IsoProt: A Complete and Reproducible Workflow To Analyze iTRAQ/TMT Experiments
暂无分享,去创建一个
[1] M. Arntzen,et al. IsobariQ: software for isobaric quantitative proteomics using IPTL, iTRAQ, and TMT. , 2011, Journal of proteome research.
[2] Stephan M. Winkler,et al. MS Amanda, a Universal Identification Algorithm Optimized for High Accuracy Tandem Mass Spectra , 2014, Journal of proteome research.
[3] Wout Bittremieux,et al. Proceedings of the EuBIC developer's meeting 2018. , 2018, Journal of proteomics.
[4] K. Parker,et al. Multiplexed Protein Quantitation in Saccharomyces cerevisiae Using Amine-reactive Isobaric Tagging Reagents*S , 2004, Molecular & Cellular Proteomics.
[5] Adrian G. Barnett,et al. Industry is more alarmed about reproducibility than academia , 2018, Nature.
[6] Xiao Zou,et al. MilQuant: a free, generic software tool for isobaric tagging-based quantitation. , 2012, Journal of proteomics.
[7] K. Reinert,et al. OpenMS: a flexible open-source software platform for mass spectrometry data analysis , 2016, Nature Methods.
[8] Karl Mechtler,et al. General statistical modeling of data from protein relative expression isobaric tags. , 2011, Journal of proteome research.
[9] M. Mann,et al. MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification , 2008, Nature Biotechnology.
[10] Konstantinos Vougas,et al. Comparative Analysis of Label-Free and 8-Plex iTRAQ Approach for Quantitative Tissue Proteomic Analysis , 2015, PloS one.
[11] Ravali Adusumilli,et al. Data Conversion with ProteoWizard msConvert. , 2017, Methods in molecular biology.
[12] Qiang Feng,et al. IQuant: An automated pipeline for quantitative proteomics based upon isobaric tags , 2014, Proteomics.
[13] Steve Pettifer,et al. EDAM: an ontology of bioinformatics operations, types of data and identifiers, topics and formats , 2013, Bioinform..
[14] Harald Barsnes,et al. SearchGUI: A Highly Adaptable Common Interface for Proteomics Search and de Novo Engines. , 2018, Journal of proteome research.
[15] 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.
[16] Harald Barsnes,et al. BioContainers: an open-source and community-driven framework for software standardization , 2017, Bioinform..
[17] Kathryn S. Lilley,et al. MSnbase-an R/Bioconductor package for isobaric tagged mass spectrometry data visualization, processing and quantitation , 2012, Bioinform..
[18] Bernhard Y. Renard,et al. iPQF: a new peptide-to-protein summarization method using peptide spectra characteristics to improve protein quantification , 2016, Bioinform..
[19] Amy Cohen,et al. Exploring experimental cerebral malaria pathogenesis through the characterisation of host-derived plasma microparticle protein content , 2016, Scientific Reports.
[20] P. Pevzner,et al. The Generating Function of CID, ETD, and CID/ETD Pairs of Tandem Mass Spectra: Applications to Database Search* , 2010, Molecular & Cellular Proteomics.
[21] Matthew E. Ritchie,et al. limma powers differential expression analyses for RNA-sequencing and microarray studies , 2015, Nucleic acids research.
[22] Eystein Oveland,et al. PeptideShaker enables reanalysis of MS-derived proteomics data sets , 2015, Nature Biotechnology.
[23] Harry Yang,et al. Statistical Models for the Analysis of Isobaric Tags Multiplexed Quantitative Proteomics. , 2017, Journal of proteome research.
[24] T. Köcher,et al. Universal and confident phosphorylation site localization using phosphoRS. , 2011, Journal of proteome research.
[25] Laurent Gatto,et al. Accounting for the Multiple Natures of Missing Values in Label-Free Quantitative Proteomics Data Sets to Compare Imputation Strategies. , 2016, Journal of proteome research.
[26] Marco Y. Hein,et al. The Perseus computational platform for comprehensive analysis of (prote)omics data , 2016, Nature Methods.