Protein sequence tags: a novel solution for comparative proteomics.


:Comparative proteome profiling using stable isotope peptide labelling and mass spectrometry has emerged as a promising strategy. Here, we show the broad potential of our proprietary protein sequence tag (PST) technology. A special feature of PST is its ability to detect a wide variety of proteins including the pharmaceutically relevant membrane and nuclear proteins. This procedure addresses a similar number of proteins, compared to the multidimensional protein identification technology approach, but offers additionally a quantitative analysis with its recently developed quantitative PST version.






Kuhn K,Prinz T,Schäfer J,Baumann C,Schärfke M,Kienle S,Schwarz J,Steiner S,Hamon C




Has Abstract


2005-06-01 00:00:00












  • Depletion of multiple high-abundance proteins improves protein profiling capacities of human serum and plasma.

    abstract::Systematic detection of low-abundance proteins in human blood that may be putative disease biomarkers is complicated by an extremely wide range of protein abundances. Hence, depletion of major proteins is one potential strategy for enhancing detection sensitivity in serum or plasma. This study compared a recently comm...


    pub_type: 杂志文章


    authors: Echan LA,Tang HY,Ali-Khan N,Lee K,Speicher DW

    更新日期:2005-08-01 00:00:00

  • Global profiling of proteolytically modified proteins in human metastatic hepatocellular carcinoma cell lines reveals CAPN2 centered network.

    abstract::Proteolysis affects every protein at some point in its life cycle. Many biomarkers of disease or cancer are stable proteolytic fragments in biological fluids. There is great interest and a challenge in proteolytically modified protein study to identify physiologic protease-substrate relationships and find potential bi...


    pub_type: 杂志文章


    authors: Shen C,Yu Y,Li H,Yan G,Liu M,Shen H,Yang P

    更新日期:2012-06-01 00:00:00

  • The essentiality of alpha-2-macroglobulin in human salivary innate immunity against new H1N1 swine origin influenza A virus.

    abstract::A novel strain of influenza A H1N1 emerged in the spring of 2009 and has spread rapidly throughout the world. Although vaccines have recently been developed that are expected to be protective, their availability was delayed until well into the influenza season. Although anti-influenza drugs such as neuraminidase inhib...


    pub_type: 杂志文章


    authors: Chen CH,Zhang XQ,Lo CW,Liu PF,Liu YT,Gallo RL,Hsieh MF,Schooley RT,Huang CM

    更新日期:2010-06-01 00:00:00

  • Proteomic Profile of Daphnia pulex using Data-Independent Acquisition Mass Spectrometry and Ion Mobility Separation.

    abstract::Daphnia pulex is a keystone species for aquatic habitats and an ecological/evolution model organism. Although significant progress has been made on characterizing its genome, the D. pulex proteome remains largely uncharacterized partially due to abnormally high protein degradation during homogenization and emphasis on...


    pub_type: 杂志文章


    authors: Steevensz A,Gombar R,Vergilino R,Cristescu ME,Vacratsis PO

    更新日期:2018-08-01 00:00:00

  • A proteomic kinetic analysis of IGROV1 ovarian carcinoma cell line response to cisplatin treatment.

    abstract::Ovarian cancer is one of the leading causes of mortality by gynecological cancer. Despite good response to surgery and initial chemotherapy, essentially based on cisplatin (cis-diamino-dichloro-platinum(II) (CDDP)) compounds, frequent recurrences with chemoresistance acquisition are responsible for poor prognosis. Sev...


    pub_type: 杂志文章


    authors: Le Moguen K,Lincet H,Marcelo P,Lemoisson E,Heutte N,Duval M,Poulain L,Vinh J,Gauduchon P,Baudin B

    更新日期:2007-11-01 00:00:00

  • Proteomics of hydrophobic samples: Fast, robust and low-cost workflows for clinical approaches.

    abstract::In a comparative study, we investigated the influence of nine sample preparation workflows and seven different lysis buffers for qualitative and quantitative analysis of the human adipose tissue proteome. Adipose tissue is not just a fat depot but also an endocrine organ, which cross-talks with other tissue types and ...


    pub_type: 杂志文章


    authors: Pasing Y,Colnoe S,Hansen T

    更新日期:2017-03-01 00:00:00

  • ICPLQuant - A software for non-isobaric isotopic labeling proteomics.

    abstract::The main goal of many proteomics experiments is an accurate and rapid quantification and identification of regulated proteins in complex biological samples. The bottleneck in quantitative proteomics remains the availability of efficient software to evaluate and quantify the tremendous amount of mass spectral data acqu...


