Literature DB >> 23319436

Interlaboratory studies and initiatives developing standards for proteomics.

Alexander R Ivanov1, Christopher M Colangelo, Craig P Dufresne, David B Friedman, Kathryn S Lilley, Karl Mechtler, Brett S Phinney, Kristie L Rose, Paul A Rudnick, Brian C Searle, Scott A Shaffer, Susan T Weintraub.   

Abstract

Proteomics is a rapidly transforming interdisciplinary field of research that embraces a diverse set of analytical approaches to tackle problems in fundamental and applied biology. This viewpoint article highlights the benefits of interlaboratory studies and standardization initiatives to enable investigators to address many of the challenges found in proteomics research. Among these initiatives, we discuss our efforts on a comprehensive performance standard for characterizing PTMs by MS that was recently developed by the Association of Biomolecular Resource Facilities (ABRF) Proteomics Standards Research Group (sPRG).
© 2013 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Entities:  

Mesh：

Substances：

Year:  2013        PMID： 23319436      PMCID： PMC3863631          DOI： 10.1002/pmic.201200532

Source DB:  PubMed          Journal:  Proteomics        ISSN： 1615-9853            Impact factor:   3.984


  42 in total

1.  Common interchange standards for proteomics data: Public availability of tools and schema.

Authors:  Sandra Orchard; Henning Hermjakob; Randall K Julian; Kai Runte; David Sherman; Jérôme Wojcik; Weimin Zhu; Rolf Apweiler
Journal:  Proteomics       Date:  2004-02       Impact factor: 3.984

Review 2.  Antibody-based proteomics for human tissue profiling.

Authors:  Mathias Uhlen; Fredrik Ponten
Journal:  Mol Cell Proteomics       Date:  2005-02-05       Impact factor: 5.911

3.  HUPO Plasma Proteome Project specimen collection and handling: towards the standardization of parameters for plasma proteome samples.

Authors:  Alex J Rai; Craig A Gelfand; Bruce C Haywood; David J Warunek; Jizu Yi; Mark D Schuchard; Richard J Mehigh; Steven L Cockrill; Graham B I Scott; Harald Tammen; Peter Schulz-Knappe; David W Speicher; Frank Vitzthum; Brian B Haab; Gerard Siest; Daniel W Chan
Journal:  Proteomics       Date:  2005-08       Impact factor: 3.984

Review 4.  Mass spectrometry and protein analysis.

Authors:  Bruno Domon; Ruedi Aebersold
Journal:  Science       Date:  2006-04-14       Impact factor: 47.728

5.  ProteomeBinders: planning a European resource of affinity reagents for analysis of the human proteome.

Authors:  Michael J Taussig; Oda Stoevesandt; Carl A K Borrebaeck; Andrew R Bradbury; Dolores Cahill; Christian Cambillau; Antoine de Daruvar; Stefan Dübel; Jutta Eichler; Ronald Frank; Toby J Gibson; David Gloriam; Larry Gold; Friedrich W Herberg; Henning Hermjakob; Jörg D Hoheisel; Thomas O Joos; Olli Kallioniemi; Manfred Koegl; Manfred Koegll; Zoltán Konthur; Bernhard Korn; Elisabeth Kremmer; Sylvia Krobitsch; Ulf Landegren; Silvère van der Maarel; John McCafferty; Serge Muyldermans; Per-Ake Nygren; Sandrine Palcy; Andreas Plückthun; Bojan Polic; Michael Przybylski; Petri Saviranta; Alan Sawyer; David J Sherman; Arne Skerra; Markus Templin; Marius Ueffing; Mathias Uhlén
Journal:  Nat Methods       Date:  2007-01       Impact factor: 28.547

6.  Geographical focus. Proteomics initiatives in Spain: ProteoRed.

Authors:  Alberto Paradela; Pedro-Ramón Escuredo; Juan-Pablo Albar
Journal:  Proteomics       Date:  2006-09       Impact factor: 3.984

Review 7.  The minimum information about a proteomics experiment (MIAPE).

