Themed collection Molecular BioSystems 2013 Proteomics

22 items
Editorial

Digital and analogical reality in proteomics investigation

Are protein functions continuous or discretized? Proteomics investigations are starting to address this non-trivial awesome question focusing upon determining the nature of biological molecular relationships.

Graphical abstract: Digital and analogical reality in proteomics investigation
From the themed collection: Molecular BioSystems 2013 Proteomics
Opinion

Genotype–phenotype relationships in light of a modular protein interaction landscape

Better approaches tackling the modular nature of proteomes will have dramatic effects on the understanding of genotype–phenotype relationships, argue Matthias Gstaiger and Ruedi Aebersold.

Graphical abstract: Genotype–phenotype relationships in light of a modular protein interaction landscape
Review Article

The mitochondrial Italian Human Proteome Project initiative (mt-HPP)

mt-HPP: a new HUPO initiative on human mitochondrial proteins.

Graphical abstract: The mitochondrial Italian Human Proteome Project initiative (mt-HPP)
From the themed collection: Molecular BioSystems 2013 Proteomics
Review Article

Application of proteomics technology in adipocyte biology

Obesity and its associated complications have reached epidemic proportions in Western-type societies.

Graphical abstract: Application of proteomics technology in adipocyte biology
From the themed collection: Molecular BioSystems 2013 Proteomics
Review Article

Some remarks on predicting multi-label attributes in molecular biosystems

Many molecular biosystems and biomedical systems belong to the multi-label systems in which each of their constituent molecules possesses one or more than one function or feature, and hence needs one or more than one label to indicate its attribute(s).

Graphical abstract: Some remarks on predicting multi-label attributes in molecular biosystems
From the themed collection: Molecular BioSystems 2013 Proteomics
Review Article

Essential genes in Bacillus subtilis: a re-evaluation after ten years

An overview of essential genes in Bacillus subtilis with emphasis on changes in the list of essential genes since 2003.

Graphical abstract: Essential genes in Bacillus subtilis: a re-evaluation after ten years
Paper

Mass spectrometry-based identification and characterisation of lysine and arginine methylation in the human proteome

Global identification of 501 in vivo protein methylations, combining hmSILAC with MS-proteomics, indicates predominance amongst complexes related to gene expression.

Graphical abstract: Mass spectrometry-based identification and characterisation of lysine and arginine methylation in the human proteome
From the themed collection: Molecular BioSystems 2013 Proteomics
Paper

Proteomic analysis of temperature stress-responsive proteins in Arabidopsis thaliana rosette leaves

Proteomics of Arabidopsis leaves subjected to low or high temperature stress.

Graphical abstract: Proteomic analysis of temperature stress-responsive proteins in Arabidopsis thaliana rosette leaves
From the themed collection: Molecular BioSystems 2013 Proteomics
Paper

Crosstalk between salicylic acid and jasmonate in Arabidopsis investigated by an integrated proteomic and transcriptomic approach

Crosstalk between SA- and JA-mediated defence pathways is investigated for the first time by both proteomic and transcriptomic approaches.

Graphical abstract: Crosstalk between salicylic acid and jasmonate in Arabidopsis investigated by an integrated proteomic and transcriptomic approach
From the themed collection: Molecular BioSystems 2013 Proteomics
Paper

Proteomic and ionomic profiling reveals significant alterations of protein expression and calcium homeostasis in cystic fibrosis cells

Altered protein expression profiles and Ca2+ dyshomeostasis in cystic fibrosis cells using integrated proteomic and ionomic analysis.

Graphical abstract: Proteomic and ionomic profiling reveals significant alterations of protein expression and calcium homeostasis in cystic fibrosis cells
From the themed collection: Molecular BioSystems 2013 Proteomics
Paper

Integrative quantitation enables a comprehensive proteome comparison of two Mycoplasma pneumoniae genetic perturbations

Combination of six different protein quantitation strategies allowed confidently detection of protein abundance changes among distinct M. pneumoniae strains.

Graphical abstract: Integrative quantitation enables a comprehensive proteome comparison of two Mycoplasma pneumoniae genetic perturbations
From the themed collection: Molecular BioSystems 2013 Proteomics
Paper

Shotgun proteomics reveals specific modulated protein patterns in tears of patients with primary open angle glaucoma naïve to therapy

LC-MSE proteomics revealed 27 differential tear proteins in naïve POAG vs. CTRL,13 of them were modulated in medically controlled POAG indicating a probable influence of therapy on the same molecular pattern.