    pub_type: 杂志文章


    authors: Brunner A,Keidel EM,Dosch D,Kellermann J,Lottspeich F

    更新日期:2010-01-01 00:00:00

  • Developmentally induced changes of the proteome in the protozoan parasite Leishmania donovani.

    abstract::In order to proceed through their life cycle, protozoan parasites of the genus Leishmania cycle between sandflies and mammals. This change of environment correlates with the differentiation from the promastigote stage (insect form) to the amastigote stage (intracellular mammalian form). The molecular basis underlying ...


    pub_type: 杂志文章


    authors: Bente M,Harder S,Wiesgigl M,Heukeshoven J,Gelhaus C,Krause E,Clos J,Bruchhaus I

    更新日期:2003-09-01 00:00:00

  • Comparative proteome analysis of porcine follicular fluid and serum reveals that excessive alpha(2)-macroglobulin in serum hampers successful expansion of cumulus-oocyte complexes.

    abstract::Porcine follicular fluid (pFF) constitutes the micro-environment of the maturing oocyte. Although pFF is a transudate of serum, in pigs, it is superior to serum in promoting in vitro expansion of the cumulus cells, a specialized cell population surrounding the oocyte. A comparative proteome analysis of autologous seru...


    pub_type: 杂志文章


    authors: Bijttebier J,Tilleman K,Dhaenens M,Deforce D,Van Soom A,Maes D

    更新日期:2009-10-01 00:00:00

  • Proteomics Reveals Cell-Surface Urokinase Plasminogen Activator Receptor Expression Impacts Most Hallmarks of Cancer.

    abstract::While metastasis is the primary cause of colorectal cancer (CRC) mortality, the molecular mechanisms underpinning it remains elusive. Metastasis is propagated through driver oncogene/suppressor gene mutations, accompanied by passenger mutations and underlying genomic instability. To understand cancer biology, a unifyi...


    pub_type: 杂志文章


    authors: Ahn SB,Mohamedali A,Pascovici D,Adhikari S,Sharma S,Nice EC,Baker MS

    更新日期:2019-11-01 00:00:00

  • Infrared-assisted proteolysis using trypsin-immobilized silica microspheres for peptide mapping.

    abstract::A novel proteolysis approach was developed by using infrared (IR) radiation and trypsin-immobilized silica microspheres. Protein solutions containing trypsin-immobilized microspheres in sealed transparent Eppendorf tubes were allowed to digest under an IR lamp at 37 degrees C. The feasibility and performance of the pr...


    pub_type: 杂志文章


    authors: Bao H,Lui T,Zhang L,Chen G

    更新日期:2009-02-01 00:00:00

  • Proteomics of drug resistance in Candida glabrata biofilms.

    abstract::Candida glabrata is a fungal pathogen that causes a variety of mucosal and systemic infections among compromised patient populations with higher mortality rates. Previous studies have shown that biofilm mode of the growth of the fungus is highly resistant to antifungal agents compared with the free-floating or plankto...


    pub_type: 杂志文章


    authors: Seneviratne CJ,Wang Y,Jin L,Abiko Y,Samaranayake LP

    更新日期:2010-04-01 00:00:00

  • Proteome analysis of functionally differentiated bovine (Bos indicus) mammary epithelial cells isolated from milk.

    abstract::Mammary gland is made up of a branching network of ducts that end in alveoli. Terminally differentiated mammary epithelial cells (MECs) constitute the innermost layer of aveoli. They are milk-secreting cuboidal cells that secrete milk proteins during lactation. Little is known about the expression profile of proteins ...


    pub_type: 杂志文章


    authors: Janjanam J,Jamwal M,Singh S,Kumar S,Panigrahi AK,Hariprasad G,Jena MK,Anand V,Kumar S,Kaushik JK,Dang AK,Mukesh M,Mishra BP,Srinivasan A,Reddy VS,Mohanty AK

    更新日期:2013-11-01 00:00:00

  • Approaches for the quantification of protein concentration ratios.

    abstract::The function of a protein is modulated by its abundance and its degree of specific post-translational modifications such as phosphorylation, glycosylation or truncation. Consequently, changes of protein concentration and the extent of their post-translational modifications has a great influence on the activity of intr...


    pub_type: 杂志文章,评审


    authors: Moritz B,Meyer HE

    更新日期:2003-11-01 00:00:00

  • An innovative standard for LC-MS-based HCP-profiling and accurate quantity assessment: Application to batch consistency in viral vaccine samples.

    abstract::Biotherapeutics, molecules produced from biological systems, require rigorous purification steps to remove impurities including host cell proteins (HCPs). Regulatory guidelines require manufacturers to monitor process-related impurities along the purification workflow. Mass spectrometry (MS) has recently been consider...


