Multidimensional proteomics for cell biology (Q27008027)

title

Multidimensional proteomics for cell biology (English)

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25857810%20AND%20SRC:MED&resulttype=core&format=json

8 June 2020

Angus Lamond

series ordinal

2

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25857810%20AND%20SRC:MED&resulttype=core&format=json

8 June 2020

2

Angus I Lamond

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author name string

Mark Larance

series ordinal

1

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language of work or name

English

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publication date

May 2015

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published in

Nature Reviews Molecular Cell Biology

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25857810%20AND%20SRC:MED&resulttype=core&format=json

8 June 2020

volume

16

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25857810%20AND%20SRC:MED&resulttype=core&format=json

8 June 2020

issue

5

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25857810%20AND%20SRC:MED&resulttype=core&format=json

8 June 2020

page(s)

269-280

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25857810%20AND%20SRC:MED&resulttype=core&format=json

Systematic and quantitative assessment of the ubiquitin-modified proteome

8 June 2020

cites work

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

20 April 2017

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Phosphorylation of the transcription factor forkhead family member FKHR by protein kinase B

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Akt promotes cell survival by phosphorylating and inhibiting a Forkhead transcription factor

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Proteomic characterization of the human centrosome by protein correlation profiling

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Phosphorylation-dependent ubiquitination of cyclin E by the SCFFbw7 ubiquitin ligase

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

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Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry

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A census of human soluble protein complexes

20 April 2017

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Integrated structural analysis of the human nuclear pore complex scaffold

20 April 2017

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Architecture of the large subunit of the mammalian mitochondrial ribosome

20 April 2017

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Visualization of arrestin recruitment by a G-protein-coupled receptor

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A quantitative atlas of mitotic phosphorylation

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Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis

20 April 2017

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

20 April 2017

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

20 April 2017

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Proteome wide purification and identification of O-GlcNAc-modified proteins using click chemistry and mass spectrometry

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Citrullination regulates pluripotency and histone H1 binding to chromatin

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PHD1 links cell-cycle progression to oxygen sensing through hydroxylation of the centrosomal protein Cep192

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Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles

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A perspective on proteomics in cell biology

20 April 2017

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A proteomic chronology of gene expression through the cell cycle in human myeloid leukemia cells

20 April 2017

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Proteomic analysis of the response to cell cycle arrests in human myeloid leukemia cells

20 April 2017

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Electrostatic repulsion hydrophilic interaction chromatography for isocratic separation of charged solutes and selective isolation of phosphopeptides

20 April 2017

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Chemical genetic screen for AMPKα2 substrates uncovers a network of proteins involved in mitosis

20 April 2017

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MOPED 2.5--an integrated multi-omics resource: multi-omics profiling expression database now includes transcriptomics data

20 April 2017

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PHOSIDA 2011: the posttranslational modification database

20 April 2017

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

20 April 2017

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

20 April 2017

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Mass-spectrometry-based draft of the human proteome

20 April 2017

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Exponentially modified protein abundance index (emPAI) for estimation of absolute protein amount in proteomics by the number of sequenced peptides per protein

20 April 2017

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A tissue-specific atlas of mouse protein phosphorylation and expression

20 April 2017

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Andromeda: a peptide search engine integrated into the MaxQuant environment

20 April 2017

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STRING v9.1: protein-protein interaction networks, with increased coverage and integration

20 April 2017

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Towards a knowledge-based Human Protein Atlas

20 April 2017

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ProteomeXchange provides globally coordinated proteomics data submission and dissemination

20 April 2017

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Off-line high-pH reversed-phase fractionation for in-depth phosphoproteomics

20 April 2017

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A quantitative spatial proteomics analysis of proteome turnover in human cells

31 March 2020

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Global subcellular characterization of protein degradation using quantitative proteomics.

31 March 2020

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Identification of long-lived proteins reveals exceptional stability of essential cellular structures

31 March 2020

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A draft map of the human proteome

31 March 2020

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The emergence of proteome-wide technologies: systematic analysis of proteins comes of age.

31 March 2020

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The one hour yeast proteome

31 March 2020

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Minimal, encapsulated proteomic-sample processing applied to copy-number estimation in eukaryotic cells

31 March 2020

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

31 March 2020

1 reference

Absolute quantification of proteins by LCMSE: a virtue of parallel MS acquisition

31 March 2020

1 reference

Analysis of quantitative proteomic data generated via multidimensional protein identification technology

31 March 2020

1 reference

Neutron-encoded mass signatures for multiplexed proteome quantification

31 March 2020

1 reference

Multiplex peptide stable isotope dimethyl labeling for quantitative proteomics.

31 March 2020

1 reference

Stable-isotope dimethyl labeling for quantitative proteomics

31 March 2020

1 reference

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

31 March 2020

1 reference

Targeted data extraction of the MS/MS spectra generated by data-independent acquisition: a new concept for consistent and accurate proteome analysis

31 March 2020

1 reference

Quantitative proteomics by SWATH-MS reveals altered expression of nucleic acid binding and regulatory proteins in HIV-1-infected macrophages

31 March 2020

1 reference

Mapping differential interactomes by affinity purification coupled with data-independent mass spectrometry acquisition

31 March 2020

1 reference

Label-free protein quantification for plant Golgi protein localization and abundance.

