Label-free mass spectrometry-based proteomics for biomarker discovery and validation (Q38012172)

27 August 2017

Label-free mass spectrometry-based proteomics for biomarker discovery and validation (English)

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27 August 2017

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4

Connie R Jimenez

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27 August 2017

2

Sander R Piersma

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27 August 2017

3

Gideon Oudgenoeg

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27 August 2017

Thang V Pham

1

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27 August 2017

1 May 2012

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Expert Review of Molecular Diagnostics: new diagnostic technologies are set to revolutionise healthcare

27 August 2017

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27 August 2017

12

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27 August 2017

343-359

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27 August 2017

4

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The path to clinical proteomics research: integration of proteomics, genomics, clinical laboratory and regulatory science

27 August 2017

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Protein biomarker discovery and validation: the long and uncertain path to clinical utility

21 January 2018

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Mining the plasma proteome for disease applications across seven logs of protein abundance.

21 January 2018

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Proteomics-driven cancer biomarker discovery: looking to the future.

21 January 2018

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Proteomics strategies for target identification and biomarker discovery in cancer.

21 January 2018

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On the development of plasma protein biomarkers

21 January 2018

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Quantitative, high-resolution proteomics for data-driven systems biology

21 January 2018

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Status and prospects for discovery and verification of new biomarkers of cardiovascular disease by proteomics

21 January 2018

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High recovery FASP applied to the proteomic analysis of microdissected formalin fixed paraffin embedded cancer tissues retrieves known colon cancer markers

21 January 2018

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Cancer biomarkers: a systems approach

21 January 2018

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Sources of bias in specimens for research about molecular markers for cancer

21 January 2018

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A targeted proteomics-based pipeline for verification of biomarkers in plasma

21 January 2018

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High-throughput and targeted in-depth mass spectrometry-based approaches for biofluid profiling and biomarker discovery

21 January 2018

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Less label, more free: approaches in label-free quantitative mass spectrometry.

21 January 2018

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Mass spectrometry-based proteomics turns quantitative

21 January 2018

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Quantitative mass spectrometry in proteomics: a critical review

21 January 2018

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Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics

21 January 2018

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Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents

21 January 2018

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Tandem Mass Tags: A Novel Quantification Strategy for Comparative Analysis of Complex Protein Mixtures by MS/MS

21 January 2018

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Stable-isotope dimethyl labeling for quantitative proteomics

21 January 2018

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Absolute quantification of proteins and phosphoproteins from cell lysates by tandem MS

21 January 2018

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Multiplexed absolute quantification in proteomics using artificial QCAT proteins of concatenated signature peptides

21 January 2018

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Workflow comparison for label-free, quantitative secretome proteomics for cancer biomarker discovery: method evaluation, differential analysis, and verification in serum

21 January 2018

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Subnuclear proteomics in colorectal cancer: identification of proteins enriched in the nuclear matrix fraction and regulation in adenoma to carcinoma progression.

21 January 2018

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Comparison of the performance of two affinity depletion spin filters for quantitative proteomics of CSF: Evaluation of sensitivity and reproducibility of CSF analysis using GeLC-MS/MS and spectral counting

21 January 2018

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Direct comparison of stable isotope labeling by amino acids in cell culture and spectral counting for quantitative proteomics.

21 January 2018

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A model for random sampling and estimation of relative protein abundance in shotgun proteomics

21 January 2018

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Comparison of label-free methods for quantifying human proteins by shotgun proteomics.

21 January 2018

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Comparison of stable-isotope labeling with amino acids in cell culture and spectral counting for relative quantification of protein expression.

21 January 2018

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A label-free quantification method by MS/MS TIC compared to SILAC and spectral counting in a proteomics screen

21 January 2018

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Label-free, normalized quantification of complex mass spectrometry data for proteomic analysis

21 January 2018

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A suite of algorithms for the comprehensive analysis of complex protein mixtures using high-resolution LC-MS.

21 January 2018

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SIMA: simultaneous multiple alignment of LC/MS peak lists

21 January 2018

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PEPPeR, a platform for experimental proteomic pattern recognition.

21 January 2018

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MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification

21 January 2018

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Protein quantification across hundreds of experimental conditions.

