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 HCS 830 Proteomics Journal Club

The following is a list of papers available as a PDF file. Click on the first author to access the paper.

To download the free version of Adobe Acrobat Reader click here

Proteomics Presentation (Friday, 07/11/2003)

Protein-Protein interaction

Thorough characterization     

Cantor SB, Bell DW, Ganesan S, Kass EM, Drapkin R, Grossman S, Wahrer DC, Sgroi DC, Lane WS, Haber DA, Livingston DM. BACH1, a novel helicase-like protein, interacts directly with BRCA1 and contributes to its DNA repair function. Cell. 2001 Apr 6;105(1):149-60.

High throughput characterization

von Mering C, Krause R, Snel B, Cornell M, Oliver SG, Fields S, Bork P. Comparative assessment of large-scale data sets of protein-protein interactions. Nature. 2002 May 23;417(6887):399-403.

Ho Y, Gruhler A, Heilbut A, Bader GD, Moore L, Adams SL, Millar A, Taylor P,Bennett K, Boutilier K, Yang L, Wolting C, Donaldson I, Schandorff S, Shewnarane J, Vo M, Taggart J, Goudreault M, Muskat B, Alfarano C, Dewar D, Lin Z, Michalickova K, Willems AR, Sassi H, Nielsen PA, Rasmussen KJ, Andersen JR, Johansen LE, Hansen LH, Jespersen H, Podtelejnikov A, Nielsen E, Crawford J, Poulsen V, Sorensen BD, Matthiesen J, Hendrickson RC, Gleeson F, Pawson T, Moran MF, Durocher D, Mann M, Hogue CW, Figeys D, Tyers M. Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry. Nature. 2002 Jan 10;415(6868):180-3.

Gavin AC, Bosche M, Krause R, Grandi P, Marzioch M, Bauer A, Schultz J, Rick JM, Michon AM, Cruciat CM, Remor M, Hofert C, Schelder M, Brajenovic M, Ruffner H, Merino A, Klein K, Hudak M, Dickson D, Rudi T, Gnau V, Bauch A, Bastuck S, Huhse B, Leutwein C, Heurtier MA, Copley RR, Edelmann A, Querfurth E, Rybin V, Drewes G, Raida M, Bouwmeester T, Bork P, Seraphin B,  Kuster B, Neubauer G, Superti-Furga G. Functional organization of the yeast proteome by systematic analysis of protein complexes. Nature. 2002 Jan 10;415(6868):141-7.

 Kumar A, Snyder M. Protein complexes take the bait. Nature. 2002 Jan 10;415(6868):123-4. (Comment on Ho et al. and Gavin et al.)

 

ICAT

Hansen KC, Schmitt-Ulms G, Chalkley RJ, Hirsch J, Baldwin MA, Burlingame AL. Mass spectrometric analysis of protein mixtures at low levels using cleavable 13C-ICAT and multi-dimensional chromatography. Mol Cell Proteomics. 2003 May 23. 

Ranish JA, Yi EC, Leslie DM, Purvine SO, Goodlett DR, Eng J, Aebersold R.The study of macromolecular complexes by quantitative proteomics. Nat Genet. 2003 Mar;33(3):349-55.

 

Applications 

Mathesius U, Mulders S, Gao M, Teplitski M, Caetano-Anolles G, Rolfe BG, Bauer WD. Extensive and specific responses of a eukaryote to bacterial quorum-sensing signals. Proc Natl Acad Sci U S A. 2003 Feb 4;100(3):1444-9. Epub 2003 Jan 02. 

Hanna SL, Sherman NE, Kinter MT, Goldberg JB Comparison of proteins expressed by Pseudomonas aeruginosa strains representing initial and chronic isolates from a cystic fibrosis patient: an analysis by 2-D gel electrophoresis and capillary column liquid chromatography-tandem mass spectrometry. Microbiology. 2000 Oct;146 ( Pt 10):2495-508. 

Peltier JB, Friso G, Kalume DE, Roepstorff P, Nilsson F, Adamska I, van Wijk KJ. Proteomics of the chloroplast: systematic identification and targeting analysis of lumenal and peripheral thylakoid proteins. Plant Cell. 2000 Mar;12(3):319-41. 

Balmer, Y., Koller, A.,  del Val, G., Manieri, W., Schumann, P., Buchanan, B.B. Proteomics gives insight into the regulatory function of chloroplast thioredoxins.  PNAS 2003.  100 (1):  370-375.

 Islam N, Tsujimoto H, Hirano H. Wheat proteomics: Relationship between fine chromosome deletion and protein expression. Proteomics. 2003 Mar;3(3):307-16.