Radioresistance-related proteins in rectal cancer.

Abstract:

:Radiation therapy (RT), combined with chemotherapy, is currently the standard adjuvant approach for UICC-stage II and III rectal cancer patients. Individual rectal tumors display wide ranges of radiosensitivity (RS). The aim of the present study was to identify proteins associated with radioresistance (RR), with the final aim of predicting tumor response. Seventeen patients were recruited between July 1998 and November 2001. All patients suffered from a locally advanced adenocarcinoma of the rectum. Tumor biopsies were taken before RT. All patients received preoperatively 50 Gray or a biologically equivalent total dose. Surgery was performed after 6 weeks, and response assessed histopathologically. Seven tumors showed complete response, seven a partial response, and in three patients only microscopic disease remained. Proteins were separated using narrow pH gradient two-dimensional polyacrylamide gel electrophoresis and silver staining. Automatic gel comparison allowed matching a mean number of 497 +/- 280 spots. Forty-four spots showing significant differential expression in RR tumors were localized on the pH 4.5-5.5 gels, 33 out of them being identified by matrix-assisted laser desorption/ionization-time of flight mass spectrometry. Twenty-two out of 37 spots of interest could be identified on the pH 5.5-6.7 gels. The expression of the following proteins correlates with RR: tropomodulin (p = 0.01), heat shock protein 42 (p = 0.03), beta-tubulin (p = 0.10), annexin V (p = 0.10), calsenilin (p = 0.10), or with radiosensitivity (RS): keratin type I (p = 0.03), notch 2 protein homolog (p = 0.05) and DNA repair protein RAD51L3 (p = 0.11). A further RR-related protein is so far only hypothetical: XP_030188 (NCBI Database accession number, p = 0.14). We consider the fact that several of these proteins of interest are known to be associated with RR as a valid proof of principle for this proteomics approach. These results will serve as a basis for developing an assay for testing rectal cancers for radioresistance.

journal_name

Proteomics

journal_title

Proteomics

authors

Allal AS,Kähne T,Reverdin AK,Lippert H,Schlegel W,Reymond MA

doi

10.1002/pmic.200300854

subject

Has Abstract

pub_date

2004-08-01 00:00:00

pages

2261-9

issue

8

eissn

1615-9853

issn

1615-9861

journal_volume

4

pub_type

杂志文章
  • Design and analysis issues in quantitative proteomics studies.

    abstract::Quantitative proteomics is the comparison of distinct proteomes which enables the identification of protein species which exhibit changes in expression or post-translational state in response to a given stimulus. Many different quantitative techniques are being utilized and generate large datasets. Independent of the ...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200700683

    authors: Karp NA,Lilley KS

    更新日期:2007-09-01 00:00:00

  • In macropore tryptic digestion at acidic pH and its implication for proteomics.

    abstract::Gan et al. (Proteomics 2013, 13, 3117-3123) described a new "macropore" protocol for effective protein digestion by trypsin suitable for a wide range of pH including acidic pH. It was effective not only in experiments with solutions of a model protein (myoglobin), but also with a subfraction of rat liver cytosol. This...

    journal_title:Proteomics

    pub_type: 评论,杂志文章

    doi:10.1002/pmic.201300440

    authors: Medvedev AE

    更新日期:2013-11-01 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...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.201800298

    authors: Özbalci C,Storck EM,Eggert US

    更新日期:2019-07-01 00:00:00

  • SecProMTB: Support Vector Machine-Based Classifier for Secretory Proteins Using Imbalanced Data Sets Applied to Mycobacterium tuberculosis.

    abstract::Secretory proteins of Mycobacterium tuberculosis have created more concern, given their dominant immunogenicity and role in pathogenesis. In view of expensive and time-consuming traditional biochemical experiments, an advanced support vector machine model named SecProMTB is constructed in this study and the proteins a...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.201900007

    authors: Meng C,Wei L,Zou Q

    更新日期:2019-09-01 00:00:00

  • Identification of ciliary neurotrophic factor receptor alpha as a mediator of neurotoxicity induced by alpha-synuclein.

    abstract::Accumulating evidence suggests that extracellular alpha-synuclein (eSNCA) plays an important role in the pathogenesis of Parkinson's disease or related synucleinopathies by inducing neurotoxicity directly or indirectly via microglial or astroglial activation. However, the mechanisms by which this occurs remain to be c...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200900745

    authors: Liu J,Shi M,Hong Z,Zhang J,Bradner J,Quinn T,Beyer RP,Mcgeer PL,Chen S,Zhang J

