cloning of Campylobacter jejuni ORfs by in vivo recombination in Escherichia coli.

    abstract::A rate-limiting and costly step in many proteomics analyses is the cloning of all of the ORFs for an organism into technique-specific vectors. Here, we describe the generation of a Campylobacter jejuni expression clone set using a high-throughput cloning approach based on recombination in E. coli. The approach uses na...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Parrish JR,Limjindaporn T,Hines JA,Liu J,Liu G,Finley RL Jr

    更新日期:2004-05-01 00:00:00

  • Combined transcriptomic-(1)H NMR metabonomic study reveals that monoethylhexyl phthalate stimulates adipogenesis and glyceroneogenesis in human adipocytes.

    abstract::Adipose tissue is a major storage site for lipophilic environmental contaminants. The environmental metabolic disruptor hypothesis postulates that some pollutants can promote obesity or metabolic disorders by activating nuclear receptors involved in the control of energetic homeostasis. In this context, monoethylhexyl...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Ellero-Simatos S,Claus SP,Benelli C,Forest C,Letourneur F,Cagnard N,Beaune PH,de Waziers I

    更新日期:2011-12-02 00:00:00

  • Quantitative Profiling for Substrates of the Mitochondrial Presequence Processing Protease Reveals a Set of Nonsubstrate Proteins Increased upon Proteotoxic Stress.

    abstract::The majority of mitochondrial preproteins are targeted via N-terminal presequences that are cleaved upon import into the organelle. The essential mitochondrial processing protease (MPP) is assumed to cleave the majority of incoming precursors; however, only a small fraction of mitochondrial precursors have been experi...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Burkhart JM,Taskin AA,Zahedi RP,Vögtle FN

    更新日期:2015-11-06 00:00:00

  • Comparison of CRISPR Genomic Tagging for Affinity Purification and Endogenous Immunoprecipitation Coupled with Quantitative Mass Spectrometry To Identify the Dynamic AMPKα2 Interactome.

    abstract::Recent advances in genome editing technologies have enabled the insertion of epitope tags at endogenous loci with relative efficiency. We describe an approach for investigation of protein interaction dynamics of the AMP-activated kinase complex AMPK using a catalytic subunit AMPKα2 (PRKAA2 gene) as the bait, based on ...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Stein BD,Herzig S,Martínez-Bartolomé S,Lavallée-Adam M,Shaw RJ,Yates JR 3rd

    更新日期:2019-10-04 00:00:00

  • Identification of Alzheimer's Disease Autoantibodies and Their Target Biomarkers by Phage Microarrays.

    abstract::The characterization of the humoral response in Alzheimer's disease (AD) patients might aid in detecting the disease at early stages. We have combined phage display and protein microarrays to identify AD autoantibodies and their target biomarkers. After enrichment of the T7 phage display libraries from AD and healthy ...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: San Segundo-Acosta P,Montero-Calle A,Fuentes M,Rábano A,Villalba M,Barderas R

    更新日期:2019-07-05 00:00:00

  • Quantitative Proteomics for the Comprehensive Analysis of Stress Responses of Lactobacillus paracasei subsp. paracasei F19.

    abstract::Lactic acid bacteria are broadly employed as starter cultures in the manufacture of foods. Upon technological preparation, they are confronted with drying stress that amalgamates numerous stress conditions resulting in losses of fitness and survival. To better understand and differentiate physiological stress response...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Schott AS,Behr J,Geißler AJ,Kuster B,Hahne H,Vogel RF

    更新日期:2017-10-06 00:00:00

  • The effects of rosiglitazone and high glucose on protein expression in endothelial cells.

    abstract::Rosiglitazone is a thiazolidinedione used to treat insulin resistance in diabetes. Although thiazolidinediones may also exert cardiovascular effects, contrasting results were reported. Favorable effects were shown for pioglitazone, whereas adverse reactions were suspected for rosiglitazone. Therefore, a reassessment o...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Millioni R,Puricelli L,Iori E,Arrigoni G,Tessari P

    更新日期:2010-01-01 00:00:00

  • Changes in the striatal proteome of YAC128Q mice exhibit gene-environment interactions between mutant huntingtin and manganese.

    abstract::Huntington's disease (HD) is a neurodegenerative disorder caused by expansion of a CAG repeat within the Huntingtin (HTT) gene, though the clinical presentation of disease and age-of-onset are strongly influenced by ill-defined environmental factors. We recently reported a gene-environment interaction wherein expressi...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Wegrzynowicz M,Holt HK,Friedman DB,Bowman AB

    更新日期:2012-02-03 00:00:00

  • Alterations of Brain Quantitative Proteomics Profiling Revealed the Molecular Mechanisms of Diosgenin against Cerebral Ischemia Reperfusion Effects.

    abstract::Diosgenin (DIO), the starting material for the synthesis of steroidal anti-inflammatory drugs in the pharmaceutical industry, has been previously demonstrated to display pharmaceutical effects against cerebral ischemic reperfusion (I/R). However, the alterations of brain proteome profiles underlying this treatment rem...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Zhang X,Wang X,Khurm M,Zhan G,Zhang H,Ito Y,Guo Z

    更新日期:2020-03-06 00:00:00

  • A Network Module for the Perseus Software for Computational Proteomics Facilitates Proteome Interaction Graph Analysis.

