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Advancing Top-down Analysis of the Human Proteome Using a Benchtop Quadrupole-Orbitrap Mass Spectrometer.

Fornelli L, Durbin KR, Fellers RT, Early BP, Greer JB, LeDuc RD, Compton PD, Kelleher NL.

J Proteome Res. 2017 Feb 3;16(2):609-618. doi: 10.1021/acs.jproteome.6b00698. Epub 2016 Dec 2.


Mining proteomic data to expose protein modifications in Methanosarcina mazei strain Gö1.

Leon DR, Ytterberg AJ, Boontheung P, Kim U, Loo JA, Gunsalus RP, Ogorzalek Loo RR.

Front Microbiol. 2015 Mar 5;6:149. doi: 10.3389/fmicb.2015.00149. eCollection 2015.


Top Down proteomics: facts and perspectives.

Catherman AD, Skinner OS, Kelleher NL.

Biochem Biophys Res Commun. 2014 Mar 21;445(4):683-93. doi: 10.1016/j.bbrc.2014.02.041. Epub 2014 Feb 17. Review.


Autopilot: an online data acquisition control system for the enhanced high-throughput characterization of intact proteins.

Durbin KR, Fellers RT, Ntai I, Kelleher NL, Compton PD.

Anal Chem. 2014 Feb 4;86(3):1485-92. doi: 10.1021/ac402904h. Epub 2014 Jan 23.


Top-Down Characterization of the Post-Translationally Modified Intact Periplasmic Proteome from the Bacterium Novosphingobium aromaticivorans.

Wu S, Brown RN, Payne SH, Meng D, Zhao R, Tolić N, Cao L, Shukla A, Monroe ME, Moore RJ, Lipton MS, Paša-Tolić L.

Int J Proteomics. 2013;2013:279590. doi: 10.1155/2013/279590. Epub 2013 Mar 10.


Analysis of intact monoclonal antibody IgG1 by electron transfer dissociation Orbitrap FTMS.

Fornelli L, Damoc E, Thomas PM, Kelleher NL, Aizikov K, Denisov E, Makarov A, Tsybin YO.

Mol Cell Proteomics. 2012 Dec;11(12):1758-67. doi: 10.1074/mcp.M112.019620. Epub 2012 Sep 10.


Extreme challenges and advances in archaeal proteomics.

Maupin-Furlow JA, Humbard MA, Kirkland PA.

Curr Opin Microbiol. 2012 Jun;15(3):351-6. doi: 10.1016/j.mib.2012.02.002. Epub 2012 Mar 1. Review.


Nano-LC FTICR tandem mass spectrometry for top-down proteomics: routine baseline unit mass resolution of whole cell lysate proteins up to 72 kDa.

Tipton JD, Tran JC, Catherman AD, Ahlf DR, Durbin KR, Lee JE, Kellie JF, Kelleher NL, Hendrickson CL, Marshall AG.

Anal Chem. 2012 Mar 6;84(5):2111-7. doi: 10.1021/ac202651v. Epub 2012 Feb 22.


Mapping intact protein isoforms in discovery mode using top-down proteomics.

Tran JC, Zamdborg L, Ahlf DR, Lee JE, Catherman AD, Durbin KR, Tipton JD, Vellaichamy A, Kellie JF, Li M, Wu C, Sweet SM, Early BP, Siuti N, LeDuc RD, Compton PD, Thomas PM, Kelleher NL.

Nature. 2011 Oct 30;480(7376):254-8. doi: 10.1038/nature10575.


Protein identification using top-down.

Liu X, Sirotkin Y, Shen Y, Anderson G, Tsai YS, Ting YS, Goodlett DR, Smith RD, Bafna V, Pevzner PA.

Mol Cell Proteomics. 2012 Jun;11(6):M111.008524. doi: 10.1074/mcp.M111.008524. Epub 2011 Oct 25.


Analysis of intact protein isoforms by mass spectrometry.

Tipton JD, Tran JC, Catherman AD, Ahlf DR, Durbin KR, Kelleher NL.

J Biol Chem. 2011 Jul 22;286(29):25451-8. doi: 10.1074/jbc.R111.239442. Epub 2011 Jun 1. Review.


Deconvolution and database search of complex tandem mass spectra of intact proteins: a combinatorial approach.

Liu X, Inbar Y, Dorrestein PC, Wynne C, Edwards N, Souda P, Whitelegge JP, Bafna V, Pevzner PA.

Mol Cell Proteomics. 2010 Dec;9(12):2772-82. doi: 10.1074/mcp.M110.002766. Epub 2010 Sep 20.


Intact mass detection, interpretation, and visualization to automate Top-Down proteomics on a large scale.

Durbin KR, Tran JC, Zamdborg L, Sweet SM, Catherman AD, Lee JE, Li M, Kellie JF, Kelleher NL.

Proteomics. 2010 Oct;10(20):3589-97. doi: 10.1002/pmic.201000177.


Structural characterization of intact proteins is enhanced by prevalent fragmentation pathways rarely observed for peptides.

Cobb JS, Easterling ML, Agar JN.

J Am Soc Mass Spectrom. 2010 Jun;21(6):949-59. doi: 10.1016/j.jasms.2010.02.009. Epub 2010 Feb 11.


High-resolution proteome/peptidome analysis of peptides and low-molecular-weight proteins in urine.

Mischak H, Julian BA, Novak J.

Proteomics Clin Appl. 2007 Jul 10;1(8):792.


H/D exchange and mass spectrometry in the studies of protein conformation and dynamics: is there a need for a top-down approach?

Kaltashov IA, Bobst CE, Abzalimov RR.

Anal Chem. 2009 Oct 1;81(19):7892-9. doi: 10.1021/ac901366n.


Distributive and directional behavior of lantibiotic synthetases revealed by high-resolution tandem mass spectrometry.

Lee MV, Ihnken LA, You YO, McClerren AL, van der Donk WA, Kelleher NL.

J Am Chem Soc. 2009 Sep 2;131(34):12258-64. doi: 10.1021/ja9033507.


Top-down proteomics reveals novel protein forms expressed in Methanosarcina acetivorans.

Ferguson JT, Wenger CD, Metcalf WW, Kelleher NL.

J Am Soc Mass Spectrom. 2009 Sep;20(9):1743-50. doi: 10.1016/j.jasms.2009.05.014. Epub 2009 Jun 6.


Direct quantitation of peptide mixtures without standards using clusters formed by electrospray ionization mass spectrometry.

Leib RD, Flick TG, Williams ER.

Anal Chem. 2009 May 15;81(10):3965-72. doi: 10.1021/ac900294r.

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