    更新日期:2010-06-01 00:00:00

  • The ROP2 family of Toxoplasma gondii rhoptry proteins: proteomic and genomic characterization and molecular modeling.

    abstract::Four rhoptry proteins (ROP) of Toxoplasma gondii previously identified with mAb have been affinity purified and analyzed by MS; the data obtained allowed the genomic sequences to be assigned to these proteins. As previously suggested for some of them by antibody crossreactivity, these proteins were shown to belong to ...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200600187

    authors: El Hajj H,Demey E,Poncet J,Lebrun M,Wu B,Galéotti N,Fourmaux MN,Mercereau-Puijalon O,Vial H,Labesse G,Dubremetz JF

    更新日期:2006-11-01 00:00:00

  • Proteins unique to intraphagosomally grown Mycobacterium tuberculosis.

    abstract::Pathogenic mycobacteria persist and replicate within phagosomes of host phagocytes by inhibiting phagosome maturation at an early endosome stage. The molecular basis for this behavior is not understood. To identify proteins of Mycobacterium tuberculosis unique to the intraphagosomal phase, mycobacteria were purified f...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200500547

    authors: Mattow J,Siejak F,Hagens K,Becher D,Albrecht D,Krah A,Schmidt F,Jungblut PR,Kaufmann SH,Schaible UE

    更新日期:2006-04-01 00:00:00

  • Queries of MALDI-imaging global datasets identifying ion mass signatures associated with tissue compartments.

    abstract::Scanning MS by MALDI MS imaging (MALDI-MSI) creates large volumetric global datasets that describe the location and identity of ions registered at each sampling location. While thousands of ion peaks are recorded in a typical whole-tissue analysis, only a fraction of these measured molecules are purposefully scrutiniz...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.201300431

    authors: Fehniger TE,Suits F,Végvári Á,Horvatovich P,Foster M,Marko-Varga G

    更新日期:2014-04-01 00:00:00

  • SWATH-MS as a tool for biomarker discovery: From basic research to clinical applications.

    abstract::In the era of quantitative proteomics, where mass spectrometry plays a pivotal role, in particular associated with the use of data-independent acquisition, it is time to perform an overview of this growing field with special focus on one of the most promising approaches: SWATH-MS, and to present future perspectives fo...

    journal_title:Proteomics

    pub_type: 杂志文章,评审

    doi:10.1002/pmic.201600278

    authors: Anjo SI,Santa C,Manadas B

    更新日期:2017-02-01 00:00:00

  • Proteomic analysis of the maternal protein restriction rat model for schizophrenia: identification of translational changes in hormonal signaling pathways and glutamate neurotransmission.

    abstract::Previous studies have found that some first onset schizophrenia patients show signs of impaired insulin signaling. Also, epidemiological studies have shown that periods of suboptimal nutrition including protein deficiencies during pregnancy can lead to increased incidence of metabolic conditions and psychiatric disord...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.201200376

    authors: Guest PC,Urday S,Ma D,Stelzhammer V,Harris LW,Amess B,Pietsch S,Oheim C,Ozanne SE,Bahn S

    更新日期:2012-12-01 00:00:00

  • Revisiting the identification of canonical splice isoforms through integration of functional genomics and proteomics evidence.

    abstract::Canonical isoforms in different databases have been defined as the most prevalent, most conserved, most expressed, longest, or the one with the clearest description of domains or posttranslational modifications. In this article, we revisit these definitions of canonical isoforms based on functional genomics and proteo...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.201400170

    authors: Li HD,Menon R,Omenn GS,Guan Y

    更新日期:2014-12-01 00:00:00

  • Maize (Zea mays L.) seedling leaf nuclear proteome and differentially expressed proteins between a hybrid and its parental lines.

    abstract::To better understand the underlying molecular basis of leaf development in maize, a reference map of nuclear proteins in basal region of seedling leaf was established using a combination of 2DE and MALDI-TOF-MS. In total, 441 reproducible protein spots in nuclear proteome of maize leaf basal region were detected with ...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.201300147

    authors: Guo B,Chen Y,Li C,Wang T,Wang R,Wang B,Hu S,Du X,Xing H,Song X,Yao Y,Sun Q,Ni Z