    abstract::Proteomics data analysis strongly benefits from not studying single proteins in isolation but taking their multivariate interdependence into account. We introduce PerseusNet, the new Perseus network module for the biological analysis of proteomics data. Proteomics is commonly used to generate networks, e.g., with affi...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Rudolph JD,Cox J

    更新日期:2019-05-03 00:00:00

  • Determination of beta-amyloid peptide signatures in cerebrospinal fluid using immunoprecipitation-mass spectrometry.

    abstract::Early pathogenic events in Alzheimer's disease (AD) involve increased production and/or reduced clearance of beta-amyloid (Abeta), especially the 42 amino acid fragment Abeta1-42. The Abeta1-42 peptide is generated through cleavage of the amyloid precursor protein by beta- and gamma-secretase and is catabolised by a v...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Portelius E,Westman-Brinkmalm A,Zetterberg H,Blennow K

    更新日期:2006-04-01 00:00:00

  • Identification of Yersinia pestis and Escherichia coli strains by whole cell and outer membrane protein extracts with mass spectrometry-based proteomics.

    abstract::Whole cell protein and outer membrane protein (OMP) extracts were compared for their ability to differentiate and delineate the correct database organism to an experimental sample and for the degree of dissimilarity to the nearest neighbor database organism strains. These extracts were isolated from pathogenic and non...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Jabbour RE,Wade MM,Deshpande SV,Stanford MF,Wick CH,Zulich AW,Snyder AP

    更新日期:2010-07-02 00:00:00

  • InterMetalDB: A Database and Browser of Intermolecular Metal Binding Sites in Macromolecules with Structural Information.

    abstract::InterMetalDB is a free-of-charge database and browser of intermolecular metal binding sites that are present on the interfaces of macromolecules forming larger assemblies based on structural information deposited in Protein Data Bank (PDB). It can be found and freely used at https://intermetaldb.biotech.uni.wroc.pl/. ...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Tran JB,Krężel A

    更新日期:2021-01-27 00:00:00

  • Advantages of tandem LC-MS for the rapid assessment of tissue-specific metabolic complexity using a pentafluorophenylpropyl stationary phase.

    abstract::In this study, a tandem LC-MS (Waters Xevo TQ) MRM-based MS method was developed for rapid, broad profiling of hydrophilic metabolites from biological samples, in either positive or negative ion modes without the need for an ion pairing reagent, using a reversed-phase pentafluorophenylpropyl (PFPP) column. The develop...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Lv H,Palacios G,Hartil K,Kurland IJ

    更新日期:2011-04-01 00:00:00

  • Quantitative analysis of protein complex constituents and their phosphorylation states on a LTQ-Orbitrap instrument.

    abstract::Cellular functions are largely carried out by noncovalent protein complexes that may exist within the cell as stable modules or as assemblies of dynamically changing composition, whose formation and decomposition are triggered in response to extracellular stimuli. The protein constituents of complexes often exhibit po...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Przybylski C,Jünger MA,Aubertin J,Radvanyi F,Aebersold R,Pflieger D

    更新日期:2010-10-01 00:00:00

  • Effect of Repeated Freeze-Thaw Cycles on NMR-Measured Lipoproteins and Metabolites in Biofluids.

    abstract::Metabolic profiling of biofluids by nuclear magnetic resonance (NMR) spectroscopy serves as an important tool in disease characterization, and its accuracy largely depends on the quality of samples. We aimed to explore possible effects of repeated freeze-thaw cycles (FTCs) on concentrations of lipoprotein parameters i...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Wang F,Debik J,Andreassen T,Euceda LR,Haukaas TH,Cannet C,Schäfer H,Bathen TF,Giskeødegård GF

    更新日期:2019-10-04 00:00:00

  • Construction of plastid reference proteomes for maize and Arabidopsis and evaluation of their orthologous relationships; the concept of orthoproteomics.

    abstract::Plastids are essential organelles because they contribute to primary and secondary metabolism and plant signaling networks. A high-quality inventory of the plastid proteome is therefore a critical tool in plant research. We present reference plastid proteomes for maize (Zea mays) and Arabidopsis (Arabidopsis thaliana)...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Huang M,Friso G,Nishimura K,Qu X,Olinares PD,Majeran W,Sun Q,van Wijk KJ

    更新日期:2013-01-04 00:00:00

  • Identification of Glycopeptides with Multiple Hydroxylysine O-Glycosylation Sites by Tandem Mass Spectrometry.

    abstract::Glycosylation is one of the most common post-translational modifications in proteins, existing in ~50% of mammalian proteins. Several research groups have demonstrated that mass spectrometry is an efficient technique for glycopeptide identification; however, this problem is still challenging because of the enormous di...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Zhang Y,Yu CY,Song E,Li SC,Mechref Y,Tang H,Liu X

    更新日期:2015-12-04 00:00:00

  • Mass spectrometry characterization of species-specific peptides from arginine kinase for the identification of commercially relevant shrimp species.

    abstract::The identification of commercial shrimp species is a relevant issue to ensure correct labeling, maintain consumer confidence and enhance the knowledge of the captured species, benefiting both, fisheries and manufacturers. A proteomic approach, based on 2DE, tryptic in-gel digestion, MALDI-TOF MS, and ESI-MS/MS analyse...

    journal_title:Journal of proteome research

    pub_type: 杂志文章


    authors: Ortea I,Cañas B,Gallardo JM

    更新日期:2009-11-01 00:00:00