Authors:  Chris F Taylor; Norman W Paton; Kathryn S Lilley; Pierre-Alain Binz; Randall K Julian; Andrew R Jones; Weimin Zhu; Rolf Apweiler; Ruedi Aebersold; Eric W Deutsch; Michael J Dunn; Albert J R Heck; Alexander Leitner; Marcus Macht; Matthias Mann; Lennart Martens; Thomas A Neubert; Scott D Patterson; Peipei Ping; Sean L Seymour; Puneet Souda; Akira Tsugita; Joel Vandekerckhove; Thomas M Vondriska; Julian P Whitelegge; Marc R Wilkins; Ioannnis Xenarios; John R Yates; Henning Hermjakob
Journal:  Nat Biotechnol       Date:  2007-08       Impact factor: 54.908

8.  mzML--a community standard for mass spectrometry data.

Authors:  Lennart Martens; Matthew Chambers; Marc Sturm; Darren Kessner; Fredrik Levander; Jim Shofstahl; Wilfred H Tang; Andreas Römpp; Steffen Neumann; Angel D Pizarro; Luisa Montecchi-Palazzi; Natalie Tasman; Mike Coleman; Florian Reisinger; Puneet Souda; Henning Hermjakob; Pierre-Alain Binz; Eric W Deutsch
Journal:  Mol Cell Proteomics       Date:  2010-08-17       Impact factor: 5.911

9.  A uniform proteomics MS/MS analysis platform utilizing open XML file formats.

Authors:  Andrew Keller; Jimmy Eng; Ning Zhang; Xiao-jun Li; Ruedi Aebersold
Journal:  Mol Syst Biol       Date:  2005-08-02       Impact factor: 11.429

10.  A common open representation of mass spectrometry data and its application to proteomics research.

Authors:  Patrick G A Pedrioli; Jimmy K Eng; Robert Hubley; Mathijs Vogelzang; Eric W Deutsch; Brian Raught; Brian Pratt; Erik Nilsson; Ruth H Angeletti; Rolf Apweiler; Kei Cheung; Catherine E Costello; Henning Hermjakob; Sequin Huang; Randall K Julian; Eugene Kapp; Mark E McComb; Stephen G Oliver; Gilbert Omenn; Norman W Paton; Richard Simpson; Richard Smith; Chris F Taylor; Weimin Zhu; Ruedi Aebersold
Journal:  Nat Biotechnol       Date:  2004-11       Impact factor: 54.908
View more
  7 in total

1.  Mass Spectral Analysis of Synthetic Peptides: Implications in Proteomics.

Authors:  Medicharala Venkata Jagannadham; Pratap Gayatri; Taniya Mary Binny; Bathisaran Raman; Duvvuri Butchi Kameshwari; Ramakrishnan Nagaraj
Journal:  J Biomol Tech       Date:  2021-04

2.  Challenges and Opportunities for Biological Mass Spectrometry Core Facilities in the Developing World.

Authors:  Liam Bell; Bridget Calder; Reinhard Hiller; Ashwil Klein; Nelson C Soares; Stoyan H Stoychev; Barend C Vorster; David L Tabb
Journal:  J Biomol Tech       Date:  2018-03-23

Review 3.  A Review of the Scientific Rigor, Reproducibility, and Transparency Studies Conducted by the ABRF Research Groups.

Authors:  Sheenah M Mische; Nancy C Fisher; Susan M Meyn; Katia Sol-Church; Rebecca L Hegstad-Davies; Frances Weis-Garcia; Marie Adams; John M Ashton; Kym M Delventhal; Julie A Dragon; Laura Holmes; Pratik Jagtap; Kristopher E Kubow; Christopher E Mason; Magnus Palmblad; Brian C Searle; Christoph W Turck; Kevin L Knudtson
Journal:  J Biomol Tech       Date:  2020-04

4.  qcML: an exchange format for quality control metrics from mass spectrometry experiments.

