相关参考文献
注意:仅列出部分参考文献,下载原文获取全部文献信息。WinProphet: A User-Friendly Pipeline Management System for Proteomics Data Analysis Based on Trans-Proteomic Pipeline
Ching-Tai Chen et al.
ANALYTICAL CHEMISTRY (2019)
Evaluation of a Dual Isolation Width Acquisition Method for Isobaric Labeling Ratio Decompression
Theodoros I. Roumeliotis et al.
JOURNAL OF PROTEOME RESEARCH (2019)
Evaluation of NCI-7 Cell Line Panel as a Reference Material for Clinical Proteomics
David J. Clark et al.
JOURNAL OF PROTEOME RESEARCH (2018)
iPQF: a new peptide-to-protein summarization method using peptide spectra characteristics to improve protein quantification
Martina Fischer et al.
BIOINFORMATICS (2016)
Integrated analysis of shotgun proteomic data with PatternLab for proteomics 4.0
Paulo C. Carvalho et al.
NATURE PROTOCOLS (2016)
The MaxQuant computational platform for mass spectrometry-based shotgun proteomics
Stefka Tyanova et al.
NATURE PROTOCOLS (2016)
The CPTAC Data Portal: A Resource for Cancer Proteomics Research
Nathan J. Edwards et al.
JOURNAL OF PROTEOME RESEARCH (2015)
PeptideShaker enables reanalysis of MS-derived proteomics data sets
Marc Vaudel et al.
NATURE BIOTECHNOLOGY (2015)
Trans-Proteomic Pipeline, a standardized data processing pipeline for large-scale reproducible proteomics informatics
Eric W. Deutsch et al.
PROTEOMICS CLINICAL APPLICATIONS (2015)
MultiNotch MS3 Enables Accurate, Sensitive, and Multiplexed Detection of Differential Expression across Cancer Cell Line Proteomes
Graeme C. McAlister et al.
ANALYTICAL CHEMISTRY (2014)
Using R and Bioconductor for proteomics data analysis
Laurent Gatto et al.
BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS (2014)
A hierarchical statistical modeling approach to analyze proteomic isobaric tag for relative and absolute quantitation data
Cong Zhou et al.
BIOINFORMATICS (2014)
Estimating Influence of Cofragmentation on Peptide Quantification and Identification in iTRAQ Experiments by Simulating Multiplexed Spectra
Honglan Li et al.
JOURNAL OF PROTEOME RESEARCH (2014)
Isobaric Labeling-Based Relative Quantification in Shotgun Proteomics
Navin Rauniyar et al.
JOURNAL OF PROTEOME RESEARCH (2014)
Quantitative accuracy in mass spectrometry based proteomics of complex samples: The impact of labeling and precursor interference
AnnSofi Sandberg et al.
JOURNAL OF PROTEOMICS (2014)
IQuant: An automated pipeline for quantitative proteomics based upon isobaric tags
Bo Wen et al.
PROTEOMICS (2014)
MS-GF plus makes progress towards a universal database search tool for proteomics
Sangtae Kim et al.
NATURE COMMUNICATIONS (2014)
Measuring and Managing Ratio Compression for Accurate iTRAQ/TMT Quantification
Mikhail M. Savitski et al.
JOURNAL OF PROTEOME RESEARCH (2013)
Combining Results of Multiple Search Engines in Proteomics
David Shteynberg et al.
MOLECULAR & CELLULAR PROTEOMICS (2013)
Quantitative Proteomics Reveals the Temperature-Dependent Proteins Encoded by a Series of Cluster Genes in Thermoanaerobacter Tengcongensis
Zhen Chen et al.
MOLECULAR & CELLULAR PROTEOMICS (2013)
Defining, Comparing, and Improving iTRAQ Quantification in Mass Spectrometry Proteomics Data
Lina Hultin-Rosenberg et al.
MOLECULAR & CELLULAR PROTEOMICS (2013)
Comet: An open-source MS/MS sequence database search tool
Jimmy K. Eng et al.
PROTEOMICS (2013)
Connecting Genomic Alterations to Cancer Biology with Proteomics: The NCI Clinical Proteomic Tumor Analysis Consortium
Matthew J. Ellis et al.
