Identification of tumor-associated plasma biomarkers using proteomic techniques: from mouse to human.

Abstract:

:In an effort to identify tumor-associated proteins from plasma of tumor-bearing mice that may be used as diagnostic biomarkers, we developed a strategy that combines a tumor xenotransplantation model in nude mice with comparative proteomic technology. Five human cancer cell lines (SC-M1, HONE-1, CC-M1, OECM1, GBM 8401) derived from stomach, nasopharyngeal, colon, oral and brain cancers were subcutaneously inoculated into nude mice and compared to control nude mice injected with phosphate-buffered saline. One month later, plasma from mice inoculated with cancer cells was collected for proteomic analysis using two-dimensional gel electrophoresis (2-DE) and mass spectrometry (MS). Comparison of plasma 2-DE maps from tumor-bearing mice with those produced from control mice revealed the overexpression of several mouse acute phase proteins (APPs) such as haptoglobin. Another APP, serum amyloid A (SAA), was found only in mice bearing tumors induced by the stomach cancer cell line SC-M1, which has not previously been demonstrated in xenotransplatation experiment. Furthermore, by using immunohistochemistry, SAA and haptoglobin were found to originate from the mouse hosts and not from the human cancer cell line donors. The protein alterations were further confirmed on patients with stomach cancers where up-regulated levels of SAA were also observed. These results indicate that APPs may be used as nonspecific tumor-associated serum markers. SAA in particular may serve as a potential marker for detecting stomach cancer. Taken together, the combination of the xenotransplatation model in nude mice and proteomics analysis provided a valuable impact for clinical applications in cancer diagnostics. In addition, our findings demonstrate that a panel of APPs might serve as screening biomarkers for early cancer detection.

journal_name

Proteomics

journal_title

Proteomics

authors

Juan HF,Chen JH,Hsu WT,Huang SC,Chen ST,Yi-Chung Lin J,Chang YW,Chiang CY,Wen LL,Chan DC,Liu YC,Chen YJ

doi

10.1002/pmic.200400785

subject

Has Abstract

pub_date

2004-09-01 00:00:00

pages

2766-75

issue

9

eissn

1615-9853

issn

1615-9861

journal_volume

4

pub_type

杂志文章
  • Identification of Arabidopsis salt and osmotic stress responsive proteins using two-dimensional difference gel electrophoresis and mass spectrometry.

    abstract::Arabidopsis thaliana cell suspension cultures have been used to investigate the effects of salinity and hyperosmotic stress on plant cellular proteins. We show that 200 mM NaCl and 400 mM sorbitol treatments induce extracellular medium acidification in Arabidopsis cell cultures, a typical response of plant cells to sa...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200401282

    authors: Ndimba BK,Chivasa S,Simon WJ,Slabas AR

    更新日期:2005-11-01 00:00:00

  • Proteomic Analysis of Endothelial Cells Exposed to Ultrasmall Nanoparticles Reveals Disruption in Paracellular and Transcellular Transport.

    abstract::The large interactive surfaces of nanoparticles (NPs) increase the opportunities to develop NPs for vascular targeting. Proteomic analysis of endothelial cells exposed to NPs reveals the cellular response and turns the focus into the impairment of the endothelial permeability. Here, quantitative proteomics and transcr...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.201800228

    authors: Kuruvilla J,Bayat N,Cristobal S

    更新日期:2019-03-01 00:00:00

  • Identification of the degradome of Isp-1, a major intracellular serine protease of Bacillus subtilis, by two-dimensional gel electrophoresis and matrix- assisted laser desorption/ionization-time of flight analysis.

    abstract::Intracellular serine protease-1 (Isp-1) is a major intracellular serine protease of Bacillus subtilis, whose functions still remain largely unknown. Furthermore, physiological substrates are yet to be determined. To identify Isp-1 substrates, we digested extract obtained from an Isp-1 deficient Bacillus mutant with pu...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200400997

    authors: Lee AY,Goo Park S,Kho CW,Young Park S,Cho S,Lee SC,Lee DH,Myung PK,Park BC

    更新日期:2004-11-01 00:00:00

  • Selective and sensitive quantification of the cytochrome P450 3A4 protein in human liver homogenates through multiple reaction monitoring mass spectrometry.

    abstract::This study aimed at establishing a sensitive multiple reaction monitoring-mass spectrometry (MRM-MS) method for the quantification of the drug metabolizing cytochrome P450 (CYP)3A4 enzyme in human liver homogenates. Liver samples were subjected to trypsin digestion. MRM-MS analyses were performed using three transitio...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.201500386

    authors: Cieślak A,Kelly I,Trottier J,Verreault M,Wunsch E,Milkiewicz P,Poirier G,Droit A,Barbier O

    更新日期:2016-11-01 00:00:00

  • Proteome analysis of a human uveal melanoma primary cell culture by 2-DE and MS.