31 March 2020

1 reference

Generating and navigating proteome maps using mass spectrometry.

31 March 2020

1 reference

Mass spectrometry-based proteomics and network biology

31 March 2020

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Proteome sequencing goes deep.

31 March 2020

1 reference

Mass spectrometry-based proteomics in cell biology

31 March 2020

1 reference

Phosphorylation of serine 256 by protein kinase B disrupts transactivation by FKHR and mediates effects of insulin on insulin-like growth factor-binding protein-1 promoter activity through a conserved insulin response sequence

31 March 2020

1 reference

Skp2 inhibits FOXO1 in tumor suppression through ubiquitin-mediated degradation

31 March 2020

1 reference

Proteomic mapping of mitochondria in living cells via spatially restricted enzymatic tagging.

31 March 2020

1 reference

A novel cell lysis approach reveals that caspase-2 rapidly translocates from the nucleus to the cytoplasm in response to apoptotic stimuli

31 March 2020

1 reference

A mammalian organelle map by protein correlation profiling

31 March 2020

1 reference

Localization of organelle proteins by isotope tagging (LOPIT)

31 March 2020

1 reference

Determining protein subcellular localization in mammalian cell culture with biochemical fractionation and iTRAQ 8-plex quantification

31 March 2020

1 reference

Analysis of nucleolar protein dynamics reveals the nuclear degradation of ribosomal proteins

31 March 2020

1 reference

Nuclear cytoplasmic trafficking of proteins is a major response of human fibroblasts to oxidative stress

31 March 2020

1 reference

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

31 March 2020

1 reference

Plasma membrane proteomics of human breast cancer cell lines identifies potential targets for breast cancer diagnosis and treatment

31 March 2020

1 reference

Calorie restriction and SIRT3 trigger global reprogramming of the mitochondrial protein acetylome

31 March 2020

1 reference

Quantification of mitochondrial acetylation dynamics highlights prominent sites of metabolic regulation

31 March 2020

1 reference

Dynamics of subcellular proteomes during brain development

31 March 2020

1 reference

Mitochondrial quality control: an integrated network of pathways

31 March 2020

1 reference

The growing landscape of lysine acetylation links metabolism and cell signalling

31 March 2020

1 reference

Protein turnover: measurement of proteome dynamics by whole animal metabolic labelling with stable isotope labelled amino acids

31 March 2020

1 reference

Characterization of MRFAP1 turnover and interactions downstream of the NEDD8 pathway

31 March 2020

1 reference

Most human proteins made in both nucleus and cytoplasm turn over within minutes

31 March 2020

1 reference

Rapid temporal dynamics of transcription, protein synthesis, and secretion during macrophage activation

31 March 2020

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Altered proteostasis in aging and heat shock response in C. elegans revealed by analysis of the global and de novo synthesized proteome

31 March 2020

1 reference

Acute synthesis of CPEB is required for plasticity of visual avoidance behavior in Xenopus

31 March 2020

1 reference

Development of a novel method for quantification of autophagic protein degradation by AHA labeling.

31 March 2020

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Identifying specific protein interaction partners using quantitative mass spectrometry and bead proteomes

31 March 2020

1 reference

A protein complex network of Drosophila melanogaster

31 March 2020

1 reference

Quantitative proteomics combined with BAC TransgeneOmics reveals in vivo protein interactions

31 March 2020

1 reference

Global landscape of HIV-human protein complexes

31 March 2020

1 reference

A promiscuous biotin ligase fusion protein identifies proximal and interacting proteins in mammalian cells

31 March 2020

1 reference

New insights into the DT40 B cell receptor cluster using a proteomic proximity labeling assay

31 March 2020

1 reference

A high-throughput approach for measuring temporal changes in the interactome

31 March 2020

1 reference

Comparative cross-linking and mass spectrometry of an intact F-type ATPase suggest a role for phosphorylation.

31 March 2020

1 reference

Lysine-specific chemical cross-linking of protein complexes and identification of cross-linking sites using LC-MS/MS and the xQuest/xProphet software pipeline

31 March 2020

1 reference

Quantitative cross-linking/mass spectrometry using isotope-labelled cross-linkers

31 March 2020

1 reference

Isotopically-coded short-range hetero-bifunctional photo-reactive crosslinkers for studying protein structure.

31 March 2020

1 reference

An enhanced protein crosslink identification strategy using CID-cleavable chemical crosslinkers and LC/MS(n) analysis

31 March 2020

1 reference

In vivo protein interaction network identified with a novel real-time cross-linked peptide identification strategy

31 March 2020

1 reference

Photo-cross-linking and high-resolution mass spectrometry for assignment of RNA-binding sites in RNA-binding proteins.

