EuPA Open Proteomics最新文献_第9页

Measuring proteins’ activity, quantity and function by multiplexed Bead-Arrays – Applications in biomedical research 用多路头阵列测量蛋白质的活性、数量和功能-在生物医学研究中的应用

EuPA Open Proteomics Pub Date : 2014-12-01 DOI: 10.1016/j.euprot.2014.09.014

Oliver Pötz

引用次数: 0

MS approaches to select peptides with post-translational modifications from amphibian defense secretions prior to full sequence elucidation 在完整序列阐明之前，用质谱方法从两栖动物防御分泌物中选择翻译后修饰的肽

EuPA Open Proteomics Pub Date : 2014-12-01 DOI: 10.1016/j.euprot.2014.11.001

Martijn Pinkse , Geisa Evaristo , Mervin Pieterse , Yuanjie Yu , Peter Verhaert

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引用次数: 9

Human maternal plasma proteomic changes with parturition 人母体血浆蛋白质组学随分娩的变化

EuPA Open Proteomics Pub Date : 2014-12-01 DOI: 10.1016/j.euprot.2014.09.001

Robert J. Phillips , Kate J. Heesom , Johanna Trinder , Andrés López Bernal

{"title":"Human maternal plasma proteomic changes with parturition","authors":"Robert J. Phillips , Kate J. Heesom , Johanna Trinder , Andrés López Bernal","doi":"10.1016/j.euprot.2014.09.001","DOIUrl":"10.1016/j.euprot.2014.09.001","url":null,"abstract":"<div><p>The powerful proteomic technique of Tandem Mass Tag labelling with Orbitrap mass spectrometry was applied to the quantification of relative levels of proteins in serial plasma samples from 15 women prior to and during labour. Quantitative data were obtained for 1038 proteins, with 217 quantified in ≥10 sample pairs. Most proteins were unaffected by labour, 32 had lower levels in labour, and two were increased in labour, and the <em>t</em> test had sufficient power to determine a significant difference in expression in 14 proteins. ELISA confirmed the significant increase of acute phase response components C-reactive protein and serum amyloid A.</p></div><div><h3>Significance</h3><p>Proteomic technology is constantly advancing, and the latest techniques enable gel-free analysis of minimally preprocessed, complex biological samples, enabling simultaneous identification and quantification of many hundreds of proteins. The technique of TMT labelling and Orbitrap mass spectrometry is applicable to the analysis of serial maternal plasma samples in order to identify potential markers of the onset of labour.</p></div>","PeriodicalId":38260,"journal":{"name":"EuPA Open Proteomics","volume":"5 ","pages":"Pages 10-20"},"PeriodicalIF":0.0,"publicationDate":"2014-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/j.euprot.2014.09.001","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"54257127","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 5

Proteomics beyond boundaries with a new UHR-QTOF system 新的UHR-QTOF系统超越了蛋白质组学的界限

EuPA Open Proteomics Pub Date : 2014-12-01 DOI: 10.1016/j.euprot.2014.09.013

Carsten Baessmann

引用次数: 0

Towards automated discrimination of lipids versus peptides from full scan mass spectra 脂质与多肽全扫描质谱自动鉴别研究

EuPA Open Proteomics Pub Date : 2014-09-01 DOI: 10.1016/j.euprot.2014.05.002

Piotr Dittwald , Trung Nghia Vu , Glenn A. Harris , Richard M. Caprioli , Raf Van de Plas , Kris Laukens , Anna Gambin , Dirk Valkenborg

