(Q33891413)

29 July 2017

1 reference

title

Quantitative, high-resolution proteomics for data-driven systems biology (English)

1 reference

29 July 2017

1 reference

1

Jürgen Cox

1 reference

29 July 2017

2

Matthias Mann

1 reference

29 July 2017

publication date

1 January 2011

1 reference

Annual Review of Biochemistry

29 July 2017

number of pages

27

1 reference

based on heuristic

inferred from page(s)

published in

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29 July 2017

volume

80

1 reference

29 July 2017

page(s)

273-299

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Nucleolar proteome dynamics

29 July 2017

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24 May 2022

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Directed mass spectrometry: towards hypothesis-driven proteomics

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24 May 2022

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An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database

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24 May 2022

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Quantitative interaction proteomics using mass spectrometry

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24 May 2022

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Quantitative mass spectrometric multiple reaction monitoring assays for major plasma proteins

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24 May 2022

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Proteomics of organelles and large cellular structures

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24 May 2022

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Proteomics: the move to mixtures

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24 May 2022

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SILAC mouse for quantitative proteomics uncovers kindlin-3 as an essential factor for red blood cell function

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STRING 8--a global view on proteins and their functional interactions in 630 organisms

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24 May 2022

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From proteins to proteomes: large scale protein identification by two-dimensional electrophoresis and amino acid analysis

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24 May 2022

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

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24 May 2022

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Identification and characterization of propionylation at histone H3 lysine 23 in mammalian cells

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24 May 2022

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Mass spectrometry in high-throughput proteomics: ready for the big time.

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24 May 2022

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A regulatory mutation in IGF2 causes a major QTL effect on muscle growth in the pig.

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24 May 2022

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Large-scale analysis of the yeast proteome by multidimensional protein identification technology

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24 May 2022

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Selective Isolation at the Femtomole Level of Phosphopeptides from Proteolytic Digests Using 2D-NanoLC-ESI-MS/MS and Titanium Oxide Precolumns

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24 May 2022

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Multiple reaction monitoring for robust quantitative proteomic analysis of cellular signaling networks

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24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Phosphoproteomic Analysis of the Mouse Brain Cytosol Reveals a Predominance of Protein Phosphorylation in Regions of Intrinsic Sequence Disorder

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24 May 2022

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Generating and navigating proteome maps using mass spectrometry.

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24 May 2022

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Mislocalized activation of oncogenic RTKs switches downstream signaling outcomes

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24 May 2022

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Kinase-selective enrichment enables quantitative phosphoproteomics of the kinome across the cell cycle

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24 May 2022

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Signaling networks assembled by oncogenic EGFR and c-Met

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24 May 2022

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Absolute quantification of the model biomarker prostate-specific antigen in serum by LC-Ms/MS using protein cleavage and isotope dilution mass spectrometry

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24 May 2022

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Stable-isotope dimethyl labeling for quantitative proteomics

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24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Unbiased RNA-protein interaction screen by quantitative proteomics.

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24 May 2022

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Error-tolerant identification of peptides in sequence databases by peptide sequence tags

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24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Functional organization of the yeast proteome by systematic analysis of protein complexes

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24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

A domesticated transposon mediates the effects of a single-nucleotide polymorphism responsible for enhanced muscle growth

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24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Quantitative chemical proteomics reveals mechanisms of action of clinical ABL kinase inhibitors

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24 May 2022

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Proteomic changes resulting from gene copy number variations in cancer cells

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24 May 2022

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Structural characterization of protein tryptic peptides via liquid chromatography/mass spectrometry and collision-induced dissociation of their doubly charged molecular ions

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24 May 2022

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Direct analysis of protein complexes using mass spectrometry

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24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Universal sample preparation method for proteome analysis

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24 May 2022

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Lysine acetylation targets protein complexes and co-regulates major cellular functions

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24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

24 May 2022

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Proteome survey reveals modularity of the yeast cell machinery

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24 May 2022

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A global view of protein expression in human cells, tissues, and organs

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24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Super-SILAC mix for quantitative proteomics of human tumor tissue

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24 May 2022

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A robust error model for iTRAQ quantification reveals divergent signaling between oncogenic FLT3 mutants in acute myeloid leukemia.

