The MaxQuant computational platform for mass spectrometry-based shotgun proteomics (Q39220830)

10 September 2017

The MaxQuant computational platform for mass spectrometry-based shotgun proteomics (English)

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10 September 2017

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Stefka Tyanova

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PubMed ID

27809316

10 September 2017

Tikira Temu

series ordinal

2

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PubMed ID

27809316

10 September 2017

Juergen Cox

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3

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10 September 2017

27 October 2016

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10 September 2017

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10 September 2017

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10 September 2017

2301-2319

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10 September 2017

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https://scigraph.springernature.com/pub.10.1038/nprot.2016.136

10 September 2017

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cites work

Quantitative, high-resolution proteomics for data-driven systems biology

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Expert system for computer-assisted annotation of MS/MS spectra

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Visualization of LC-MS/MS proteomics data in MaxQuant

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Computational principles of determining and improving mass precision and accuracy for proteome measurements in an Orbitrap.

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Software lock mass by two-dimensional minimization of peptide mass errors

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Andromeda: a peptide search engine integrated into the MaxQuant environment

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Higher-energy C-trap dissociation for peptide modification analysis.

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

A systematic investigation into the nature of tryptic HCD spectra

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

The utility of ETD mass spectrometry in proteomic analysis

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Unambiguous phosphosite localization using electron-transfer/higher-energy collision dissociation (EThcD)

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Target-decoy search strategy for increased confidence in large-scale protein identifications by mass spectrometry

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Improvements to the percolator algorithm for Peptide identification from shotgun proteomics data sets

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Accurate proteome-wide label-free quantification by delayed normalization and maximal peptide ratio extraction, termed MaxLFQ.

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

MaxQuant for in-depth analysis of large SILAC datasets.

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Multiplex peptide stable isotope dimethyl labeling for quantitative proteomics.

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Tandem Mass Tags: A Novel Quantification Strategy for Comparative Analysis of Complex Protein Mixtures by MS/MS

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagents

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Increasing the multiplexing capacity of TMTs using reporter ion isotopologues with isobaric masses

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

MultiNotch MS3 enables accurate, sensitive, and multiplexed detection of differential expression across cancer cell line proteomes.

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Analytical strategies for shotgun phosphoproteomics: status and prospects

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Enhancing the identification of phosphopeptides from putative basophilic kinase substrates using Ti (IV) based IMAC enrichment

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Ultradeep human phosphoproteome reveals a distinct regulatory nature of Tyr and Ser/Thr-based signaling

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

ModifiComb, a new proteomic tool for mapping substoichiometric post-translational modifications, finding novel types of modifications, and fingerprinting complex protein mixtures.

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

A mass-tolerant database search identifies a large proportion of unassigned spectra in shotgun proteomics as modified peptides

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

High performance computational analysis of large-scale proteome data sets to assess incremental contribution to coverage of the human genome

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

The Perseus computational platform for comprehensive analysis of (prote)omics data

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Machine Learning-based Classification of Diffuse Large B-cell Lymphoma Patients by Their Protein Expression Profiles

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

1D and 2D annotation enrichment: a statistical method integrating quantitative proteomics with complementary high-throughput data

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

In-vivo quantitative proteomics reveals a key contribution of post-transcriptional mechanisms to the circadian regulation of liver metabolism.

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Analysis of high accuracy, quantitative proteomics data in the MaxQB database

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Proteomics on an Orbitrap benchtop mass spectrometer using all-ion fragmentation

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Skyline: an open source document editor for creating and analyzing targeted proteomics experiments

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

ProSight Lite: graphical software to analyze top-down mass spectrometry data

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Initial quantitative proteomic map of 28 mouse tissues using the SILAC mouse

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Multiplexed, Quantitative Workflow for Sensitive Biomarker Discovery in Plasma Yields Novel Candidates for Early Myocardial Injury.

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

More than 100,000 detectable peptide species elute in single shotgun proteomics runs but the majority is inaccessible to data-dependent LC-MS/MS.

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Comparative proteomic analysis of eleven common cell lines reveals ubiquitous but varying expression of most proteins

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

A statistical model for identifying proteins by tandem mass spectrometry

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Protein identification false discovery rates for very large proteomics data sets generated by tandem mass spectrometry

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Global quantification of mammalian gene expression control

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

A "proteomic ruler" for protein copy number and concentration estimation without spike-in standards.

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis

31 March 2020

1 reference

https://api.crossref.org/works/10.1038%2FNPROT.2016.136

A practical guide to the MaxQuant computational platform for SILAC-based quantitative proteomics

31 March 2020

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/27809316

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Quantitative Cross-linking/Mass Spectrometry Using Isotope-labeled Cross-linkers and MaxQuant

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/27809316

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1038/NPROT.2016.136

1 reference

10 September 2017

1 reference

PubMed ID

27809316