{"title":"Towards automated discrimination of lipids versus peptides from full scan mass spectra","authors":"Piotr Dittwald , Trung Nghia Vu , Glenn A. Harris , Richard M. Caprioli , Raf Van de Plas , Kris Laukens , Anna Gambin , Dirk Valkenborg","doi":"10.1016/j.euprot.2014.05.002","DOIUrl":"10.1016/j.euprot.2014.05.002","url":null,"abstract":"<div><p>Although physicochemical fractionation techniques play a crucial role in the analysis of complex mixtures, they are not necessarily the best solution to separate specific molecular classes, such as lipids and peptides. Any physical fractionation step such as, for example, those based on liquid chromatography, will introduce its own variation and noise. In this paper we investigate to what extent the high sensitivity and resolution of contemporary mass spectrometers offers viable opportunities for computational separation of signals in full scan spectra. We introduce an automatic method that can discriminate peptide from lipid peaks in full scan mass spectra, based on their isotopic properties. We systematically evaluate which features maximally contribute to a peptide versus lipid classification. The selected features are subsequently used to build a random forest classifier that enables almost perfect separation between lipid and peptide signals without requiring ion fragmentation and classical tandem MS-based identification approaches. The classifier is trained on <em>in silico</em> data, but is also capable of discriminating signals in real world experiments. We evaluate the influence of typical data inaccuracies of common classes of mass spectrometry instruments on the optimal set of discriminant features. Finally, the method is successfully extended towards the classification of individual lipid classes from full scan mass spectral features, based on input data defined by the Lipid Maps Consortium.</p></div>","PeriodicalId":38260,"journal":{"name":"EuPA Open Proteomics","volume":"4 ","pages":"Pages 87-100"},"PeriodicalIF":0.0,"publicationDate":"2014-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/j.euprot.2014.05.002","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"32828650","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 5

Proteomic insights into non-small cell lung cancer: New ideas for cancer diagnosis and therapy from a functional viewpoint 非小细胞肺癌的蛋白质组学研究:从功能角度为癌症诊断和治疗提供新思路

EuPA Open Proteomics Pub Date : 2014-09-01 DOI: 10.1016/j.euprot.2014.05.004

Johannes Linxweiler , Laxmikanth Kollipara , René P. Zahedi , Pavel Lampel , Richard Zimmermann , Markus Greiner

引用次数: 9

The membrane complexome of a new Pseudomonas strain during growth on lysogeny broth medium and medium containing glucose or phenol 一株新假单胞菌在溶菌肉汤培养基和含葡萄糖或苯酚培养基上生长过程中的膜复合物

EuPA Open Proteomics Pub Date : 2014-09-01 DOI: 10.1016/j.euprot.2014.04.003

Antigoni Nikolaki , Anastasia Papadioti , Katerina Arvaniti , Eleni Kassotaki , Julian D. Langer , Georgios Tsiotis

引用次数: 3

Approach to spot overlapping problem in 2D-PAGE revealed clinical and functional significance of RKIP and MnSOD in renal cell carcinoma 利用2D-PAGE发现重叠问题的方法揭示了RKIP和MnSOD在肾癌中的临床和功能意义

EuPA Open Proteomics Pub Date : 2014-09-01 DOI: 10.1016/j.euprot.2014.06.005

Noriyuki Hosoya , Marimu Sakumoto , Yoshihiko Tomita , Tadashi Kondo

引用次数: 3

Simple detection of phosphoproteins in SDS-PAGE by quercetin 槲皮素对SDS-PAGE中磷酸化蛋白的简单检测

EuPA Open Proteomics Pub Date : 2014-09-01 DOI: 10.1016/j.euprot.2014.07.002

Xi Wang , Maowei Ni , Chao Niu , Xinliang Zhu , Ting Zhao , Zhongxin Zhu , Yuanhu Xuan , Weitao Cong

引用次数: 9

Proteome profiling illustrated by a large-scale fed-batch fermentation of Penicillium chrysogenum 蛋白质组分析说明了大规模饲料分批发酵青霉菌

EuPA Open Proteomics Pub Date : 2014-09-01 DOI: 10.1016/j.euprot.2014.06.002

Michaela Helmel , Andreas Posch , Christoph Herwig , Günter Allmaier , Martina Marchetti-Deschmann

引用次数: 3