Authors:  Mathias Walzer; Lucia Espona Pernas; Sara Nasso; Wout Bittremieux; Sven Nahnsen; Pieter Kelchtermans; Peter Pichler; Henk W P van den Toorn; An Staes; Jonathan Vandenbussche; Michael Mazanek; Thomas Taus; Richard A Scheltema; Christian D Kelstrup; Laurent Gatto; Bas van Breukelen; Stephan Aiche; Dirk Valkenborg; Kris Laukens; Kathryn S Lilley; Jesper V Olsen; Albert J R Heck; Karl Mechtler; Ruedi Aebersold; Kris Gevaert; Juan Antonio Vizcaíno; Henning Hermjakob; Oliver Kohlbacher; Lennart Martens
Journal:  Mol Cell Proteomics       Date:  2014-04-23       Impact factor: 5.911

5.  Proteomics Is Analytical Chemistry: Fitness-for-Purpose in the Application of Top-Down and Bottom-Up Analyses.

Authors:  Jens R Coorssen; Alfred L Yergey
Journal:  Proteomes       Date:  2015-12-03

Review 6.  Integrated Chemometrics and Statistics to Drive Successful Proteomics Biomarker Discovery.

Authors:  Anouk Suppers; Alain J van Gool; Hans J C T Wessels
Journal:  Proteomes       Date:  2018-04-26

7.  Harmonizing lipidomics: NIST interlaboratory comparison exercise for lipidomics using SRM 1950-Metabolites in Frozen Human Plasma.

Authors:  John A Bowden; Alan Heckert; Candice Z Ulmer; Christina M Jones; Jeremy P Koelmel; Laila Abdullah; Linda Ahonen; Yazen Alnouti; Aaron M Armando; John M Asara; Takeshi Bamba; John R Barr; Jonas Bergquist; Christoph H Borchers; Joost Brandsma; Susanne B Breitkopf; Tomas Cajka; Amaury Cazenave-Gassiot; Antonio Checa; Michelle A Cinel; Romain A Colas; Serge Cremers; Edward A Dennis; James E Evans; Alexander Fauland; Oliver Fiehn; Michael S Gardner; Timothy J Garrett; Katherine H Gotlinger; Jun Han; Yingying Huang; Aveline Huipeng Neo; Tuulia Hyötyläinen; Yoshihiro Izumi; Hongfeng Jiang; Houli Jiang; Jiang Jiang; Maureen Kachman; Reiko Kiyonami; Kristaps Klavins; Christian Klose; Harald C Köfeler; Johan Kolmert; Therese Koal; Grielof Koster; Zsuzsanna Kuklenyik; Irwin J Kurland; Michael Leadley; Karen Lin; Krishna Rao Maddipati; Danielle McDougall; Peter J Meikle; Natalie A Mellett; Cian Monnin; M Arthur Moseley; Renu Nandakumar; Matej Oresic; Rainey Patterson; David Peake; Jason S Pierce; Martin Post; Anthony D Postle; Rebecca Pugh; Yunping Qiu; Oswald Quehenberger; Parsram Ramrup; Jon Rees; Barbara Rembiesa; Denis Reynaud; Mary R Roth; Susanne Sales; Kai Schuhmann; Michal Laniado Schwartzman; Charles N Serhan; Andrej Shevchenko; Stephen E Somerville; Lisa St John-Williams; Michal A Surma; Hiroaki Takeda; Rhishikesh Thakare; J Will Thompson; Federico Torta; Alexander Triebl; Martin Trötzmüller; S J Kumari Ubhayasekera; Dajana Vuckovic; Jacquelyn M Weir; Ruth Welti; Markus R Wenk; Craig E Wheelock; Libin Yao; Min Yuan; Xueqing Heather Zhao; Senlin Zhou
Journal:  J Lipid Res       Date:  2017-10-06       Impact factor: 5.922
  7 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.