Literature DB >> 27629641

Mass-spectrometric exploration of proteome structure and function.

Ruedi Aebersold1,2, Matthias Mann3,4.   

Abstract

Numerous biological processes are concurrently and coordinately active in every living cell. Each of them encompasses synthetic, catalytic and regulatory functions that are, almost always, carried out by proteins organized further into higher-order structures and networks. For decades, the structures and functions of selected proteins have been studied using biochemical and biophysical methods. However, the properties and behaviour of the proteome as an integrated system have largely remained elusive. Powerful mass-spectrometry-based technologies now provide unprecedented insights into the composition, structure, function and control of the proteome, shedding light on complex biological processes and phenotypes.

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Year:  2016        PMID: 27629641     DOI: 10.1038/nature19949

Source DB:  PubMed          Journal:  Nature        ISSN: 0028-0836            Impact factor:   49.962


  118 in total

1.  A human interactome in three quantitative dimensions organized by stoichiometries and abundances.

Authors:  Marco Y Hein; Nina C Hubner; Ina Poser; Jürgen Cox; Nagarjuna Nagaraj; Yusuke Toyoda; Igor A Gak; Ina Weisswange; Jörg Mansfeld; Frank Buchholz; Anthony A Hyman; Matthias Mann
Journal:  Cell       Date:  2015-10-22       Impact factor: 41.582

2.  Parallel Accumulation-Serial Fragmentation (PASEF): Multiplying Sequencing Speed and Sensitivity by Synchronized Scans in a Trapped Ion Mobility Device.

Authors:  Florian Meier; Scarlet Beck; Niklas Grassl; Markus Lubeck; Melvin A Park; Oliver Raether; Matthias Mann
Journal:  J Proteome Res       Date:  2015-11-13       Impact factor: 4.466

Review 3.  Multidimensional proteomics for cell biology.

Authors:  Mark Larance; Angus I Lamond
Journal:  Nat Rev Mol Cell Biol       Date:  2015-04-10       Impact factor: 94.444

4.  OpenSWATH enables automated, targeted analysis of data-independent acquisition MS data.

Authors:  Hannes L Röst; George Rosenberger; Pedro Navarro; Ludovic Gillet; Saša M Miladinović; Olga T Schubert; Witold Wolski; Ben C Collins; Johan Malmström; Lars Malmström; Ruedi Aebersold
Journal:  Nat Biotechnol       Date:  2014-03       Impact factor: 54.908

5.  Global, quantitative and dynamic mapping of protein subcellular localization.

Authors:  Daniel N Itzhak; Stefka Tyanova; Jürgen Cox; Georg Hh Borner
Journal:  Elife       Date:  2016-06-09       Impact factor: 8.140

6.  The quantitative proteome of a human cell line.

Authors:  Martin Beck; Alexander Schmidt; Johan Malmstroem; Manfred Claassen; Alessandro Ori; Anna Szymborska; Franz Herzog; Oliver Rinner; Jan Ellenberg; Ruedi Aebersold
Journal:  Mol Syst Biol       Date:  2011-11-08       Impact factor: 11.429

7.  Targeted peptide measurements in biology and medicine: best practices for mass spectrometry-based assay development using a fit-for-purpose approach.

Authors:  Steven A Carr; Susan E Abbatiello; Bradley L Ackermann; Christoph Borchers; Bruno Domon; Eric W Deutsch; Russell P Grant; Andrew N Hoofnagle; Ruth Hüttenhain; John M Koomen; Daniel C Liebler; Tao Liu; Brendan MacLean; D R Mani; Elizabeth Mansfield; Hendrik Neubert; Amanda G Paulovich; Lukas Reiter; Olga Vitek; Ruedi Aebersold; Leigh Anderson; Robert Bethem; Josip Blonder; Emily Boja; Julianne Botelho; Michael Boyne; Ralph A Bradshaw; Alma L Burlingame; Daniel Chan; Hasmik Keshishian; Eric Kuhn; Christopher Kinsinger; Jerry S H Lee; Sang-Won Lee; Robert Moritz; Juan Oses-Prieto; Nader Rifai; James Ritchie; Henry Rodriguez; Pothur R Srinivas; R Reid Townsend; Jennifer Van Eyk; Gordon Whiteley; Arun Wiita; Susan Weintraub
Journal:  Mol Cell Proteomics       Date:  2014-01-17       Impact factor: 5.911