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24 May 2022

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Quantification of cardiovascular biomarkers in patient plasma by targeted mass spectrometry and stable isotope dilution.

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24 May 2022

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Mass spectrometry–based proteomics in cell biology

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24 May 2022

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A mammalian organelle map by protein correlation profiling

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24 May 2022

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Decoding signalling networks by mass spectrometry-based proteomics

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24 May 2022

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Quantitative mass spectrometry in proteomics: a critical review

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24 May 2022

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Origins of specificity in protein-DNA recognition.

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24 May 2022

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Computational prediction of proteotypic peptides for quantitative proteomics.

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24 May 2022

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Optimizing identification and quantitation of 15N-labeled proteins in comparative proteomics

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24 May 2022

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High confidence determination of specific protein-protein interactions using quantitative mass spectrometry

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24 May 2022

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Functional and quantitative proteomics using SILAC

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24 May 2022

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Electrospray ionization for mass spectrometry of large biomolecules

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24 May 2022

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Multi-site assessment of the precision and reproducibility of multiple reaction monitoring-based measurements of proteins in plasma

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24 May 2022

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Architecture of the RNA polymerase II-TFIIF complex revealed by cross-linking and mass spectrometry

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24 May 2022

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Mass Spectrometric Analysis of Lysine Ubiquitylation Reveals Promiscuity at Site Level

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24 May 2022

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Substrate and functional diversity of lysine acetylation revealed by a proteomics survey

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24 May 2022

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A model for random sampling and estimation of relative protein abundance in shotgun proteomics

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24 May 2022

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A proteomics approach to understanding protein ubiquitination

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24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Metabolic labeling of C. elegans and D. melanogaster for quantitative proteomics.

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24 May 2022

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Defining the human deubiquitinating enzyme interaction landscape

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24 May 2022

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BAC TransgeneOmics: a high-throughput method for exploration of protein function in mammals

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24 May 2022

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Proteomic characterization of the human centrosome by protein correlation profiling

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24 May 2022

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Global analysis of lysine ubiquitination by ubiquitin remnant immunoaffinity profiling

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24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

The molecular sociology of the cell

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24 May 2022

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Global analysis of protein expression in yeast

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24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Identifying and quantifying in vivo methylation sites by heavy methyl SILAC

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24 May 2022

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The biological impact of mass-spectrometry-based proteomics

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24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

DEUTERIUM AS AN INDICATOR IN THE STUDY OF INTERMEDIARY METABOLISM

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24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Absolute SILAC for accurate quantitation of proteins in complex mixtures down to the attomole level.

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

A novel proteomic screen for peptide-protein interactions

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24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Global, in vivo, and site-specific phosphorylation dynamics in signaling networks

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24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Determination of protein stoichiometry within protein complexes using absolute quantification and multiple reaction monitoring

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Metabolic labeling of mammalian organisms with stable isotopes for quantitative proteomic analysis

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Mass spectrometry-based proteomics

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Identification of SUMO target proteins by quantitative proteomics

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Proteomics: a pragmatic perspective

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Quantitative proteomic analysis of single pancreatic islets

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

In situ proteomic analysis of human breast cancer epithelial cells using laser capture microdissection: annotation by protein set enrichment analysis and gene ontology

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Top-down MS, a powerful complement to the high capabilities of proteolysis proteomics.

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

A gene-expression signature as a predictor of survival in breast cancer

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

A high-throughput de novo sequencing approach for shotgun proteomics using high-resolution tandem mass spectrometry.

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

The grand challenge to decipher the cancer proteome.

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Analysis of protein complexes through model-based biclustering of label-free quantitative AP-MS data

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

The age of crosstalk: phosphorylation, ubiquitination, and beyond

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24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Proteome analysis using selective incorporation of isotopically labeled amino acids

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry

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24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Localization of organelle proteins by isotope tagging (LOPIT)

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24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Large-scale database searching using tandem mass spectra: looking up the answer in the back of the book

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24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Cell biology through proteomics--ad astra per alia porci

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24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

SALSA: a pattern recognition algorithm to detect electrophile-adducted peptides by automated evaluation of CID spectra in LC-MS-MS analyses

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

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

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Highly selective enrichment of phosphorylated peptides from peptide mixtures using titanium dioxide microcolumns.

