Multiplexed mass spectrometry monitoring of biomarker candidates for osteoarthritis
Tài liệu tham khảo
Segura, 2014, Surfing transcriptomic landscapes. A step beyond the annotation of Chromosome 16 proteome, J. Proteome Res., 13, 158, 10.1021/pr400721r
Ruiz-Romero, 2015, The Spanish biology/disease initiative within the human proteome project: application to rheumatic diseases, J. Proteome, 127, 406, 10.1016/j.jprot.2015.01.023
Cooper, 2013, How to define responders in osteoarthritis, Curr. Med. Res. Opin., 29, 719, 10.1185/03007995.2013.792793
Hunter, 2014, Biomarkers for osteoarthritis: current position and steps towards further validation, Best Pract. Res. Clin. Rheumatol., 28, 61, 10.1016/j.berh.2014.01.007
Kraus, 2015, Call for standardized definitions of osteoarthritis and risk stratification for clinical trials and clinical use, Osteoarthr. Cartil., 23, 1233, 10.1016/j.joca.2015.03.036
Ruiz-Romero, 2015, Lessons from the proteomic study of osteoarthritis, Expert Rev. Proteomics, 12, 433, 10.1586/14789450.2015.1065182
Lotz, 2013, Value of biomarkers in osteoarthritis: current status and perspectives, Ann. Rheum. Dis., 72, 1756, 10.1136/annrheumdis-2013-203726
Aebersold, 2013, The biology/disease-driven human proteome project (B/D-HPP): enabling protein research for the life sciences community, J. Proteome Res., 12, 23, 10.1021/pr301151m
Ritter, 2013, Proteomic analysis of synovial fluid from the osteoarthritic knee: comparison with transcriptome analyses of joint tissues, Arthritis Rheum., 65, 981, 10.1002/art.37823
Henjes, 2014, Analysis of autoantibody profiles in osteoarthritis using comprehensive protein array concepts, J. Proteome Res., 13, 5218, 10.1021/pr500775a
Fernandez-Puente, 2011, Identification of a panel of novel serum osteoarthritis biomarkers, J. Proteome Res., 10, 5095, 10.1021/pr200695p
Finger, 2003, Molecular phenotyping of human chondrocyte cell lines T/C-28a2, T/C-28a4, and C-28/I2, Arthritis Rheum., 48, 3395, 10.1002/art.11341
Altman, 1986, Development of criteria for the classification and reporting of osteoarthritis. Classification of osteoarthritis of the knee. Diagnostic and Therapeutic Criteria Committee of the American Rheumatism Association, Arthritis Rheum., 29, 1039, 10.1002/art.1780290816
Kessler, 1998, Scoring prevalence and severity in gonarthritis: the suitability of the Kellgren & Lawrence scale, Clin. Rheumatol., 17, 205, 10.1007/BF01451048
Bradford, 1976, A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding, Anal. Biochem., 72, 248, 10.1016/0003-2697(76)90527-3
Desjardins, 2009, Microvolume protein concentration determination using the NanoDrop 2000c spectrophotometer, J. Vis. Exp., 10.3791/1610
MacLean, 2010, Skyline: an open source document editor for creating and analyzing targeted proteomics experiments, Bioinformatics, 26, 966, 10.1093/bioinformatics/btq054
Craig, 2004, Open source system for analyzing, validating, and storing protein identification data, J. Proteome Res., 3, 1234, 10.1021/pr049882h
Percy, 2014, Enhanced sensitivity and multiplexing with 2D LC/MRM-MS and labeled standards for deeper and more comprehensive protein quantitation, J. Proteome, 106, 113, 10.1016/j.jprot.2014.04.024
Ruiz-Romero, 2008, Proteomic analysis of human osteoarthritic chondrocytes reveals protein changes in stress and glycolysis, Proteomics, 8, 495, 10.1002/pmic.200700249
Lourido, 2014, Quantitative proteomic profiling of human articular cartilage degradation in osteoarthritis, J. Proteome Res., 13, 6096, 10.1021/pr501024p
Mateos, 2012, Differential protein profiling of synovial fluid from rheumatoid arthritis and osteoarthritis patients using LC-MALDI TOF/TOF, J. Proteome, 75, 2869, 10.1016/j.jprot.2011.12.042
Fernandez-Costa, 2012, Sequential depletion of human serum for the search of osteoarthritis biomarkers, Proteome Sci., 10, 55, 10.1186/1477-5956-10-55
Calamia, 2011, Metabolic labeling of chondrocytes for the quantitative analysis of the interleukin-1-beta-mediated modulation of their intracellular and extracellular proteomes, J. Proteome Res., 10, 3701, 10.1021/pr200331k
Wang, 2011, Identification of a central role for complement in osteoarthritis, Nat. Med., 17, 1674, 10.1038/nm.2543
Blankley, 2013, A label-free selected reaction monitoring workflow identifies a subset of pregnancy specific glycoproteins as potential predictive markers of early-onset pre-eclampsia, Mol. Cell. Proteomics, 12, 3148, 10.1074/mcp.M112.026872
Carr, 2014, Targeted peptide measurements in biology and medicine: best practices for mass spectrometry-based assay development using a fit-for-purpose approach, Mol. Cell. Proteomics, 13, 907, 10.1074/mcp.M113.036095
