Abstract:
:The spring workshop of the HUPO-PSI convened in Siena to further progress the data standards which are already making an impact on data exchange and deposition in the field of proteomics. Separate work groups pushed forward existing XML standards for the exchange of Molecular Interaction data (PSI-MI, MIF) and Mass Spectrometry data (PSI-MS, mzData) whilst significant progress was made on PSI-MS' mzIdent, which will allow the capture of data from analytical tools such as peak list search engines. A new focus for PSI (GPS, gel electrophoresis) was explored; as was the need for a common representation of protein modifications by all workers in the field of proteomics and beyond. All these efforts are contextualised by the work of the General Proteomics Standards workgroup; which in addition to the MIAPE reporting guidelines, is continually evolving an object model (PSI-OM) from which will be derived the general standard XML format for exchanging data between researchers, and for submission to repositories or journals.
journal_name
Proteomicsjournal_title
Proteomicsauthors
Orchard S,Hermjakob H,Taylor CF,Potthast F,Jones P,Zhu W,Julian RK Jr,Apweiler Rdoi
10.1002/pmic.200500626subject
Has Abstractpub_date
2005-09-01 00:00:00pages
3552-5issue
14eissn
1615-9853issn
1615-9861journal_volume
5pub_type
相关文献
PROTEOMICS文献大全abstract::The gut epithelium formed between an organism and the environment plays an essential role in host-microbe interactions, yet remains one of the least characterized mammalian tissues. Especially the membrane proteins, which are critical to bacterial adhesion, are understudied, because these proteins are low in abundance...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201500024
更新日期:2015-07-01 00:00:00
abstract::This study describes the gel-free phosphoproteomic analysis of the phytopathogenic fungi Alternaria brassicicola and Botrytis cinerea grown in vitro under nonlimiting conditions. Using a combination of strong cation exchange and IMAC prior to LC-MS, we identified over 1350 phosphopeptides per fungus representing over ...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201300541
更新日期:2014-07-01 00:00:00
abstract::This study was undertaken to identify growth hormone (GH) responsive proteins and protein expression patterns by short-term recombinant human growth hormone (rhGH) therapy in patients with idiopathic short stature (ISS) using proteomic analysis. Seventeen children (14 males and three females) with ISS were included. T...
journal_title:Proteomics
pub_type: 临床试验,杂志文章
doi:10.1002/pmic.201200131
更新日期:2013-04-01 00:00:00
abstract::Human saliva contains a large number of proteins and peptides (salivary proteome) that help maintain homeostasis in the oral cavity. Global analysis of human salivary proteome is important for understanding oral health and disease pathogenesis. In this study, large-scale identification of salivary proteins was demonst...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200401037
更新日期:2005-04-01 00:00:00
abstract::We compared peptide identification by database (DB) search methods with de novo sequencing results for proteomics study in an organism without genome sequence information. When the former was done by searching the Expressed Sequence Tag (EST) DB of the sample organism or the NCBI nonredundant (nr) protein DB of green ...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200300620
更新日期:2003-12-01 00:00:00
abstract::The identification of specific protein markers for colorectal cancer would provide the basis for early diagnosis and detection, as well as clues for understanding the molecular mechanisms governing cancer progression. In this report, we describe the proteomic analysis of the samples of colorectal cancer corresponding ...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200401196
更新日期:2005-07-01 00:00:00
abstract::In recent years, standardization and quality control have become important key points in industry, e.g. in drug discovery and for developing medical products. Is quality control in academic Proteomics a minor problem nowadays, where standard data formats and public repositories for data sharing exist? In this article,...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201000441
更新日期:2011-03-01 00:00:00
abstract::In-gel peptide digestion has become a widely used technique for characterizing proteins resolved by two-dimensional gel electrophoresis. Peptides generated from gel pieces are frequently contaminated with detergent and salts. Prior to matrix-assisted laser desorption/ionization-time of flight mass spectrometry analysi...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/1615-9861(200202)2:2<145::aid-prot145>3.0.