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Interpretation of shotgun proteomic data: the protein inference problem

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

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

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Performance evaluation of a high-field Orbitrap mass analyzer

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Analysis of protein complexes using mass spectrometry

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

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

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Identifying the proteins to which small-molecule probes and drugs bind in cells

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Positive selection of tyrosine loss in metazoan evolution.

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

A SILAC-based DNA protein interaction screen that identifies candidate binding proteins to functional DNA elements

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

De novo peptide sequencing and identification with precision mass spectrometry

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

A global protein kinase and phosphatase interaction network in yeast.

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

ZBED6, a novel transcription factor derived from a domesticated DNA transposon regulates IGF2 expression and muscle growth

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Accurate quantitation of protein expression and site-specific phosphorylation

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

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

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

A new logic for DNA engineering using recombination in Escherichia coli

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Global analysis of protein localization in budding yeast

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Proteomics reveals N-linked glycoprotein diversity in Caenorhabditis elegans and suggests an atypical translocation mechanism for integral membrane proteins.

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

From information to knowledge: new technologies for defining gene function

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Mass spectrometric quantitation of peptides and proteins using Stable Isotope Standards and Capture by Anti-Peptide Antibodies (SISCAPA).

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Quantitative proteomics: a tool to assess cell differentiation

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

A dual pressure linear ion trap Orbitrap instrument with very high sequencing speed.

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Quantitative mouse brain proteomics using culture-derived isotope tags as internal standards

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Toward a high-resolution view of nuclear dynamics

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

The language of covalent histone modifications

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Reading protein modifications with interaction domains

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Quantification of C-reactive protein in the serum of patients with rheumatoid arthritis using multiple reaction monitoring mass spectrometry and 13C-labeled peptide standards

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Mass spectrometry and protein analysis

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Unrestrictive identification of post-translational modifications through peptide mass spectrometry

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Quantitative proteomics combined with BAC TransgeneOmics reveals in vivo protein interactions

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Temporal analysis of phosphotyrosine-dependent signaling networks by quantitative proteomics

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Proteomics analysis of the nucleolus in adenovirus-infected cells

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Phosphoproteome analysis by mass spectrometry and its application to Saccharomyces cerevisiae

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Large-scale characterization of HeLa cell nuclear phosphoproteins

2 references

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

24 May 2022

https://opencitations.net/index/coci/api/v1/citations/10.1073/PNAS.0404720101

FLEXIQuant: a novel tool for the absolute quantification of proteins, and the simultaneous identification and quantification of potentially modified peptides

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Proteomics strategy for quantitative protein interaction profiling in cell extracts.

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

The Language of Histone Crosstalk

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Reproducible isolation of distinct, overlapping segments of the phosphoproteome

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Lysine acetylation is a highly abundant and evolutionarily conserved modification in Escherichia coli

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

A quantitative proteomics analysis of subcellular proteome localization and changes induced by DNA damage.

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Proteome analysis of yeast response to various nutrient limitations

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

A protein domain-based interactome network for C. elegans early embryogenesis

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Modification-specific proteomics: strategies for characterization of post-translational modifications using enrichment techniques

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

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

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Gene expression profiling predicts clinical outcome of breast cancer

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Quantitative interaction proteomics and genome-wide profiling of epigenetic histone marks and their readers

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Non-functional phosphorylations?

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Analysis of quantitative proteomic data generated via multidimensional protein identification technology

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Distinguishing protein-coding and noncoding genes in the human genome

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

A genecentric Human Protein Atlas for expression profiles based on antibodies

1 reference

24 May 2022

https://opencitations.net/index/coci/api/v1/references/10.1146/ANNUREV-BIOCHEM-061308-093216

Identifiers

DOI

10.1146/ANNUREV-BIOCHEM-061308-093216

1 reference

29 July 2017

1 reference