    更新日期:2014-05-01 00:00:00

  • Heterogeneous data integration by tree-augmented naïve Bayes for protein-protein interactions prediction.

    abstract::Most proteins execute their functions through interacting with other proteins. Thus, understanding protein-protein interactions (PPIs) is essential to decipher biological functions in a living cell. To predict large-scale PPIs, effective and efficient computational approaches are desirable to integrate heterogeneous d...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.201200326

    authors: Lin X,Chen XW

    更新日期:2013-01-01 00:00:00

  • Determination of the site-specific and isoform-specific glycosylation in human plasma-derived antithrombin by IEF and capillary HPLC-ESI-MS/MS.

    abstract::The glycan structures of the major and more than ten minor populated isoforms of antithrombin (AT) were determined after separation of the isoforms by IEF using IPG strips. The bands excised from the gel were reduced, derivatized by iodoacetamide and submitted to tryptic digestion. The digest was analyzed by RP-HPLC-E...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200401238

    authors: Plematl A,Demelbauer UM,Josic D,Rizzi A

    更新日期:2005-10-01 00:00:00

  • How to distinguish healthy from diseased? Classification strategy for mass spectrometry-based clinical proteomics.

    abstract::SELDI-TOF-MS is rapidly gaining popularity as a screening tool for clinical applications of proteomics. Application of adequate statistical techniques in all the stages from measurement to information is obligatory. One of the statistical methods often used in proteomics is classification: the assignment of subjects t...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200700046

    authors: Hendriks MM,Smit S,Akkermans WL,Reijmers TH,Eilers PH,Hoefsloot HC,Rubingh CM,de Koster CG,Aerts JM,Smilde AK

    更新日期:2007-10-01 00:00:00

  • Staphylococcus aureus ClpC ATPase is a late growth phase effector of metabolism and persistence.

    abstract::Staphylococcus aureus Clp ATPases (molecular chaperones) alter normal physiological functions including an aconitase-mediated effect on post-stationary growth, acetate catabolism, and entry into death phase (Chatterjee et al., J. Bacteriol. 2005, 187, 4488-4496). In the present study, the global function of ClpC in ph...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200800586

    authors: Chatterjee I,Schmitt S,Batzilla CF,Engelmann S,Keller A,Ring MW,Kautenburger R,Ziebuhr W,Hecker M,Preissner KT,Bischoff M,Proctor RA,Beck HP,Lenhof HP,Somerville GA,Herrmann M

    更新日期:2009-03-01 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...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.201300239

    authors: Wu X,Gong F,Wang W

    更新日期:2014-03-01 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 human nasal mucous proteins using proteomics.

    abstract::The determination of possible biomarkers in nasal secretion of healthy subjects can have a role in early diagnosis of diseases such as rhinosinusitis. For this purpose, nasal lavage fluids (NLFs) from ten volunteers, collected before and after they had been submitted to nasal provocations, were investigated. Separatio...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200401172

    authors: Casado B,Pannell LK,Iadarola P,Baraniuk JN

    更新日期:2005-07-01 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...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200900775

    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

  • 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...

    journal_title:Proteomics

    pub_type: 杂志文章,评审

    doi:10.1002/pmic.200300581

    authors: Moritz B,Meyer HE

    更新日期:2003-11-01 00:00:00

  • Identification and characterization of histatin 1 salivary complexes by using mass spectrometry.

    abstract::With recent progress in the analysis of the salivary proteome, the number of salivary proteins identified has increased dramatically. However, the physiological functions of many of the newly discovered proteins remain unclear. Closely related to the study of a protein's function is the identification of its interacti...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.201100665

    authors: Siqueira WL,Lee YH,Xiao Y,Held K,Wong W

    更新日期:2012-11-01 00:00:00

  • Proteome analysis of salt stress response in the cyanobacterium Synechocystis sp. strain PCC 6803.

    abstract::In the present study, changes in protein synthesis patterns after salt shock visualized by 35S-methionine labeling and the changed protein composition in salt-acclimated cells of the cyanobacterium Synechocystis sp. strain PCC 6803 were analyzed by a combination of 2-DE for protein separation and PMF for protein ident...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200500538

    authors: Fulda S,Mikkat S,Huang F,Huckauf J,Marin K,Norling B,Hagemann M

    更新日期:2006-05-01 00:00:00

  • A modular design of low-background bioassays based on a high-affinity molecular pair barstar:barnase.

