Literature DB >> 19038371

A label free quantitative proteomic analysis of the Saccharomyces cerevisiae nucleus.

Amber L Mosley1, Laurence Florens, Zhihui Wen, Michael P Washburn.   

Abstract

To gain insight into the nuclear proteome of Saccharomyces cerevisiae, nuclei were isolated and fractionated via sucrose gradient sedimentation. The resulting fractions were analyzed using multidimensional protein identification technology and the detected proteins were quantified using normalized spectral counts. A large number of low abundance proteins, many of which are involved in transcriptional regulation, were recovered. Sucrose gradient elution profiles of known protein complex components demonstrated that this approach may provide insight into the question of what percentage of the total population of a protein is in one complex, versus another protein complex, or exists as a free protein.

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Year:  2008        PMID: 19038371      PMCID: PMC2738996          DOI: 10.1016/j.jprot.2008.10.008

Source DB:  PubMed          Journal:  J Proteomics        ISSN: 1874-3919            Impact factor:   4.044


  40 in total

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2.  Tandem MS analysis of brain clathrin-coated vesicles reveals their critical involvement in synaptic vesicle recycling.

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Journal:  Proc Natl Acad Sci U S A       Date:  2004-03-08       Impact factor: 11.205

3.  Exponentially modified protein abundance index (emPAI) for estimation of absolute protein amount in proteomics by the number of sequenced peptides per protein.

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Journal:  Mol Cell Proteomics       Date:  2005-06-14       Impact factor: 5.911

4.  The molecular architecture of the nuclear pore complex.

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Journal:  Nature       Date:  2007-11-29       Impact factor: 49.962

5.  Histone crosstalk between H2B monoubiquitination and H3 methylation mediated by COMPASS.

Authors:  Jung-Shin Lee; Abhijit Shukla; Jessica Schneider; Selene K Swanson; Michael P Washburn; Laurence Florens; Sukesh R Bhaumik; Ali Shilatifard
Journal:  Cell       Date:  2007-12-14       Impact factor: 41.582

6.  Spectral index for assessment of differential protein expression in shotgun proteomics.

Authors:  Xiaoyun Fu; Sina A Gharib; Pattie S Green; Moira L Aitken; David A Frazer; David R Park; Tomas Vaisar; Jay W Heinecke
Journal:  J Proteome Res       Date:  2008-01-17       Impact factor: 4.466

7.  Histone H3 methylation by Set2 directs deacetylation of coding regions by Rpd3S to suppress spurious intragenic transcription.

Authors:  Michael J Carrozza; Bing Li; Laurence Florens; Tamaki Suganuma; Selene K Swanson; Kenneth K Lee; Wei-Jong Shia; Scott Anderson; John Yates; Michael P Washburn; Jerry L Workman
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8.  Molecular regulation of histone H3 trimethylation by COMPASS and the regulation of gene expression.

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9.  Global analysis of protein expression in yeast.

Authors:  Sina Ghaemmaghami; Won-Ki Huh; Kiowa Bower; Russell W Howson; Archana Belle; Noah Dephoure; Erin K O'Shea; Jonathan S Weissman
Journal:  Nature       Date:  2003-10-16       Impact factor: 49.962

10.  Protein abundance profiling of the Escherichia coli cytosol.

Authors:  Yasushi Ishihama; Thorsten Schmidt; Juri Rappsilber; Matthias Mann; F Ulrich Hartl; Michael J Kerner; Dmitrij Frishman
Journal:  BMC Genomics       Date:  2008-02-27       Impact factor: 3.969

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  22 in total

1.  Relative, label-free protein quantitation: spectral counting error statistics from nine replicate MudPIT samples.

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2.  Highly reproducible label free quantitative proteomic analysis of RNA polymerase complexes.

Authors:  Amber L Mosley; Mihaela E Sardiu; Samantha G Pattenden; Jerry L Workman; Laurence Florens; Michael P Washburn
Journal:  Mol Cell Proteomics       Date:  2010-11-03       Impact factor: 5.911

3.  Assessment of a method to characterize antibody selectivity and specificity for use in immunoprecipitation.

Authors:  Edyta Marcon; Harshika Jain; Anandi Bhattacharya; Hongbo Guo; Sadhna Phanse; Shuye Pu; Gregory Byram; Ben C Collins; Evan Dowdell; Maria Fenner; Xinghua Guo; Ashley Hutchinson; Jacob J Kennedy; Bryan Krastins; Brett Larsen; Zhen-Yuan Lin; Mary F Lopez; Peter Loppnau; Shane Miersch; Tin Nguyen; Jonathan B Olsen; Marcin Paduch; Mani Ravichandran; Alma Seitova; Gouri Vadali; Maryann S Vogelsang; Jeffrey R Whiteaker; Guoqing Zhong; Nan Zhong; Lei Zhao; Ruedi Aebersold; Cheryl H Arrowsmith; Andrew Emili; Lori Frappier; Anne-Claude Gingras; Matthias Gstaiger; Amanda G Paulovich; Shohei Koide; Anthony A Kossiakoff; Sachdev S Sidhu; Shoshana J Wodak; Susanne Gräslund; Jack F Greenblatt; Aled M Edwards
Journal:  Nat Methods       Date:  2015-06-29       Impact factor: 28.547

4.  Protein changes in immunodepleted cerebrospinal fluid from a transgenic mouse model of Alexander disease detected using mass spectrometry.

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Review 5.  Protein analysis by shotgun/bottom-up proteomics.

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7.  A metazoan ATAC acetyltransferase subunit that regulates mitogen-activated protein kinase signaling is related to an ancient molybdopterin synthase component.

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8.  A novel histone fold domain-containing protein that replaces TAF6 in Drosophila SAGA is required for SAGA-dependent gene expression.

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Journal:  Genes Dev       Date:  2009-12-15       Impact factor: 11.361

Review 9.  Proteomics of Saccharomyces cerevisiae Organelles.

Authors:  Elena Wiederhold; Liesbeth M Veenhoff; Bert Poolman; Dirk Jan Slotboom
Journal:  Mol Cell Proteomics       Date:  2009-12-01       Impact factor: 5.911

10.  Discovery of novel disease-specific and membrane-associated candidate markers in a mouse model of multiple sclerosis.

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Journal:  Mol Cell Proteomics       Date:  2013-12-20       Impact factor: 5.911

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