    pub_type: 杂志文章


    authors: Trauchessec M,Hesse AM,Kraut A,Berard Y,Herment L,Fortin T,Bruley C,Ferro M,Manin C

    更新日期:2021-01-18 00:00:00

  • An improved method to unravel phosphoacceptors in Ser/Thr protein kinase-phosphorylated substrates.

    abstract::Identification of the phosphorylated residues of bacterial Ser/Thr protein kinase (STPK) substrates still represents a challenging task. Herein, we present a new strategy allowing the rapid determination of phosphoacceptors in kinase substrates, essentially based on the dual expression of the kinase with its substrate...


    pub_type: 杂志文章


    authors: Molle V,Leiba J,Zanella-Cléon I,Becchi M,Kremer L

    更新日期:2010-11-01 00:00:00

  • Metabolomics Integrated with Transcriptomics Reveals a Subtle Liver Metabolic Risk in Dairy Cows Fed Different Crop By-products.

    abstract::Ruminants make large contributions to sustainable agriculture by converting crop by-products into agricultural food. Multi-omics integrative analysis helps to uncover the underlying molecular mechanisms. The liver metabolome-transcriptome interface (LMTI) in dairy cows, including 3938 significant correlations (p < 0.0...


    pub_type: 杂志文章


    authors: Sun HZ,Wang DM,Liu HY,Liu JX

    更新日期:2018-08-01 00:00:00

  • Characterization of the human urine proteome by preparative electrophoresis in combination with 2-DE.

    abstract::The protein components of urine are useful indicators of renal function and human health in general. Urine samples are easily attainable making them ideal substrates for biomarker research. Analysis of the urine proteome however, has been hindered by the great variability of the urine specimens, and the presence of va...


    pub_type: 杂志文章


    authors: Zerefos PG,Vougas K,Dimitraki P,Kossida S,Petrolekas A,Stravodimos K,Giannopoulos A,Fountoulakis M,Vlahou A

    更新日期:2006-08-01 00:00:00

  • Tyrosine 656 in topoisomerase IIβ is important for the catalytic activity of the enzyme: Identification based on artifactual +80-Da modification at this site.

    abstract::Topoisomerase (topo) II catalyzes topological changes in DNA. Although both human isozymes, topo IIα and β are phosphorylated, site-specific phosphorylation of topo IIβ is poorly characterized. Using LC-MS/MS analysis of topo IIβ, cleaved with trypsin, Arg C or cyanogen bromide (CNBr) plus trypsin, we detected four +8...


    pub_type: 杂志文章


    authors: Grozav AG,Willard BB,Kozuki T,Chikamori K,Micluta MA,Petrescu AJ,Kinter M,Ganapathi R,Ganapathi MK

    更新日期:2011-03-01 00:00:00

  • Proteome of synaptosome-associated proteins in spinal cord dorsal horn after peripheral nerve injury.

    abstract::Peripheral nerve injury may lead to neuroadaptive changes of cellular signals in spinal cord that are thought to contribute to central mechanisms underlying neuropathic pain. Here we used a 2-DE-based proteomic technique to determine the global expression changes of synaptosome-associated proteins in spinal cord dorsa...


    pub_type: 杂志文章


    authors: Singh OV,Yaster M,Xu JT,Guan Y,Guan X,Dharmarajan AM,Raja SN,Zeitlin PL,Tao YX

    更新日期:2009-03-01 00:00:00

  • NetPhosBac - a predictor for Ser/Thr phosphorylation sites in bacterial proteins.

    abstract::There is ample evidence for the involvement of protein phosphorylation on serine/threonine/tyrosine in bacterial signaling and regulation, but very few exact phosphorylation sites have been experimentally determined. Recently, gel-free high accuracy MS studies reported over 150 phosphorylation sites in two bacterial m...


    pub_type: 杂志文章


    authors: Miller ML,Soufi B,Jers C,Blom N,Macek B,Mijakovic I

    更新日期:2009-01-01 00:00:00

  • Sociomics: CESAGen Multidisciplinary Workshop on the Transformation of Knowledge Production in the Biosciences, and its Consequences. 23-24 July, 2007 Wellcome Trust Genome Campus, Hinxton, UK.

    abstract::On 23 and 24 July, 2007, the Centre for Economic and Social Aspects of Genomics (CESAGen) held its first sociomics workshop at the Wellcome Trust Genome Campus, Hinxton, UK. The topic was transformation of knowledge production. Participants included social scientists together with those working on different elements o...




