(Q34307889)

1 August 2017

title

Microbiology and proteomics, getting the best of both worlds! (English)

1 reference

1 August 2017

Jean Armengaud

1

0 references

publication date

19 June 2012

1 reference

Environmental Microbiology

1 August 2017

published in

1 reference

1 August 2017

volume

15

1 reference

1 August 2017

issue

1

1 reference

1 August 2017

page(s)

12-23

1 reference

Experimental annotation of post-translational features and translated coding regions in the pathogen Salmonella Typhimurium

1 August 2017

cites work

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

A perfect genome annotation is within reach with the proteomics and genomics alliance.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Proteogenomics and systems biology: quest for the ultimate missing parts

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Proteomics-based refinement of Deinococcus deserti genome annotation reveals an unwonted use of non-canonical translation initiation codons

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

21 January 2018

Comprehensive proteomics

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Improving protein and proteome coverage through data-independent multiplexed peptide fragmentation

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Reporting protein identification data: the next generation of guidelines.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Low-coverage massively parallel pyrosequencing of cDNAs enables proteomics in non-model species: comparison of a species-specific database generated by pyrosequencing with databases from related species for proteome analysis of pea chloroplast envel

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

MINOMICS: visualizing prokaryote transcriptomics and proteomics data in a genomic context.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Isotope dilution strategies for absolute quantitative proteomics

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Proteomics of extremophiles.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Analysis of biostimulated microbial communities from two field experiments reveals temporal and spatial differences in proteome profiles

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

PatternLab for proteomics: a tool for differential shotgun proteomics

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Proteogenomics to discover the full coding content of genomes: a computational perspective

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Comparative proteogenomics of twelve Roseobacter exoproteomes reveals different adaptive strategies among these marine bacteria

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Proteomic insights into the lifestyle of an environmentally relevant marine bacterium

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

High-throughput proteogenomics of Ruegeria pomeroyi: seeding a better genomic annotation for the whole marine Roseobacter clade.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Expanding the known repertoire of virulence factors produced by Bacillus cereus through early secretome profiling in three redox conditions.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Restricting fermentative potential by proteome remodeling: an adaptive strategy evidenced in Bacillus cereus

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Quantitative proteomics of complex mixtures.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Proteomics moves from expression to turnover: update and future perspective

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

A toolbox for validation of mass spectrometry peptides identification and generation of database: IRMa

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Ortho-proteogenomics: multiple proteomes investigation through orthology and a new MS-based protocol.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Selected reaction monitoring applied to proteomics.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Advances in shotgun proteomics and the analysis of membrane proteomes.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

High throughput sequencing and proteomics to identify immunogenic proteins of a new pathogen: the dirty genome approach

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Alliance of proteomics and genomics to unravel the specificities of Sahara bacterium Deinococcus deserti

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Comparative proteomics and activity of a green sulfur bacterium through the water column of Lake Cadagno, Switzerland.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Ion mobility mass spectrometry for peptide analysis

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Expressed genome of Methylobacillus flagellatus as defined through comprehensive proteomics and new insights into methylotrophy

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Protein identification pipeline for the homology-driven proteomics.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Proteogenomic analysis of Mycobacterium tuberculosis by high resolution mass spectrometry

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Proteomic detection of non-annotated protein-coding genes in Pseudomonas fluorescens Pf0-1.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Fifteen years of microbial genomics: meeting the challenges and fulfilling the dream

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Environmental proteomics: applications of proteome profiling in environmental microbiology and biotechnology.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

A metaproteomic approach to study human-microbial ecosystems at the mucosal luminal interface.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Deinococcus geothermalis: the pool of extreme radiation resistance genes shrinks

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

The response of the marine bacterium Sphingopyxis alaskensis to solar radiation assessed by quantitative proteomics.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Extreme challenges and advances in archaeal proteomics

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

An assessment of software solutions for the analysis of mass spectrometry based quantitative proteomics data

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Using SILAC and quantitative proteomics to investigate the interactions between viral and host proteomes

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

A survey of computational methods and error rate estimation procedures for peptide and protein identification in shotgun proteomics

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Proteomic investigation of enzymes involved in 2-ethylhexyl nitrate biodegradation in Mycobacterium austroafricanum IFP 2173.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Proteome driven re-evaluation and functional annotation of the Streptococcus pyogenes SF370 genome

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Global relative and absolute quantitation in microbial proteomics

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

VESPA: software to facilitate genomic annotation of prokaryotic organisms through integration of proteomic and transcriptomic data

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Using comparative genome analysis to identify problems in annotated microbial genomes.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Utility of gel-free, label-free shotgun proteomics approaches to investigate microorganisms.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Proteogenomic analysis of Candida glabrata using high resolution mass spectrometry.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Overcoming species boundaries in peptide identification with Bayesian information criterion-driven error-tolerant peptide search (BICEPS).

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Environmental proteomics of microbial plankton in a highly productive coastal upwelling system

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

A protein database constructed from low-coverage genomic sequence of Bacillus megaterium and its use for accelerated proteomic analysis.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Value of using multiple proteases for large-scale mass spectrometry-based proteomics

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

The proteomic future: where mass spectrometry should be taking us.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Environmental proteomics: changes in the proteome of marine organisms in response to environmental stress, pollutants, infection, symbiosis, and development

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

A comparative proteomic approach to better define Deinococcus nucleoid specificities.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Nanopore sensors for nucleic acid analysis

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Mass spectrometric approaches for characterizing bacterial proteomes.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Label-free protein quantification using LC-coupled ion trap or FT mass spectrometry: Reproducibility, linearity, and application with complex proteomes

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Protein identification using customized protein sequence databases derived from RNA-Seq data

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Absolute quantification of Dehalococcoides proteins: enzyme bioindicators of chlorinated ethene dehalorespiration

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Genome Sequence of the Radioresistant Bacterium Deinococcus radiodurans R1

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Proteogenomic monitoring of Geobacter physiology during stimulated uranium bioremediation

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Proteome analysis of an aerobic hyperthermophilic crenarchaeon, Aeropyrum pernix K1.

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Discovery and annotation of small proteins using genomics, proteomics, and computational approaches

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Derivatization or not: a choice in quantitative proteomics

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

A proteogenomic analysis of Shigella flexneri using 2D LC-MALDI TOF/TOF

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Probing the Proteome Response to Toluene Exposure in the Solvent TolerantPseudomonas putidaS12

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Defining the response of a microorganism to temperatures that span its complete growth temperature range (-2°C to 28°C) using multiplex quantitative proteomics

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

Gel-free proteomic identification of theBacillus subtilisinsoluble spore coat protein fraction

21 January 2018

1 reference

https://api.crossref.org/works/10.1111%2FJ.1462-2920.2012.02811.X

10.1111/J.1462-2920.2012.02811.X

21 January 2018

Identifiers

DOI

1 reference

1 August 2017

1 reference