更新日期:2002-02-01 00:00:00
abstract::We monitored rates of growth, ATP-synthesis, respiration, and death to assess the sensitivity of the model organism Pseudomonas putida KT2440 to methyl tert-butyl ether (MTBE), and its degree of toxicity. The physiological data obtained suggested that the energy conservation system was the most sensitive site. However...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200300477
更新日期:2003-08-01 00:00:00
abstract::In this work, for the first time, perfluorinated magnetic mesoporous microspheres were designed and synthesized for the highly specific enrichment of fluorous-derivatized phosphopeptides through the unique fluorine-fluorine interactions. The perfluorinated magnetic mesoporous microspheres were prepared through a surfa...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201500323
更新日期:2016-04-01 00:00:00
abstract::CREC proteins constitute a family of EF-hand calcium binding proteins localized to the secretory pathway. Calumenin is the only member known to be secreted. Recently, it was shown that thrombin-activated thrombocytes liberate calumenin, which also is found in atherosclerotic lesions but not in normal vasculature. To s...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200500686
更新日期:2006-06-01 00:00:00
abstract::The influenza virus polymerase is formed by the PB1, PB2 and PA subunits and is required for virus transcription and replication in the nucleus of infected cells. Here we present the characterisation of the complexes formed intracellularly by the influenza polymerase in human cells. The virus polymerase was expressed ...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200700508
更新日期:2008-05-01 00:00:00
abstract::Protein expression changes induced in thioglycolate-elicited peritoneal murine macrophages (M Phi) by infection with type III Group B Streptococcus (GBS) are described. Proteins from control M Phi and M Phi incubated 2 h with live or heat-inactivated GBS were separated by 2-DE. Proteins whose expression was significan...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200900642
更新日期:2010-06-01 00:00:00
abstract::Comprehensive molecular profiling of human tumor tissue specimens at the DNA, mRNA and protein level is often obstructed by a limited amount of available material. Homogenization of frozen tissue samples in guanidine isothiocyanate followed by ultracentrifugation over cesium chloride allows the simultaneous extraction...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200800902
更新日期:2009-11-01 00:00:00
abstract::In prokaryotes, acyl carrier protein (ACP) is a cofactor central to a myriad of syntheses, including fatty acid and phospholipid synthesis. To fulfill its function, ACP must therefore interact with a multitude of different enzymes, which includes the thioesterase YbgC. We found a specific interaction between ACP and Y...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200500115
更新日期:2006-01-01 00:00:00
abstract::Lipid particles (LP) of all types of cells are a depot of neutral lipids. The present investigation deals with the isolation of LP from the yeast Yarrowia lipolytica and the characterization of their lipid and protein composition. Properties of LP varied depending on the carbon source. LP from glucose-grown cells reve...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200500339
更新日期:2006-03-01 00:00:00
abstract::Fusarium oxysporum is an important plant pathogen that causes severe damage of many economically important crop species. Various microorganisms have been shown to inhibit this soil-borne plant pathogen, including non-pathogenic F. oxysporum strains. In this study, F. oxysporum wild-type (WT) MSA 35, a biocontrol multi...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200900716
更新日期:2010-09-01 00:00:00
abstract::Interleukin (IL)-6 is a circulatory, pleiotropic cytokine with multiple roles in the immune system. Both IL-6 and the IL6 -174G>C promoter polymorphism have been linked to various diseases associated with inflammation. However, the mechanism by which the polymorphism influences disease risk is unclear. We postulated t...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200600366
更新日期:2007-02-01 00:00:00
abstract::In this work, we first immobilized tin(IV) ion on polydopamine-coated magnetic graphene (magG@PDA) to synthesize Sn4+ -immobilized magG@PDA (magG@PDA-Sn4+ ) and successfully applied the material to highly selective enrichment of phosphopeptides. The material gathered the advantages of large surface area of graphene, s...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201600187
更新日期:2016-11-01 00:00:00