31 March 2020

1 reference

Structural characterization by cross-linking reveals the detailed architecture of a coatomer-related heptameric module from the nuclear pore complex.

31 March 2020

1 reference

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

31 March 2020

1 reference

Analysis of posttranslational modifications of proteins by tandem mass spectrometry.

31 March 2020

1 reference

Fractionation of phosphopeptides on strong anion-exchange capillary trap column for large-scale phosphoproteome analysis of microgram samples

31 March 2020

1 reference

Chemical methods for the proteome-wide identification of posttranslationally modified proteins

31 March 2020

1 reference

Robust co-regulation of tyrosine phosphorylation sites on proteins reveals novel protein interactions

31 March 2020

1 reference

Spatial and temporal effects in protein post-translational modification distributions in the developing mouse brain

31 March 2020

1 reference

The language of histone crosstalk

31 March 2020

1 reference

Structural basis for phosphorylation and lysine acetylation cross-talk in a kinase motif associated with myocardial ischemia and cardioprotection

31 March 2020

1 reference

A novel method for the simultaneous enrichment, identification, and quantification of phosphopeptides and sialylated glycopeptides applied to a temporal profile of mouse brain development

31 March 2020

1 reference

Integrated proteomic analysis of post-translational modifications by serial enrichment.

31 March 2020

1 reference

Hypoxia-inducible factor 1 (HIF-1) pathway

31 March 2020

1 reference

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

31 March 2020

1 reference

COMPASS: a suite of pre- and post-search proteomics software tools for OMSSA

31 March 2020

1 reference

Census 2: isobaric labeling data analysis

31 March 2020

1 reference

A quantitative analysis software tool for mass spectrometry-based proteomics

31 March 2020

1 reference

Mass-spectrometry-based spatial proteomics data analysis using pRoloc and pRolocdata.

31 March 2020

1 reference

SAINT: probabilistic scoring of affinity purification-mass spectrometry data

31 March 2020

1 reference

ProHits: integrated software for mass spectrometry-based interaction proteomics

31 March 2020

1 reference

ComplexQuant: high-throughput computational pipeline for the global quantitative analysis of endogenous soluble protein complexes using high resolution protein HPLC and precision label-free LC/MS/MS

31 March 2020

1 reference

Enrichment map: a network-based method for gene-set enrichment visualization and interpretation

31 March 2020

1 reference

Analysis of the human tissue-specific expression by genome-wide integration of transcriptomics and antibody-based proteomics

31 March 2020

1 reference

Integrating cytomics and proteomics.

31 March 2020

1 reference

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

31 March 2020

1 reference

TiSH--a robust and sensitive global phosphoproteomics strategy employing a combination of TiO2, SIMAC, and HILIC.

31 March 2020

1 reference

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

31 March 2020

1 reference

Evidence for phosphorylation of serine 753 in CFTR using a novel metal-ion affinity resin and matrix-assisted laser desorption mass spectrometry

31 March 2020

1 reference

A proteomic analysis of arginine-methylated protein complexes

31 March 2020

1 reference

Global analysis of lysine ubiquitination by ubiquitin remnant immunoaffinity profiling

31 March 2020

1 reference

Large-scale analysis of lysine SUMOylation by SUMO remnant immunoaffinity profiling.

31 March 2020

1 reference

Quantitative proteomic analysis of the adipocyte plasma membrane.

31 March 2020

1 reference

Hydrophilic strong anion exchange (hSAX) chromatography for highly orthogonal peptide separation of complex proteomes

31 March 2020

1 reference

Two-dimensional separation of peptides using RP-RP-HPLC system with different pH in first and second separation dimensions

31 March 2020

1 reference

Tracking cancer drugs in living cells by thermal profiling of the proteome

31 March 2020

1 reference

Development and application of a quantitative multiplexed small GTPase activity assay using targeted proteomics.

31 March 2020

1 reference

Global analysis of protein structural changes in complex proteomes.

31 March 2020

1 reference

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

31 March 2020

1 reference

PaxDb, a database of protein abundance averages across all three domains of life

31 March 2020

1 reference

Open source system for analyzing, validating, and storing protein identification data

31 March 2020

1 reference

Utility of RNA-seq and GPMDB protein observation frequency for improving the sensitivity of protein identification by tandem MS

31 March 2020

1 reference

Hydrophilic-interaction chromatography for the separation of peptides, nucleic acids and other polar compounds

31 March 2020

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25857810

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Subcellular distribution of estrogen receptor and progesterone receptor with and without specific ligand

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25857810

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1038/NRM3970

2 references

Consolidated OpenCitations Corpus – April 2017

812017

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25857810%20AND%20SRC:MED&resulttype=core&format=json

Dimensions Publication ID

8 June 2020

1001612221

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Fatcat ID

release_4wm7zdrzhvaujgstrualqzydmi

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812017

1 reference

Consolidated OpenCitations Corpus – April 2017

Consolidated OpenCitations Corpus – April 2017

2 references

812017