    abstract::We present here the first proteomics analysis of uveal melanoma (UM) cells. These cells represent a good model for the identification of polypeptide markers, which could be developed as diagnostic tools. UM is the most common primary intraocular tumour in adults. In contrast to other cancers, the survival rate of pati...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200500030

    authors: Pardo M,García A,Thomas B,Piñeiro A,Akoulitchev A,Dwek RA,Zitzmann N

    更新日期:2005-12-01 00:00:00

  • Proteome analysis of human hepatocellular carcinoma tissues by two-dimensional difference gel electrophoresis and mass spectrometry.

    abstract::Proteome analysis of human hepatocellular carcinoma tissues was conducted using two-dimensional difference gel electrophoresis coupled with mass spectrometry. Paired samples from the normal and tumor region of resected human liver were labeled with Cy3 and Cy5, respectively while the pooled standard sample was labeled...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200401256

    authors: Liang CR,Leow CK,Neo JC,Tan GS,Lo SL,Lim JW,Seow TK,Lai PB,Chung MC

    更新日期:2005-05-01 00:00:00

  • RADARS, a bioinformatics solution that automates proteome mass spectral analysis, optimises protein identification, and archives data in a relational database.

    abstract::RADARS, a rapid, automated, data archiving and retrieval software system for high-throughput proteomic mass spectral data processing and storage, is described. The majority of mass spectrometer data files are compatible with RADARS, for consistent processing. The system automatically takes unprocessed data files, iden...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:

    authors: Field HI,Fenyö D,Beavis RC

    更新日期:2002-01-01 00:00:00

  • Descriptive proteomic analysis shows protein variability between closely related clinical isolates of Mycobacterium tuberculosis.

    abstract::The use of isobaric tags such as iTRAQ allows the relative and absolute quantification of hundreds of proteins in a single experiment for up to eight different samples. More classical techniques such as 2-DE can offer a complimentary approach for the analysis of complex protein samples. In this study, the proteomes of...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200900836

    authors: Mehaffy C,Hess A,Prenni JE,Mathema B,Kreiswirth B,Dobos KM

    更新日期:2010-05-01 00:00:00

  • Popitam: towards new heuristic strategies to improve protein identification from tandem mass spectrometry data.

    abstract::In recent years, proteomics research has gained importance due to increasingly powerful techniques in protein purification, mass spectrometry and identification, and due to the development of extensive protein and DNA databases from various organisms. Nevertheless, current identification methods from spectrometric dat...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200300402

    authors: Hernandez P,Gras R,Frey J,Appel RD

    更新日期:2003-06-01 00:00:00

  • Albumin depletion of human plasma also removes low abundance proteins including the cytokines.

    abstract::The use of proteomics for efficient, accurate, and complete analysis of clinical samples poses a variety of technical challenges. The presence of higher abundance proteins in the plasma, such as albumin, may mask the detection of lower abundance proteins such as the cytokines. Methods have been proposed to deplete the...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200401331

    authors: Granger J,Siddiqui J,Copeland S,Remick D

    更新日期:2005-12-01 00:00:00

  • Experimental annotation of channel catfish virus by probabilistic proteogenomic mapping.

    abstract::Experimental identification of expressed proteins by proteomics constitutes the most reliable approach to identify genomic location and structure of protein-coding genes and substantially complements computational genome annotation. Channel catfish herpesvirus (CCV) is a simple comparative model for understanding herp...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200800397

    authors: Kunec D,Nanduri B,Burgess SC

    更新日期:2009-05-01 00:00:00

  • Unrestricted identification of modified proteins using MS/MS.

    abstract::Proteins undergo PTM, which modulates their structure and regulates their function. Estimates of the PTM occurrence vary but it is safe to assume that there is an important gap between what is currently known and what remains to be discovered. The highest throughput and most comprehensive efforts to catalogue protein ...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200900502

    authors: Ahrné E,Müller M,Lisacek F

    更新日期:2010-02-01 00:00:00

  • Identification and characterization of a cell surface protein of Prevotella intermedia 17 with broad-spectrum binding activity for extracellular matrix proteins.

    abstract::Prevotella intermedia binds and invades a variety of host cells. This binding is most probably mediated through cell surface proteins termed adhesins. To identify proteins binding to the host extracellular matrix (ECM) component, fibronectin, and study the molecular mechanism underlying bacterial colonization, we appl...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200600177

    authors: Yu F,Iyer D,Anaya C,Lewis JP

    更新日期:2006-11-01 00:00:00

  • Plant-Microbe Symbiosis: What Has Proteomics Taught Us?

    abstract::Beneficial microbes have a positive impact on the productivity and fitness of the host plant. A better understanding of the biological impacts and underlying mechanisms by which the host derives these benefits will help to address concerns around global food production and security. The recent development of omics-bas...