abstract::Staphylococcus aureus is an opportunistic human pathogen, which can cause life-threatening disease. Proteome analyses of the bacterium can provide new insights into its pathophysiology and important facets of metabolic adaptation and, thus, aid the recognition of targets for intervention. However, the value of such pr...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201500091
更新日期:2015-11-01 00:00:00
abstract::MS/MS has been used to improve genome annotation in various organisms. The classical approach is to construct comprehensive theoretical peptide database with six frame translation model from the whole ORF of a genome and search against this database with real MS/MS spectra. In this work we took a more focused approach...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201400174
更新日期:2014-12-01 00:00:00
abstract::A method for quantitative proteomic analysis based on the selective isolation of multiply charged peptides (RH peptides) containing arginine and histidine residues is described. Two pools of proteins are digested in tandem with lysyl-endopeptidase and trypsin and the primary amino groups of proteolytic peptides are se...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.200500836
更新日期:2006-08-01 00:00:00
abstract::Identification of the phosphorylated residues of bacterial Ser/Thr protein kinase (STPK) substrates still represents a challenging task. Herein, we present a new strategy allowing the rapid determination of phosphoacceptors in kinase substrates, essentially based on the dual expression of the kinase with its substrate...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201000316
更新日期:2010-11-01 00:00:00
abstract::Somatic embryogenesis is a biotechnological approach mainly used for the clonal propagation of different plants worldwide. In somatic embryogenesis, embryos arise from somatic cells under appropriate culture conditions. This plasticity in plants is a demonstration of true cellular totipotency and is the best approach ...
journal_title:Proteomics
pub_type: 杂志文章,评审
doi:10.1002/pmic.201700265
更新日期:2018-03-01 00:00:00
abstract::Smut caused by Sporisorium scitamineum is one of the important diseases of sugarcane with global significance. Despite the intriguing nature of sugarcane, S. scitamineum interaction, several pertinent aspects remain unexplored. This study investigates the proteome level alterations occurring in the meristem of a S. sc...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201500245
更新日期:2016-04-01 00:00:00
abstract::Innovation in genomics, transcriptomics, and proteomics research has created a plethora of state-of-the-art techniques such as nucleic acid sequencing and mass-spectrometry-based proteomics with paramount impact in the life sciences. While current approaches yield quantitative abundance analysis of biomolecules on an ...
journal_title:Proteomics
pub_type: 杂志文章,评审
doi:10.1002/pmic.201900368
更新日期:2020-10-08 00:00:00
abstract::In proteomic research, two-dimensional electrophoresis (2-D) is an important tool for investigating differential patterns of qualitative and quantitative protein expression. The strength of the technique is due to its unrivalled power of being able to separate simultaneously thousands of proteins. The key to the compa...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/1615-9861(200107)1:7<856::AID-PROT856>3.0.
更新日期:2001-07-01 00:00:00
abstract::Exercise training has been recommended as a nonpharmacological strategy for the prevention and attenuation of skeletal muscle atrophy in distinct pathophysiological conditions. Despite the well-established phenotypic alterations, the molecular mechanisms underlying exercise-induced skeletal muscle remodeling are poorl...
journal_title:Proteomics
pub_type: 杂志文章,评审
doi:10.1002/pmic.201500382
更新日期:2016-03-01 00:00:00
abstract::Most proteins execute their functions through interacting with other proteins. Thus, understanding protein-protein interactions (PPIs) is essential to decipher biological functions in a living cell. To predict large-scale PPIs, effective and efficient computational approaches are desirable to integrate heterogeneous d...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201200326
更新日期:2013-01-01 00:00:00
abstract::The nucleus is the organelle where basically all DNA-related processes take place in eukaryotes, such as replication, transcription, and splicing as well as epigenetic regulation. The identification and description of the nuclear proteins is one of the requisites toward a comprehensive understanding of the biological ...
journal_title:Proteomics
pub_type: 杂志文章
doi:10.1002/pmic.201400072
更新日期:2014-10-01 00:00:00