Cargando…

aLFQ: an R-package for estimating absolute protein quantities from label-free LC-MS/MS proteomics data

Motivation: The determination of absolute quantities of proteins in biological samples is necessary for multiple types of scientific inquiry. While relative quantification has been commonly used in proteomics, few proteomic datasets measuring absolute protein quantities have been reported to date. V...

Descripción completa

Detalles Bibliográficos
Autores principales:	Rosenberger, George, Ludwig, Christina, Röst, Hannes L., Aebersold, Ruedi, Malmström, Lars
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Oxford University Press 2014
Materias:	Applications Notes
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4147881/ https://www.ncbi.nlm.nih.gov/pubmed/24753486 http://dx.doi.org/10.1093/bioinformatics/btu200

Ejemplares similares

LC–MS/MS based characterisation and differential expression of proteins in Himalayan snow trout, Schizothorax labiatus using LFQ technique
por: Jan, Kousar, et al.
Publicado: (2023)

Inference and quantification of peptidoforms in large sample cohorts by SWATH-MS
por: Rosenberger, George, et al.
Publicado: (2017)

ProbMetab: an R package for Bayesian probabilistic annotation of LC–MS-based metabolomics
por: Silva, Ricardo R., et al.
Publicado: (2014)

metID: an R package for automatable compound annotation for LC−MS-based data
por: Shen, Xiaotao, et al.
Publicado: (2021)

An R package to analyse LC/MS metabolomic data: MAIT (Metabolite Automatic Identification Toolkit)
por: Fernández-Albert, Francesc, et al.
Publicado: (2014)

Peak Pair Pruner: a post-processing software to MS-DIAL for peak pair validation and ratio quantification of isotopic labeling LC-MS(/MS) data
por: Smith, Ryan A, et al.
Publicado: (2023)

Author Correction: LC–MS/MS based characterisation and differential expression of proteins in Himalayan snow trout, Schizothorax labiatus using LFQ technique
por: Jan, Kousar, et al.
Publicado: (2023)

Statistical protein quantification and significance analysis in label-free LC-MS experiments with complex designs
por: Clough, Timothy, et al.
Publicado: (2012)

MUSCLE: automated multi-objective evolutionary optimization of targeted LC-MS/MS analysis
por: Bradbury, James, et al.
Publicado: (2015)

Data‐independent acquisition‐based SWATH‐MS for quantitative proteomics: a tutorial
por: Ludwig, Christina, et al.
Publicado: (2018)

Estimation of Absolute Protein Quantities of Unlabeled Samples by Selected Reaction Monitoring Mass Spectrometry
por: Ludwig, Christina, et al.
Publicado: (2012)

Comparative Proteome Profiling of Saliva Between Estrus and Non-Estrus Stages by Employing Label-Free Quantitation (LFQ) and Tandem Mass Tag (TMT)-LC-MS/MS Analysis: An Approach for Estrus Biomarker Identification in Bubalus bubalis
por: Singh, Laishram Kipjen, et al.
Publicado: (2022)

Xwalk: computing and visualizing distances in cross-linking experiments
por: Kahraman, Abdullah, et al.
Publicado: (2011)

peakPantheR, an R package for large-scale targeted extraction and integration of annotated metabolic features in LC–MS profiling datasets
por: Wolfer, Arnaud M, et al.
Publicado: (2021)

MassCascade: Visual Programming for LC-MS Data Processing in Metabolomics
por: Beisken, Stephan, et al.
Publicado: (2014)

Homologue series detection and management in LC-MS data with homologueDiscoverer
por: Mildau, Kevin, et al.
Publicado: (2022)

SWATH2stats: An R/Bioconductor Package to Process and Convert Quantitative SWATH-MS Proteomics Data for Downstream Analysis Tools
por: Blattmann, Peter, et al.
Publicado: (2016)

Proteome dataset of Hemileia vastatrix by LC–MS/MS label-free identification
por: Cury, Natália Faustino, et al.
Publicado: (2022)

Reproducible quantitative proteotype data matrices for systems biology
por: Röst, Hannes L., et al.
Publicado: (2015)

iq: an R package to estimate relative protein abundances from ion quantification in DIA-MS-based proteomics
por: Pham, Thang V, et al.
Publicado: (2020)

Complex‐centric proteome profiling by SEC‐SWATH‐MS
por: Heusel, Moritz, et al.
Publicado: (2019)

A uniform proteomics MS/MS analysis platform utilizing open XML file formats
por: Keller, Andrew, et al.
Publicado: (2005)

ipaPy2: Integrated Probabilistic Annotation (IPA) 2.0—an improved Bayesian-based method for the annotation of LC–MS/MS untargeted metabolomics data
por: Del Carratore, Francesco, et al.
Publicado: (2023)

PiMP my metabolome: an integrated, web-based tool for LC-MS metabolomics data
por: Gloaguen, Yoann, et al.
Publicado: (2017)

Accurate Label-Free Quantification by directLFQ to Compare Unlimited Numbers of Proteomes
por: Ammar, Constantin, et al.
Publicado: (2023)

Absolute quantification of endogenous angiotensin II levels in human plasma using ESI-LC-MS/MS
por: Schulz, Anna, et al.
Publicado: (2014)

Cheetah-MS: a web server to model protein complexes using tandem cross-linking mass spectrometry data
por: Khakzad, Hamed, et al.
Publicado: (2021)

Dataset of mouse hippocampus profiled by LC–MS/MS for label-free quantitation
por: English, Jane A., et al.
Publicado: (2016)

Corra: Computational framework and tools for LC-MS discovery and targeted mass spectrometry-based proteomics
por: Brusniak, Mi-Youn, et al.
Publicado: (2008)

eMZed: an open source framework in Python for rapid and interactive development of LC/MS data analysis workflows
por: Kiefer, Patrick, et al.
Publicado: (2013)

MetMSLine: an automated and fully integrated pipeline for rapid processing of high-resolution LC–MS metabolomic datasets
por: Edmands, William M. B., et al.
Publicado: (2015)

Absolute quantification of microbial proteomes at different states by directed mass spectrometry
por: Schmidt, Alexander, et al.
Publicado: (2011)

Fast and Efficient XML Data Access for Next-Generation Mass Spectrometry
por: Röst, Hannes L., et al.
Publicado: (2015)

pepgrep: A Tool for Peptide MS/MS Pattern Matching
por: Chernukhin, Igor
Publicado: (2013)

MsQuality: an interoperable open-source package for the calculation of standardized quality metrics of mass spectrometry data
por: Naake, Thomas, et al.
Publicado: (2023)

Visualization of LC‐MS/MS proteomics data in MaxQuant
por: Tyanova, Stefka, et al.
Publicado: (2015)

Recent Progress in FD-LC-MS/MS Proteomics Method
por: Kobayashi, Hiroshi, et al.
Publicado: (2021)

LC, MS(n) and LC–MS/MS studies for the characterization of degradation products of amlodipine
por: Tiwari, Ravi N., et al.
Publicado: (2015)

Label-free LC-MS/MS shotgun proteomics to investigate the anti-inflammatory effect of rCC16
por: Pang, Min, et al.
Publicado: (2016)

Proteomic Analysis of Plasma Membrane Proteins of Antler Stem Cells Using Label-Free LC–MS/MS
por: Wang, Datao, et al.
Publicado: (2018)

Cannot write session to /tmp/vufind_sessions/sess_2osam5kab1hm8uiita4b2kulq7