CANCER DISCOVERY (2013)
Isobaric tagging approaches in quantitative proteomics: the ups and downs
Andy L. Christoforou et al.
ANALYTICAL AND BIOANALYTICAL CHEMISTRY (2012)
MSnbase-an R/Bioconductor package for isobaric tagged mass spectrometry data visualization, processing and quantitation
Laurent Gatto et al.
BIOINFORMATICS (2012)
OCAP: an open comprehensive analysis pipeline for iTRAQ
Penghao Wang et al.
BIOINFORMATICS (2012)
MilQuant: A free, generic software tool for isobaric tagging-based quantitation
Xiao Zou et al.
JOURNAL OF PROTEOMICS (2012)
Faster SEQUEST Searching for Peptide Identification from Tandem Mass Spectra
Benjamin J. Diament et al.
JOURNAL OF PROTEOME RESEARCH (2011)
IsobariQ: Software for Isobaric Quantitative Proteomics using IPTL, iTRAQ, and TMT
Magnus O. Arntzen et al.
JOURNAL OF PROTEOME RESEARCH (2011)
Andromeda: A Peptide Search Engine Integrated into the MaxQuant Environment
Juergen Cox et al.
JOURNAL OF PROTEOME RESEARCH (2011)
iProphet: Multi-level Integrative Analysis of Shotgun Proteomic Data Improves Peptide and Protein Identification Rates and Error Estimates
David Shteynberg et al.
MOLECULAR & CELLULAR PROTEOMICS (2011)
MS3 eliminates ratio distortion in isobaric multiplexed quantitative proteomics
Lily Ting et al.
NATURE METHODS (2011)
SearchGUI: An open-source graphical user interface for simultaneous OMSSA and X!Tandem searches
Marc Vaudel et al.
PROTEOMICS (2011)
Addressing Accuracy and Precision Issues in iTRAQ Quantitation
Natasha A. Karp et al.
MOLECULAR & CELLULAR PROTEOMICS (2010)
jTraqX: A free, platform independent tool for isobaric tag quantitation at the protein level
Thilo Muth et al.
PROTEOMICS (2010)
LTQ-iQuant: A freely available software pipeline for automated and accurate protein quantification of isobaric tagged peptide data from LTQ instruments
Getiria Onsongo et al.
PROTEOMICS (2010)
A guided tour of the Trans-Proteomic Pipeline
Eric W. Deutsch et al.
PROTEOMICS (2010)
iTRAQ Underestimation in Simple and Complex Mixtures: The Good, the Bad and the Ugly
Saw Yen Ow et al.
JOURNAL OF PROTEOME RESEARCH (2009)
Protein Identification False Discovery Rates for Very Large Proteomics Data Sets Generated by Tandem Mass Spectrometry
Lukas Reiter et al.
MOLECULAR & CELLULAR PROTEOMICS (2009)
MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification
Juergen Cox et al.
NATURE BIOTECHNOLOGY (2008)
Precise protein quantification based on peptide quantification using iTRAQ™
Andreas M. Boehm et al.
BMC BIOINFORMATICS (2007)
Target-decoy search strategy for increased confidence in large-scale protein identifications by mass spectrometry
Joshua E. Elias et al.
NATURE METHODS (2007)
MyriMatch: Highly accurate tandem mass spectral peptide identification by multivariate hypergeometric analysis
David L. Tabb et al.
JOURNAL OF PROTEOME RESEARCH (2007)
Multi-Q: A fully automated tool for multiplexed protein quantitation
Wen-Ting Lin et al.
JOURNAL OF PROTEOME RESEARCH (2006)
Review - Mass spectrometry and protein analysis
B Domon et al.
SCIENCE (2006)
Open mass spectrometry search algorithm
LY Geer et al.
JOURNAL OF PROTEOME RESEARCH (2004)
Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents
PL Ross et al.
MOLECULAR & CELLULAR PROTEOMICS (2004)
TANDEM: matching proteins with tandem mass spectra
R Craig et al.
BIOINFORMATICS (2004)
Tandem mass tags:: A novel quantification strategy for comparative analysis of complex protein mixtures by MS/MS
A Thompson et al.
ANALYTICAL CHEMISTRY (2003)
Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search
A Keller et al.
ANALYTICAL CHEMISTRY (2002)