    abstract::High-affinity molecular pairs provide a convenient and flexible modular base for the design of molecular probes and protein/antigen assays. Specificity and sensitivity performance indicators of a bioassay critically depend on the dissociation constant (K(D)) of the molecular pair, with avidin:biotin being the state-of...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.201200491

    authors: Sreenivasan VK,Kelf TA,Grebenik EA,Stremovskiy OA,Say JM,Rabeau JR,Zvyagin AV,Deyev SM

    更新日期:2013-05-01 00:00:00

  • The New Face of the Lipid Droplet: Lipid Droplet Proteins.

    abstract::The lipid droplet (LD) is an organelle with vital functions found in nearly all organisms. LD proteomic research has provided fundamentally important insights into this organelle's functions. The review provides a summary of LD proteomic studies conducted across diverse organisms and cell and tissue types. The accumul...

    journal_title:Proteomics

    pub_type: 杂志文章,评审

    doi:10.1002/pmic.201700223

    authors: Zhang C,Liu P

    更新日期:2019-05-01 00:00:00

  • Multiwell in-gel protein digestion and microscale sample preparation for protein identification by mass spectrometry.

    abstract::In-gel peptide digestion has become a widely used technique for characterizing proteins resolved by two-dimensional gel electrophoresis. Peptides generated from gel pieces are frequently contaminated with detergent and salts. Prior to matrix-assisted laser desorption/ionization-time of flight mass spectrometry analysi...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/1615-9861(200202)2:2<145::aid-prot145>3.0.

    authors: Pluskal MG,Bogdanova A,Lopez M,Gutierrez S,Pitt AM

    更新日期:2002-02-01 00:00:00

  • Autosomal Tubulointerstitial Kidney Disease-MUC1 Type: Differential Proteomics Suggests that Mutated MUC1 (insC) Affects Vesicular Transport in Renal Epithelial Cells.

    abstract::Autosomal dominant tubulointerstitial kidney disease associated to the MUC1 gene (ADTKD-MUC1; formerly MCKD1) belongs to a heterogeneous group of rare hereditary kidney diseases that is prototypically caused by frameshift mutations in the MUC1 repeat domain. The mutant MUC1 (insC) lacks the transmembrane domaine, exhi...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.201700456

    authors: Staubach S,Wenzel A,Beck BB,Rinschen MM,Müller S,Hanisch FG

    更新日期:2018-04-01 00:00:00

  • Comparative proteome and transcriptome analyses of embryonic stem cells during embryoid body-based differentiation.

    abstract::Gene expression analyses of embryonic stem cells (ESCs) will help to uncover or further define signaling pathways and molecular mechanisms involved in the maintenance of self-renewal and pluripotency. We employed a 2-DE-based proteomics approach to analyze human ESC line, Royan H5, in undifferentiated cells and differ...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200900003

    authors: Fathi A,Pakzad M,Taei A,Brink TC,Pirhaji L,Ruiz G,Sharif Tabe Bordbar M,Gourabi H,Adjaye J,Baharvand H,Salekdeh GH

    更新日期:2009-11-01 00:00:00

  • Efficiency improvement of peptide identification for an organism without complete genome sequence, using expressed sequence tag database and tandem mass spectral data.

    abstract::We compared peptide identification by database (DB) search methods with de novo sequencing results for proteomics study in an organism without genome sequence information. When the former was done by searching the Expressed Sequence Tag (EST) DB of the sample organism or the NCBI nonredundant (nr) protein DB of green ...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.200300620

    authors: Kwon KH,Kim M,Kim JY,Kim KW,Kim SI,Park YM,Yoo JS

    更新日期:2003-12-01 00:00:00

  • The Equine PeptideAtlas: a resource for developing proteomics-based veterinary research.

    abstract::Progress in MS-based methods for veterinary research and diagnostics is lagging behind compared to the human research, and proteome data of domestic animals is still not well represented in open source data repositories. This is particularly true for the equine species. Here we present a first Equine PeptideAtlas enco...

    journal_title:Proteomics

    pub_type: 杂志文章

    doi:10.1002/pmic.201300398

    authors: Bundgaard L,Jacobsen S,Sørensen MA,Sun Z,Deutsch EW,Moritz RL,Bendixen E

    更新日期:2014-03-01 00:00:00