    authors: McNally R

    更新日期:2008-01-01 00:00:00

  • Peroxisomal proteomics, a new tool for risk assessment of peroxisome proliferating pollutants in the marine environment.

    abstract::In an attempt to improve the detection of peroxisome proliferation as a biomarker in environmental pollution assessment, we have applied a novel approach based on peroxisomal proteomics. Peroxisomal proteins from digestive glands of mussels Mytilus galloprovincialis were analyzed using 2-DE and MS. We have generated a...


    pub_type: 杂志文章


    authors: Mi J,Orbea A,Syme N,Ahmed M,Cajaraville MP,Cristóbal S

    更新日期:2005-10-01 00:00:00

  • Protein extraction from plant tissues for 2DE and its application in proteomic analysis.

    abstract::Plant tissues contain large amounts of secondary compounds that significantly interfere with protein extraction and 2DE analysis. Thus, sample preparation is a crucial step prior to 2DE in plant proteomics. This tutorial highlights the guidelines that need to be followed to perform an adequate total protein extraction...


    pub_type: 杂志文章


    authors: Wu X,Gong F,Wang W

    更新日期:2014-03-01 00:00:00

  • A widespread picture of the Streptococcus thermophilus proteome by cell lysate fractionation and gel-based/gel-free approaches.

    abstract::Among the group of lactic acid bacteria, Streptococcus thermophilus has found a wide application in industrial processes used for the manufacture of dairy products. Taking advantage of different proteome extraction and subfractionation protocols, bacterial cytosolic and membrane proteins were isolated and resolved by ...


    pub_type: 杂志文章


    authors: Salzano AM,Arena S,Renzone G,D'Ambrosio C,Rullo R,Bruschi M,Ledda L,Maglione G,Candiano G,Ferrara L,Scaloni A

    更新日期:2007-05-01 00:00:00

  • Identification and characterization of highly expressed proteins in sperm cells of the marine mussel Mytilus edulis.

    abstract::Proteomic analysis on sperm has been restricted to only a few model organisms. We present here a 2DE PAGE proteome map of sperm cells from a nonmodel organism, the marine mussel Mytilus edulis, a free-spawning marine invertebrate with external fertilization. Ninety-six protein spots showing high expression were select...


    pub_type: 杂志文章


    authors: Diz AP,Dudley E,Skibinski DO

    更新日期:2012-06-01 00:00:00

  • RNAi Transfection Results in Lipidome Changes.

    abstract::RNAi experiments are ubiquitously used in cell biology and are achieved by transfection of small interfering RNAs (siRNAs) into cells using a transfection reagent. These results in knock-down of proteins of interest, and the phenotypic consequences are then analyzed. It is reported here that two common RNA interferenc...


    pub_type: 杂志文章


    authors: Özbalci C,Storck EM,Eggert US

    更新日期:2019-07-01 00:00:00

  • Proteomic study of cold shock protein in Bacillus stearothermophilus P1: Comparison of temperature downshifts.

    abstract::The thermophilic bacterium Bacillus stearothermophilus P1 is unique in its ability to thrive in extreme environments such as high temperatures or high pH conditions. The study of cold shock response is very interesting and interpreted as a shock response to express the genes involved in synthesis of specific proteins....


    pub_type: 杂志文章


    authors: Sinchaikul S,Sookkheo B,Phutrakul S,Pan FM,Chen ST

    更新日期:2002-09-01 00:00:00

  • Redox Proteomic Analysis Reveals Oxidative Modifications of Proteins by Increased Levels of Intracellular Reactive Oxygen Species during Hypoxia Adaptation of Aspergillus fumigatus.

    abstract::Aspergillus fumigatus faces abrupt changes in oxygen concentrations at the site of infection. An increasing number of studies has demonstrated that elevated production of intracellular reactive oxygen species (ROS) under low oxygen conditions plays a regulatory role in modulating cellular responses for adaptation to h...


    pub_type: 杂志文章


    authors: Shekhova E,Ivanova L,Krüger T,Stroe MC,Macheleidt J,Kniemeyer O,Brakhage AA

    更新日期:2019-03-01 00:00:00

  • Populus cathayana males are less affected than females by excess manganese: comparative proteomic and physiological analyses.

    abstract::The comprehension of sexually different responses in dioecious plants to excess manganese (Mn) stress requires molecular explanation. Physiological and proteomic changes in leaves of Populus cathayana males and females were analyzed after 4 wk of exposure to Mn stress. Under excess Mn conditions, shoot height and phot...


    pub_type: 杂志文章


    authors: Chen F,Zhang S,Zhu G,Korpelainen H,Li C

    更新日期:2013-08-01 00:00:00