Literature DB >> 22956100

Complementary proteomic analysis of protein complexes.

Todd M Greco1, Yana Miteva, Frank L Conlon, Ileana M Cristea.   

Abstract

Proteomic characterization of protein complexes leverages the versatile platform of liquid chromatography-tandem mass spectrometry to elucidate molecular and cellular signaling processes underlying the dynamic regulation of macromolecular assemblies. Here, we describe a complementary proteomic approach optimized for immunoisolated protein complexes. As the relative complexity, abundance, and physiochemical properties of proteins can vary significantly between samples, we have provided (1) complementary sample preparation workflows, (2) detailed steps for HPLC and mass spectrometric method development, and (3) a bioinformatic workflow that provides confident peptide/protein identification paired with unbiased functional gene ontology analysis. This protocol can also be extended for characterization of larger complexity samples from whole cell or tissue Xenopus proteomes.

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Year:  2012        PMID： 22956100      PMCID： PMC3616387          DOI： 10.1007/978-1-61779-992-1_22

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN： 1064-3745


  17 in total

1.  Semi-supervised learning for peptide identification from shotgun proteomics datasets.

Authors:  Lukas Käll; Jesse D Canterbury; Jason Weston; William Stafford Noble; Michael J MacCoss
Journal:  Nat Methods       Date:  2007-10-21       Impact factor: 28.547

Review 2.  Affinity separation and enrichment methods in proteomic analysis.

Authors:  Xiangming Fang; Wei-Wei Zhang
Journal:  J Proteomics       Date:  2008-07-01       Impact factor: 4.044

3.  Large-scale analysis of the yeast proteome by multidimensional protein identification technology.

Authors:  M P Washburn; D Wolters; J R Yates
Journal:  Nat Biotechnol       Date:  2001-03       Impact factor: 54.908

4.  Quantitative analysis of complex protein mixtures using isotope-coded affinity tags.

Authors:  S P Gygi; B Rist; S A Gerber; F Turecek; M H Gelb; R Aebersold
Journal:  Nat Biotechnol       Date:  1999-10       Impact factor: 54.908

5.  Full dynamic range proteome analysis of S. cerevisiae by targeted proteomics.

Authors:  Paola Picotti; Bernd Bodenmiller; Lukas N Mueller; Bruno Domon; Ruedi Aebersold
Journal:  Cell       Date:  2009-08-06       Impact factor: 41.582

6.  Proteomic characterization of pseudorabies virus extracellular virions.

Authors:  T Kramer; T M Greco; L W Enquist; I M Cristea
Journal:  J Virol       Date:  2011-04-27       Impact factor: 5.103

7.  Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis.

Authors:  Jesper V Olsen; Michiel Vermeulen; Anna Santamaria; Chanchal Kumar; Martin L Miller; Lars J Jensen; Florian Gnad; Jürgen Cox; Thomas S Jensen; Erich A Nigg; Søren Brunak; Matthias Mann
Journal:  Sci Signal       Date:  2010-01-12       Impact factor: 8.192

8.  Proteomic studies of a single CNS synapse type: the parallel fiber/purkinje cell synapse.

Authors:  Fekrije Selimi; Ileana M Cristea; Elizabeth Heller; Brian T Chait; Nathaniel Heintz
Journal:  PLoS Biol       Date:  2009-04-14       Impact factor: 8.029

9.  A dual pressure linear ion trap Orbitrap instrument with very high sequencing speed.

Authors:  Jesper V Olsen; Jae C Schwartz; Jens Griep-Raming; Michael L Nielsen; Eugen Damoc; Eduard Denisov; Oliver Lange; Philip Remes; Dennis Taylor; Maurizio Splendore; Eloy R Wouters; Michael Senko; Alexander Makarov; Matthias Mann; Stevan Horning
Journal:  Mol Cell Proteomics       Date:  2009-10-14       Impact factor: 5.911

10.  Comparison of extensive protein fractionation and repetitive LC-MS/MS analyses on depth of analysis for complex proteomes.

Authors:  Huan Wang; Tony Chang-Wong; Hsin-Yao Tang; David W Speicher
Journal:  J Proteome Res       Date:  2010-02-05       Impact factor: 4.466
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  12 in total

1.  Discovery of host-viral protein complexes during infection.

Authors:  Daniell L Rowles; Scott S Terhune; Ileana M Cristea
Journal:  Methods Mol Biol       Date:  2013

2.  Red Blood Cell Invasion by the Malaria Parasite Is Coordinated by the PfAP2-I Transcription Factor.

Authors:  Joana Mendonca Santos; Gabrielle Josling; Philipp Ross; Preeti Joshi; Lindsey Orchard; Tracey Campbell; Ariel Schieler; Ileana M Cristea; Manuel Llinás
Journal:  Cell Host Microbe       Date:  2017-06-14       Impact factor: 21.023

3.  Tcf21 regulates the specification and maturation of proepicardial cells.

Authors:  Panna Tandon; Yana V Miteva; Lauren M Kuchenbrod; Ileana M Cristea; Frank L Conlon
Journal:  Development       Date:  2013-05-01       Impact factor: 6.868

4.  Identification of Sirtuin4 (SIRT4) Protein Interactions: Uncovering Candidate Acyl-Modified Mitochondrial Substrates and Enzymatic Regulators.

Authors:  Rommel A Mathias; Todd M Greco; Ileana M Cristea
Journal:  Methods Mol Biol       Date:  2016

5.  Proteomic profiling of cardiac tissue by isolation of nuclei tagged in specific cell types (INTACT).

Authors:  Nirav M Amin; Todd M Greco; Lauren M Kuchenbrod; Maggie M Rigney; Mei-I Chung; John B Wallingford; Ileana M Cristea; Frank L Conlon
Journal:  Development       Date:  2014-02       Impact factor: 6.868

6.  ComGA-RelA interaction and persistence in the Bacillus subtilis K-state.

Authors:  Jeanette Hahn; Andrew W Tanner; Valerie J Carabetta; Ileana M Cristea; David Dubnau
Journal:  Mol Microbiol       Date:  2015-05-15       Impact factor: 3.501

7.  Interactions of the Antiviral Factor Interferon Gamma-Inducible Protein 16 (IFI16) Mediate Immune Signaling and Herpes Simplex Virus-1 Immunosuppression.

Authors:  Benjamin A Diner; Krystal K Lum; Aaron Javitt; Ileana M Cristea
Journal:  Mol Cell Proteomics       Date:  2015-02-18       Impact factor: 5.911

8.  A complex of YlbF, YmcA and YaaT regulates sporulation, competence and biofilm formation by accelerating the phosphorylation of Spo0A.

Authors:  Valerie J Carabetta; Andrew W Tanner; Todd M Greco; Melissa Defrancesco; Ileana M Cristea; David Dubnau
Journal:  Mol Microbiol       Date:  2013-03-12       Impact factor: 3.501

9.  The Proteomic Profile of Deleted in Breast Cancer 1 (DBC1) Interactions Points to a Multifaceted Regulation of Gene Expression.

Authors:  Sophie S B Giguère; Amanda J Guise; Pierre M Jean Beltran; Preeti M Joshi; Todd M Greco; Olivia L Quach; Jeffery Kong; Ileana M Cristea
Journal:  Mol Cell Proteomics       Date:  2015-12-09       Impact factor: 5.911

10.  Complex formation and processing of the minor transformation pilins of Bacillus subtilis.

Authors:  Jessica M Mann; Valerie J Carabetta; Ileana M Cristea; David Dubnau
Journal:  Mol Microbiol       Date:  2013-10-29       Impact factor: 3.501
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