    journal_title:Proteomics

    pub_type: 杂志文章,评审

    doi:10.1002/pmic.201800105

    authors: Khatabi B,Gharechahi J,Ghaffari MR,Liu D,Haynes PA,McKay MJ,Mirzaei M,Salekdeh GH

    更新日期:2019-08-01 00:00:00

  • Proteomic analysis of ligamentum flavum from patients with lumbar spinal stenosis.

    abstract::Lumbar spinal stenosis (LSS) is a syndromic degenerative spinal disease and is characterized by spinal canal narrowing with subsequent neural compression causing gait disturbances. Although LSS is a major age-related musculoskeletal disease that causes large decreases in the daily living activities of the elderly, its...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.201400442

    authors: Kamita M,Mori T,Sakai Y,Ito S,Gomi M,Miyamoto Y,Harada A,Niida S,Yamada T,Watanabe K,Ono M

    更新日期:2015-05-01 00:00:00

  • Proteomic analysis of liver tissue from HBx-transgenic mice at early stages of hepatocarcinogenesis.

    abstract::The hepatitis B virus X-protein (HBx), a multifunctional viral regulator, participates in the viral life cycle and in the development of hepatocellular carcinoma (HCC). We previously reported a high incidence of HCC in transgenic mice expressing HBx. In this study, proteomic analysis was performed to identify proteins...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200800779

    authors: Kim SY,Lee PY,Shin HJ,Kim DH,Kang S,Moon HB,Kang SW,Kim JM,Park SG,Park BC,Yu DY,Bae KH,Lee SC

    更新日期:2009-11-01 00:00:00

  • Profiling MS proteomics data using smoothed non-linear energy operator and Bayesian additive regression trees.

    abstract::This paper proposes a novel profiling method for SELDI-TOF and MALDI-TOF MS data that integrates a novel peak detection method based on modified smoothed non-linear energy operator, correlation-based peak selection and Bayesian additive regression trees. The peak detection and classification performance of the propose...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200800502

    authors: He S,Li X,Viant MR,Yao X

    更新日期:2009-09-01 00:00:00

  • Development of immobilized Sn4+ affinity chromatography material for highly selective enrichment of phosphopeptides.

    abstract::In this work, we first immobilized tin(IV) ion on polydopamine-coated magnetic graphene (magG@PDA) to synthesize Sn4+ -immobilized magG@PDA (magG@PDA-Sn4+ ) and successfully applied the material to highly selective enrichment of phosphopeptides. The material gathered the advantages of large surface area of graphene, s...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.201600187

    authors: Lin H,Deng C

    更新日期:2016-11-01 00:00:00

  • Secretome Analysis of Hypoxia-Induced 3T3-L1 Adipocytes Uncovers Novel Proteins Potentially Involved in Obesity.

    abstract::In the obese state, as adipose tissue expands, adipocytes become hypoxic and dysfunctional, leading to changes in the pattern of adipocyte-secreted proteins. To better understand the role of hypoxia in the mechanisms linked to obesity, we comparatively analyzed the secretome of murine differentiated 3T3-L1 adipocytes ...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.201700260

    authors: Laria AE,Messineo S,Arcidiacono B,Varano M,Chiefari E,Semple RK,Rocha N,Russo D,Cuda G,Gaspari M,Brunetti A,Foti DP

    更新日期:2018-04-01 00:00:00

  • Identification of caspase-3 degradome by two-dimensional gel electrophoresis and matrix-assisted laser desorption/ionization-time of flight analysis.

    abstract::The activation of caspases is a critical event for the execution phase of programmed cell death. Caspases are highly specific in their ability to activate or inhibit many crucial proteins in the cell via site-specific cleavage. To date, more than 60 proteins have been shown to be substrates of one or more caspases in ...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200400979

    authors: Lee AY,Park BC,Jang M,Cho S,Lee DH,Lee SC,Myung PK,Park SG

    更新日期:2004-11-01 00:00:00

  • Proteome and phosphoproteome analysis of chromatin associated proteins in rice (Oryza sativa).

    abstract::The eukaryotic chromatin/chromosome stores genomic information, controls genetic material distribution, and plays an essential role in the establishment and maintenance of spatial and temporal gene expression profile. Despite over a century of research, the protein composition and higher level structure of chromatin s...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200700580

    authors: Tan F,Li G,Chitteti BR,Peng Z

    更新日期:2007-12-01 00:00:00

  • Differential accumulation of Lhcb gene products in thylakoid membranes of Zea mays plants grown under contrasting light and temperature conditions.

    abstract::In higher plants many different genes encode Lhcb proteins that belong to a highly conserved protein family. Evolutionary conservation of this genetic redundancy suggests that individual gene products play different roles in light harvesting and photoprotection depending on environmental conditions. We have tested the...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200402008

    authors: Caffarri S,Frigerio S,Olivieri E,Righetti PG,Bassi R

    更新日期:2005-02-01 00:00:00

  • Insights from Proteomic Studies into Plant Somatic Embryogenesis.