21 January 2018

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IDEAL-Q, an automated tool for label-free quantitation analysis using an efficient peptide alignment approach and spectral data validation

21 January 2018

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Quantitative proteomic analysis of distinct mammalian Mediator complexes using normalized spectral abundance factors

21 January 2018

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Refinements to label free proteome quantitation: how to deal with peptides shared by multiple proteins

21 January 2018

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Computational analysis of microarray data

21 January 2018

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On the beta-binomial model for analysis of spectral count data in label-free tandem mass spectrometry-based proteomics

21 January 2018

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A bayesian mixture model for comparative spectral count data in shotgun proteomics

21 January 2018

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Significance analysis of spectral count data in label-free shotgun proteomics

21 January 2018

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Statistical design of quantitative mass spectrometry-based proteomic experiments

21 January 2018

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Selected reaction monitoring for quantitative proteomics: a tutorial

21 January 2018

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Quantitative, multiplexed assays for low abundance proteins in plasma by targeted mass spectrometry and stable isotope dilution

21 January 2018

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Multi-site assessment of the precision and reproducibility of multiple reaction monitoring-based measurements of proteins in plasma

21 January 2018

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Selected reaction monitoring (SRM) mass spectrometry without isotope labeling can be used for rapid protein quantification

21 January 2018

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Use of selected reaction monitoring data for label-free quantification of protein modification stoichiometry

21 January 2018

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Targeted proteomics by selected reaction monitoring mass spectrometry: applications to systems biology and biomarker discovery

21 January 2018

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Perspectives of targeted mass spectrometry for protein biomarker verification

21 January 2018

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Skyline: an open source document editor for creating and analyzing targeted proteomics experiments

21 January 2018

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Rapid empirical discovery of optimal peptides for targeted proteomics

21 January 2018

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Full dynamic range proteome analysis of S. cerevisiae by targeted proteomics

21 January 2018

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A pipeline that integrates the discovery and verification of plasma protein biomarkers reveals candidate markers for cardiovascular disease.

21 January 2018

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Monitoring protein expression in whole-cell extracts by targeted label- and standard-free LC-MS/MS.

21 January 2018

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Targeted label-free quantitative analysis of secretory proteins from adipocytes in response to oxidative stress

21 January 2018

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Discovery of the serum biomarker proteins in severe preeclampsia by proteomic analysis

21 January 2018

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Isotope coded protein label quantification of serum proteins--comparison with the label-free LC-MS and validation using the MRM approach

21 January 2018

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Cancer genetics-guided discovery of serum biomarker signatures for diagnosis and prognosis of prostate cancer

21 January 2018

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Galectin-3 is a candidate biomarker for amyotrophic lateral sclerosis: discovery by a proteomics approach

21 January 2018

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Proteome profiling of breast tumors by gel electrophoresis and nanoscale electrospray ionization mass spectrometry.

21 January 2018

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Investigating neoplastic progression of ulcerative colitis with label-free comparative proteomics

21 January 2018

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Up-regulated proteins in the fluid bathing the tumour cell microenvironment as potential serological markers for early detection of cancer of the breast

21 January 2018

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An informatics-assisted label-free approach for personalized tissue membrane proteomics: case study on colorectal cancer

21 January 2018

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Identification of new accessible tumor antigens in human colon cancer by ex vivo protein biotinylation and comparative mass spectrometry analysis

21 January 2018

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A serum protein profile predictive of the resistance to neoadjuvant chemotherapy in advanced breast cancers

21 January 2018

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Global survey of phosphotyrosine signaling identifies oncogenic kinases in lung cancer

21 January 2018

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A multiplexed quantitative strategy for membrane proteomics: opportunities for mining therapeutic targets for autosomal dominant polycystic kidney disease

21 January 2018

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Chemical proteomic and bioinformatic strategies for the identification and quantification of vascular antigens in cancer

21 January 2018

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Immunoaffinity profiling of tyrosine phosphorylation in cancer cells

21 January 2018

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Survey of tyrosine kinase signaling reveals ROS kinase fusions in human cholangiocarcinoma

21 January 2018

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Laser capture sampling and analytical issues in proteomics

21 January 2018

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Combining laser capture microdissection and proteomics: methodologies and clinical applications

21 January 2018

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Microproteomic analysis of 10,000 laser captured microdissected breast tumor cells using short-range sodium dodecyl sulfate-polyacrylamide gel electrophoresis and porous layer open tubular liquid chromatography tandem mass spectrometry.

