IQuant: An automated pipeline for quantitative proteomics based upon isobaric tags
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Qiang Feng | Jun Wang | Siqi Liu | Quanhui Wang | Ruo Zhou | Bo Wen | Jun Wang | Siqi Liu | Quanhui Wang | Bo Wen | Ruo Zhou | Q. Feng
[1] Takeshi Tomonaga,et al. In-depth membrane proteomic study of breast cancer tissues for the generation of a chromosome-based protein list. , 2013, Journal of proteome research.
[2] Dimitris Georgiadis,et al. A new transcriptional role for matrix metalloproteinase-12 in antiviral immunity , 2014, Nature Medicine.
[3] Patrick G. A. Pedrioli. Trans-Proteomic Pipeline: A Pipeline for Proteomic Analysis , 2010, Proteome Bioinformatics.
[4] Xiao Zou,et al. MilQuant: a free, generic software tool for isobaric tagging-based quantitation. , 2012, Journal of proteomics.
[5] M. Arntzen,et al. IsobariQ: software for isobaric quantitative proteomics using IPTL, iTRAQ, and TMT. , 2011, Journal of proteome research.
[6] Michał Dadlez,et al. Diffprot - software for non-parametric statistical analysis of differential proteomics data. , 2012, Journal of proteomics.
[7] Richard D. Smith,et al. Normalization and missing value imputation for label-free LC-MS analysis , 2012, BMC Bioinformatics.
[8] Natalie I. Tasman,et al. A guided tour of the Trans‐Proteomic Pipeline , 2010, Proteomics.
[9] Takeshi Tomonaga,et al. Identification of missing proteins in the neXtProt database and unregistered phosphopeptides in the PhosphoSitePlus database as part of the Chromosome-centric Human Proteome Project. , 2013, Journal of proteome research.
[10] W. Tong,et al. Quantitative Proteomics Reveals the Temperature-Dependent Proteins Encoded by a Series of Cluster Genes in Thermoanaerobacter Tengcongensis* , 2013, Molecular & Cellular Proteomics.
[11] Martin Vingron,et al. Variance stabilization applied to microarray data calibration and to the quantification of differential expression , 2002, ISMB.
[12] K. Parker,et al. Multiplexed Protein Quantitation in Saccharomyces cerevisiae Using Amine-reactive Isobaric Tagging Reagents*S , 2004, Molecular & Cellular Proteomics.
[13] Ian A. Wood,et al. A robust permutation test for quantitative SILAC proteomics experiments , 2012 .
[14] Y. Benjamini,et al. Controlling the false discovery rate: a practical and powerful approach to multiple testing , 1995 .
[15] Elisabet Carlsohn,et al. Potential tumor biomarkers identified in ovarian cyst fluid by quantitative proteomic analysis, iTRAQ , 2013, Clinical Proteomics.
[16] Markus Brosch,et al. Accurate and sensitive peptide identification with Mascot Percolator. , 2009, Journal of proteome research.
[17] Andrew H. Thompson,et al. Tandem mass tags: a novel quantification strategy for comparative analysis of complex protein mixtures by MS/MS. , 2003, Analytical chemistry.
[18] William Stafford Noble,et al. Semi-supervised learning for peptide identification from shotgun proteomics datasets , 2007, Nature Methods.
[19] B. Langmead,et al. Cloud-scale RNA-sequencing differential expression analysis with Myrna , 2010, Genome Biology.
[20] Lennart Martens,et al. MascotDatfile: An open‐source library to fully parse and analyse MASCOT MS/MS search results , 2007, Proteomics.
[21] Wen-Lian Hsu,et al. Multi-Q: a fully automated tool for multiplexed protein quantitation. , 2006, Journal of proteome research.
[22] C. Croce,et al. Breast cancer signatures for invasiveness and prognosis defined by deep sequencing of microRNA , 2012, Proceedings of the National Academy of Sciences.
[23] Yan Wang,et al. Deuterium isobaric amine-reactive tags for quantitative proteomics. , 2010, Analytical chemistry.
[24] Lennart Martens,et al. compomics-utilities: an open-source Java library for computational proteomics , 2011, BMC Bioinformatics.
[25] Elizabeth G. Hill,et al. iQuantitator: A tool for protein expression inference using iTRAQ , 2009, BMC Bioinformatics.
[26] Cory Bystrom,et al. TandTRAQ: an open-source tool for integrated protein identification and quantitation , 2007, Bioinform..
[27] Mark D'Ascenzo,et al. iTRAQPak: an R based analysis and visualization package for 8-plex isobaric protein expression data. , 2008, Briefings in functional genomics & proteomics.
[28] R. Cole,et al. Identification and Quantification of S-Nitrosylation by Cysteine Reactive Tandem Mass Tag Switch Assay* , 2011, Molecular & Cellular Proteomics.
[29] Bernd Thiede,et al. Isobaric protein and peptide quantification: perspectives and issues , 2010, Expert review of proteomics.
[30] Alexey I Nesvizhskii,et al. Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search. , 2002, Analytical chemistry.
[31] M. Braga,et al. Exploratory Data Analysis , 2018, Encyclopedia of Social Network Analysis and Mining. 2nd Ed..
[32] Robertson Craig,et al. TANDEM: matching proteins with tandem mass spectra. , 2004, Bioinformatics.
[33] Karl Mechtler,et al. General statistical modeling of data from protein relative expression isobaric tags. , 2011, Journal of proteome research.
[34] Markus Brosch,et al. Enhanced Peptide Identification by Electron Transfer Dissociation Using an Improved Mascot Percolator* , 2012, Molecular & Cellular Proteomics.
[35] N. Karp,et al. Addressing Accuracy and Precision Issues in iTRAQ Quantitation* , 2010, Molecular & Cellular Proteomics.