    abstract::Somatic embryogenesis is a biotechnological approach mainly used for the clonal propagation of different plants worldwide. In somatic embryogenesis, embryos arise from somatic cells under appropriate culture conditions. This plasticity in plants is a demonstration of true cellular totipotency and is the best approach ...

    journal_title:Proteomics

    pub_type: 杂志文章,评审

    doi:10.1002/pmic.201700265

    authors: Heringer AS,Santa-Catarina C,Silveira V

    更新日期:2018-03-01 00:00:00

  • Proteomic techniques to probe the ubiquitin landscape.

    abstract::Protein ubiquitination is a powerful modulator of cellular functions. Classically linked to the degradation of proteins, it also plays a role in intracellular localization, DNA damage response, vesicle fusion events, and the immune and transcriptional responses. Ubiquitin is versatile and can code for several distinct...

    journal_title:Proteomics

    pub_type: 杂志文章,评审

    doi:10.1002/pmic.201500290

    authors: Beaudette P,Popp O,Dittmar G

    更新日期:2016-01-01 00:00:00

  • Subproteomics: identification of plasma membrane proteins from the yeast Saccharomyces cerevisiae.

    abstract::As a consequence of their poor solubility during isoelectric focusing, integral membrane proteins are generally absent from two-dimensional gel proteome maps. In order to analyze the yeast plasma membrane proteome, a plasma membrane purification protocol was optimized in order to reduce contaminating membranes and cyt...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/1615-9861(200212)2:12<1706::AID-PROT1706>3

    authors: Navarre C,Degand H,Bennett KL,Crawford JS,Mørtz E,Boutry M

    更新日期:2002-12-01 00:00:00

  • Close proximity of phosphorylation sites to ligand in the phosphoproteome of the extreme thermophile Thermus thermophilus HB8.

    abstract::We performed phosphoproteome analysis of proteins from the extremely thermophilic Gram-negative eubacterium Thermus thermophilus HB8 using gel-free mass spectrometric method. We identified 52 phosphopeptides from 48 proteins and determined 46 phosphorylation sites: 30 on serine, 12 on threonine, and 4 on tyrosine. The...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.201100573

    authors: Takahata Y,Inoue M,Kim K,Iio Y,Miyamoto M,Masui R,Ishihama Y,Kuramitsu S

    更新日期:2012-05-01 00:00:00

  • Improved proteome coverage by using high efficiency cysteinyl peptide enrichment: the human mammary epithelial cell proteome.

    abstract::Automated multidimensional capillary liquid chromatography-tandem mass spectrometry (LC-MS/MS) has been increasingly applied in various large scale proteome profiling efforts. However, comprehensive global proteome analysis remains technically challenging due to issues associated with sample complexity and dynamic ran...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200401055

    authors: Liu T,Qian WJ,Chen WN,Jacobs JM,Moore RJ,Anderson DJ,Gritsenko MA,Monroe ME,Thrall BD,Camp DG 2nd,Smith RD

    更新日期:2005-04-01 00:00:00

  • Protein pattern of exhaled breath condensate and saliva.

    abstract::The proteins recovered in exhaled breath condensate (EBC) might be used to non-invasively monitor respiratory diseases. However, the range of proteins and their source are still unresolved and contamination by saliva or a similar protein pattern in the nasal and bronchial compartments may make interpretation of the da...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/1615-9861(200206)2:6<690::AID-PROT690>3.0.

    authors: Griese M,Noss J,von Bredow C

    更新日期:2002-06-01 00:00:00

  • Do we want our data raw? Including binary mass spectrometry data in public proteomics data repositories.

    abstract::With the human Plasma Proteome Project (PPP) pilot phase completed, the largest and most ambitious proteomics experiment to date has reached its first milestone. The correspondingly impressive amount of data that came from this pilot project emphasized the need for a centralized dissemination mechanism and led to the ...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200401302

    authors: Martens L,Nesvizhskii AI,Hermjakob H,Adamski M,Omenn GS,Vandekerckhove J,Gevaert K

    更新日期:2005-08-01 00:00:00

  • Tissue Molecular Anatomy Project (TMAP): an expression database for comparative cancer proteomics.

    abstract::By mining publicly accessible databases, we have developed a collection of tissue-specific predictive protein expression maps as a function of cancer histological state. Data analysis is applied to the differential expression of gene products in pooled libraries from the normal to the altered state(s). We wish to repo...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200300488

    authors: Medjahed D,Luke BT,Tontesh TS,Smythers GW,Munroe DJ,Lemkin PF

    更新日期:2003-08-01 00:00:00