21 January 2018

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Identification of vascular breast tumor markers by laser capture microdissection and label-free LC-MS.

21 January 2018

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Setting proteins free: progresses and achievements in proteomics of formalin-fixed, paraffin-embedded tissues.

21 January 2018

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Proteome, phosphoproteome, and N-glycoproteome are quantitatively preserved in formalin-fixed paraffin-embedded tissue and analyzable by high-resolution mass spectrometry

21 January 2018

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Quantitative proteomics using formalin-fixed paraffin-embedded tissues of oral squamous cell carcinoma

21 January 2018

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Proteomics portrait of archival lesions of chronic pancreatitis

21 January 2018

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Utility of formalin-fixed, paraffin-embedded liver biopsy specimens for global proteomic analysis in nonalcoholic steatohepatitis

21 January 2018

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Initial development and validation of a novel extraction method for quantitative mining of the formalin-fixed, paraffin-embedded tissue proteome for biomarker investigations

21 January 2018

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Proteomic analysis of formalin-fixed, paraffin-embedded lung neuroendocrine tumor samples from hospital archives.

21 January 2018

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Equivalence of protein inventories obtained from formalin-fixed paraffin-embedded and frozen tissue in multidimensional liquid chromatography-tandem mass spectrometry shotgun proteomic analysis.

21 January 2018

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Impact of fixation time on GeLC-MS/MS proteomic profiling of formalin-fixed, paraffin-embedded tissues.

21 January 2018

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Advances in proximal fluid proteomics for disease biomarker discovery

21 January 2018

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Quantitative proteomics for investigating psychiatric disorders

21 January 2018

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Comprehensive proteome analysis of malignant pleural effusion for lung cancer biomarker discovery by using multidimensional protein identification technology.

21 January 2018

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A new method for isolation of interstitial fluid from human solid tumors applied to proteomic analysis of ovarian carcinoma tissue

21 January 2018

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Mining the malignant ascites proteome for pancreatic cancer biomarkers

21 January 2018

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Shotgun proteomics of human bile in hilar cholangiocarcinoma

21 January 2018

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In-depth proteomic analyses of direct expressed prostatic secretions

21 January 2018

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Gastrointestinal fluids proteomics.

21 January 2018

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Noninvasive diagnosis of intraamniotic infection: proteomic biomarkers in vaginal fluid

21 January 2018

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The urinary proteome in Fanconi syndrome implies specificity in the reabsorption of proteins by renal proximal tubule cells.

21 January 2018

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Distinct cerebrospinal fluid proteomes differentiate post-treatment lyme disease from chronic fatigue syndrome

21 January 2018

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Integrative proteomic analysis of serum and peritoneal fluids helps identify proteins that are up-regulated in serum of women with ovarian cancer

21 January 2018

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Comparative proteomic analysis of non-small-cell lung cancer and normal controls using serum label-free quantitative shotgun technology

21 January 2018

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Plasma biomarker discovery using 3D protein profiling coupled with label-free quantitation

21 January 2018

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Systematic discovery of ectopic pregnancy serum biomarkers using 3-D protein profiling coupled with label-free quantitation

21 January 2018

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A xenograft mouse model coupled with in-depth plasma proteome analysis facilitates identification of novel serum biomarkers for human ovarian cancer

21 January 2018

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A peptide-centric approach to breast cancer biomarker discovery utilizing label-free multiple reaction monitoring mass spectrometry.

21 January 2018

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A comprehensive peptidome profiling technology for the identification of early detection biomarkers for lung adenocarcinoma

21 January 2018

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In-depth proteomics of ovarian cancer ascites: combining shotgun proteomics and selected reaction monitoring mass spectrometry.

21 January 2018

1 reference

Verification of a biomarker discovery approach for detection of Down syndrome in amniotic fluid via multiplex selected reaction monitoring (SRM) assay.

21 January 2018

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Verification of male infertility biomarkers in seminal plasma by multiplex selected reaction monitoring assay

21 January 2018

1 reference

Statistical Analysis of Membrane Proteome Expression Changes inSaccharomycescerevisiae

21 January 2018

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Proteomic identification of vanin-1 as a marker of kidney damage in a rat model of type 1 diabetic nephropathy

21 January 2018

1 reference

21 January 2018

Identifiers

DOI

10.1586/ERM.12.31

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27 August 2017

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PubMed ID

22616700