Graphical abstract: Shotgun proteomics reveals specific modulated protein patterns in tears of patients with primary open angle glaucoma naïve to therapy
From the themed collection: Molecular BioSystems 2013 Proteomics
Paper

Complementary biochemical approaches applied to the identification of plastidial calmodulin-binding proteins

Using a proteomic approach, we identified new plastidial CaM-binding candidates and validated a subset of them by overlay assays and fluorescence anisotropy.

Graphical abstract: Complementary biochemical approaches applied to the identification of plastidial calmodulin-binding proteins
From the themed collection: Molecular BioSystems 2013 Proteomics
Paper

Differential protein profiling of renal cell carcinoma urinary exosomes

The proteome of urinary exosomes from renal cell carcinoma patients is reproducibly different from healthy controls, as shown by a radar plot comparing the differential levels of selected proteins.

Graphical abstract: Differential protein profiling of renal cell carcinoma urinary exosomes
From the themed collection: Molecular BioSystems 2013 Proteomics
Paper

Postnatal cardiomyocyte growth and mitochondrial reorganization cause multiple changes in the proteome of human cardiomyocytes

Comparison of fetal and adult human heart proteomes reflects the structural and biochemical differences between the two.

Graphical abstract: Postnatal cardiomyocyte growth and mitochondrial reorganization cause multiple changes in the proteome of human cardiomyocytes
From the themed collection: Molecular BioSystems 2013 Proteomics
Paper

Red blood cell metabolism under prolonged anaerobic storage

MS-based untargeted metabolomics confirmed oxygen dependent modulation of red blood cell metabolism.

Graphical abstract: Red blood cell metabolism under prolonged anaerobic storage
From the themed collection: Molecular BioSystems 2013 Proteomics
Paper

Unravelling the bull fertility proteome

A representative 2-DE map of a cryopreserved bull semen sample. Differentially expressed proteins are indicated in the map.

Graphical abstract: Unravelling the bull fertility proteome
From the themed collection: Molecular BioSystems 2013 Proteomics
Paper

Alteration of proteomic profiles in PBMC isolated from patients with Fabry disease: preliminary findings

In Fabry patients, we found, by a proteomic approach, some down-regulated proteins (CALX, Rho GDI2, Rho GDI1, NCC27) and others upregulated (NSE, 1433T, 1433Z, Gal-1). These data could be related to pathophysiological aspects of disease.

Graphical abstract: Alteration of proteomic profiles in PBMC isolated from patients with Fabry disease: preliminary findings
From the themed collection: Molecular BioSystems 2013 Proteomics
Paper

Effect of IR laser on myoblasts: a proteomic study

IR laser treatment induces a general cytoskeleton reorganization and promotes the myoblast differentiation in vitro.

Graphical abstract: Effect of IR laser on myoblasts: a proteomic study
From the themed collection: Molecular BioSystems 2013 Proteomics
Paper

Urinary exosomes and diabetic nephropathy: a proteomic approach

Label-free LC-MS/MS assessment of differential proteome in urinary exosomes from ZDF diabetic rats, and immunoblotting validation, as exemplified by proteins in the inserts (MUP1, CD10, and PEPD).

Graphical abstract: Urinary exosomes and diabetic nephropathy: a proteomic approach
From the themed collection: Molecular BioSystems 2013 Proteomics
Paper

Comparative proteome profiling of breast tumor cell lines by gel electrophoresis and mass spectrometry reveals an epithelial mesenchymal transition associated protein signature

In this work, we present a comparative proteome analysis of two breast cancer cell lines providing information about a set of proteins involved in the process of epithelial mesenchymal transition.

Graphical abstract: Comparative proteome profiling of breast tumor cell lines by gel electrophoresis and mass spectrometry reveals an epithelial mesenchymal transition associated protein signature
From the themed collection: Molecular BioSystems 2013 Proteomics
Method

Detection of high molecular weight proteins by MALDI imaging mass spectrometry

Detection of high molecular weight proteins on thin tissue sections by imaging mass spectrometry is improved by the use of ferulic acid.

Graphical abstract: Detection of high molecular weight proteins by MALDI imaging mass spectrometry
From the themed collection: Molecular BioSystems 2013 Proteomics
22 items

About this collection

Molecular BioSystems is delighted to present this collection of papers from the themed issue Proteomics 2013, guest edited by Andrea Urbani, President of the Italian Proteomics Association.

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