Aguilar-Mahecha, 2012, The effect of pre-analytical variability on the measurement of MRM-MS-based mid- to high-abundance plasma protein biomarkers and a panel of cytokines, PLoS One, 7, 10.1371/journal.pone.0038290
Lopez, 2010, Selected reaction monitoring-mass spectrometric immunoassay responsive to parathyroid hormone and related variants, Clin. Chem., 56, 281, 10.1373/clinchem.2009.137323
Percy, 2013, Standardized protocols for quality control of MRM-based plasma proteomic workflows, J. Proteome Res., 12, 222, 10.1021/pr300893w
Percy, 2014, Multiplexed MRM with internal standards for cerebrospinal fluid candidate protein biomarker quantitation, J. Proteome Res., 13, 3733, 10.1021/pr500317d
Chambers, 2015, Multiple reaction monitoring enables precise quantification of 97 proteins in dried blood spots, Mol. Cell. Proteomics, 14, 3094, 10.1074/mcp.O115.049957
Wehr, 2012, Relative quantification of serum proteins from pancreatic ductal adenocarcinoma patients by stable isotope dilution liquid chromatography-mass spectrometry, J. Proteome Res., 11, 1749, 10.1021/pr201011f
Tsunezumi, 2009, Matrilysin (MMP-7) cleaves C-type lectin domain family 3 member A (CLEC3A) on tumor cell surface and modulates its cell adhesion activity, J. Cell. Biochem., 106, 693, 10.1002/jcb.22062
Chambers, 2013, Comparison of proteins in whole blood and dried blood spot samples by LC/MS/MS, J. Am. Soc. Mass Spectrom., 24, 1338, 10.1007/s13361-013-0678-x
Kennedy, 2014, Demonstrating the feasibility of large-scale development of standardized assays to quantify human proteins, Nat. Methods, 11, 149, 10.1038/nmeth.2763
Brownridge, 2011, The importance of the digest: proteolysis and absolute quantification in proteomics, Methods, 54, 351, 10.1016/j.ymeth.2011.05.005
Arsene, 2008, Protein quantification by isotope dilution mass spectrometry of proteolytic fragments: cleavage rate and accuracy, Anal. Chem., 80, 4154, 10.1021/ac7024738
Kamiie, 2008, Quantitative atlas of membrane transporter proteins: development and application of a highly sensitive simultaneous LC/MS/MS method combined with novel in-silico peptide selection criteria, Pharm. Res., 25, 1469, 10.1007/s11095-008-9532-4
Gutteridge, 1987, The antioxidant activity of haptoglobin towards haemoglobin-stimulated lipid peroxidation, Biochim. Biophys. Acta, 917, 219, 10.1016/0005-2760(87)90125-1
Nielsen, 2009, Receptor targeting of hemoglobin mediated by the haptoglobins: roles beyond heme scavenging, Blood, 114, 764, 10.1182/blood-2009-01-198309
Arredouani, 2003, Haptoglobin directly affects T cells and suppresses T helper cell type 2 cytokine release, Immunology, 108, 144, 10.1046/j.1365-2567.2003.01569.x
Kume, 2014, Discovery of colorectal cancer biomarker candidates by membrane proteomic analysis and subsequent verification using selected reaction monitoring (SRM) and tissue microarray (TMA) analysis, Mol. Cell. Proteomics, 13, 1471, 10.1074/mcp.M113.037093
Ritter, 2014, Mass spectrometry assays of plasma biomarkers to predict radiographic progression of knee osteoarthritis, Arthritis Res. Ther., 16, 456, 10.1186/s13075-014-0456-6
Hsueh, 2014, Biomarkers and proteomic analysis of osteoarthritis, Matrix Biol., 39c, 56, 10.1016/j.matbio.2014.08.012
Lenting, 2012, Von Willebrand factor: the old, the new and the unknown, J. Thromb. Haemost., 10, 2428, 10.1111/jth.12008
Ohshima, 2003, Galectin 3 and its binding protein in rheumatoid arthritis, Arthritis Rheum., 48, 2788, 10.1002/art.11287
Pfander, 2000, Expression of thrombospondin-1 and its receptor CD36 in human osteoarthritic cartilage, Ann. Rheum. Dis., 59, 448, 10.1136/ard.59.6.448
Duncan, 2009, Quantifying proteins by mass spectrometry: the selectivity of SRM is only part of the problem, Proteomics, 9, 1124, 10.1002/pmic.200800739
Muttigi, 2016, Matrilin-3 role in cartilage development and osteoarthritis, Int. J. Mol. Sci., 17, 590, 10.3390/ijms17040590
Klatt, 2013, The matrilin-3 VWA1 domain modulates interleukin-6 release from primary human chondrocytes, Osteoarthr. Cartil., 21, 869, 10.1016/j.joca.2013.03.005
Nakajima, 2011, Cloning and characterization of the osteoarthritis-associated gene DVWA, J. Bone Miner. Metab., 29, 300, 10.1007/s00774-010-0230-z
Zhang, 2015, Association between genetic variants of DVWA and osteoarthritis of the knee and hip: a comprehensive meta-analysis, Int. J. Clin. Exp. Med., 8, 9430
Wang, 2016, Single nucleotide polymorphisms and osteoarthritis: an overview and a meta-analysis, Medicine (Baltimore), 95
Veselinovic, 2012, Carotid enlargement and serum levels of von Willebrand factor in rheumatoid arthritis: a follow-up study, Clin. Rheumatol., 31, 1727, 10.1007/s10067-012-2079-0
Ogdie, 2010, Identification of broadly discriminatory tissue biomarkers of synovitis with binary and multicategory receiver operating characteristic analysis, Biomarkers, 15, 183, 10.3109/13547500903411095