8.  A draft map of the mouse pluripotent stem cell spatial proteome.

Authors:  Andy Christoforou; Claire M Mulvey; Lisa M Breckels; Aikaterini Geladaki; Tracey Hurrell; Penelope C Hayward; Thomas Naake; Laurent Gatto; Rosa Viner; Alfonso Martinez Arias; Kathryn S Lilley
Journal:  Nat Commun       Date:  2016-01-12       Impact factor: 14.919

9.  Analyzing the first drafts of the human proteome.

Authors:  Iakes Ezkurdia; Jesús Vázquez; Alfonso Valencia; Michael Tress
Journal:  J Proteome Res       Date:  2014-07-16       Impact factor: 4.466

10.  Analytic framework for peptidomics applied to large-scale neuropeptide identification.

Authors:  Anna Secher; Christian D Kelstrup; Kilian W Conde-Frieboes; Charles Pyke; Kirsten Raun; Birgitte S Wulff; Jesper V Olsen
Journal:  Nat Commun       Date:  2016-05-04       Impact factor: 14.919

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  453 in total

Review 1.  Cell-selective proteomics for biological discovery.

Authors:  Shannon E Stone; Weslee S Glenn; Graham D Hamblin; David A Tirrell
Journal:  Curr Opin Chem Biol       Date:  2017-01-12       Impact factor: 8.822

2.  Subresidue-Resolution Footprinting of Ligand-Protein Interactions by Carbene Chemistry and Ion Mobility-Mass Spectrometry.

Authors:  Gaoyuan Lu; Xiaowei Xu; Gongyu Li; Huiyong Sun; Nian Wang; Yinxue Zhu; Ning Wan; Yatao Shi; Guangji Wang; Lingjun Li; Haiping Hao; Hui Ye
Journal:  Anal Chem       Date:  2019-12-11       Impact factor: 6.986

Review 3.  Proteomics and transcriptomics in atrial fibrillation.

Authors:  Marc Sühling; Carmen Wolke; Christian Scharf; Uwe Lendeckel
Journal:  Herzschrittmacherther Elektrophysiol       Date:  2018-01-09

4.  The role of proteomics in assessing beta-cell dysfunction and death in type 1 diabetes.

Authors:  Ernesto S Nakayasu; Wei-Jun Qian; Carmella Evans-Molina; Raghavendra G Mirmira; Decio L Eizirik; Thomas O Metz
Journal:  Expert Rev Proteomics       Date:  2019-06-24       Impact factor: 3.940

5.  Exploring Phosphoinositide Binding Using Native Mass Spectrometry.

Authors:  Julian Bender; Carla Schmidt
Journal:  Methods Mol Biol       Date:  2021

6.  Extensive Peptide Fractionation and y1 Ion-Based Interference Detection Method for Enabling Accurate Quantification by Isobaric Labeling and Mass Spectrometry.

Authors:  Mingming Niu; Ji-Hoon Cho; Kiran Kodali; Vishwajeeth Pagala; Anthony A High; Hong Wang; Zhiping Wu; Yuxin Li; Wenjian Bi; Hui Zhang; Xusheng Wang; Wei Zou; Junmin Peng
Journal:  Anal Chem       Date:  2017-02-22       Impact factor: 6.986

7.  Large-Scale Differentiation and Site Specific Discrimination of Hydroxyproline Isomers by Electron Transfer/Higher-Energy Collision Dissociation (EThcD) Mass Spectrometry.

Authors:  Fengfei Ma; Ruixiang Sun; Daniel M Tremmel; Sara Dutton Sackett; Jon Odorico; Lingjun Li
Journal:  Anal Chem       Date:  2018-04-20       Impact factor: 6.986

Review 8.  Global and site-specific analysis of protein glycosylation in complex biological systems with Mass Spectrometry.

Authors:  Haopeng Xiao; Fangxu Sun; Suttipong Suttapitugsakul; Ronghu Wu
Journal:  Mass Spectrom Rev       Date:  2019-01-03       Impact factor: 10.946

Review 9.  A systems approach to infectious disease.

Authors:  Manon Eckhardt; Judd F Hultquist; Robyn M Kaake; Ruth Hüttenhain; Nevan J Krogan
Journal:  Nat Rev Genet       Date:  2020-02-14       Impact factor: 53.242

10.  Proteomic approaches for cancer epigenetics research.

Authors:  Dylan M Marchione; Benjamin A Garcia; John Wojcik
Journal:  Expert Rev Proteomics       Date:  2018-11-27       Impact factor: 3.940

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