%0 Journal Article %J Genome Biology %D 2022 %T Enhanced protein isoform characterization through long-read proteogenomics %A Miller, R. M. %A Jordan, B. %A Mehlferber, M. M. %A Jeffery, E. D. %A Chatzipantsiou, C. %A Kaur, S. %A Millikin, R. J. %A Dai, Y. X. %A Tiberi, S. %A Castaldi, P. J. %A Shortreed, M. R. %A Luckey, C. J. %A Conesa, A. %A Smith, L. M. %A Mays, A. D. %A Sheynkman, G. M. %B Genome Biology %V 23 %8 Mar %@ 1474-760X %G eng %M WOS:000764049100002 %] 69 %R 10.1186/s13059-022-02624-y %0 Journal Article %J Journal of Proteome Research %D 2018 %T Enhanced Global Post-translational Modification Discovery with MetaMorpheus %A Solntsev, S. K. %A Shortreed, M. R. %A Frey, B. L. %A Smith, L. M. %B Journal of Proteome Research %V 17 %P 1844-1851 %8 May %@ 1535-3893 %G eng %R 10.1021/acs.jproteome.7b00873 %0 Journal Article %J Analytical Chemistry %D 2018 %T Expanding Proteoform Identifications in Top-Down Proteomic Analyses by Constructing Proteoform Families %A Schaffer, L. V. %A Shortreed, M. R. %A Cesnik, A. J. %A Frey, B. L. %A Solntsev, S. K. %A Scalf, M. %A Smith, L. M. %B Analytical Chemistry %V 90 %P 1325-1333 %8 Jan %@ 0003-2700 %G eng %R 10.1021/acs.analchem.7b04221 %0 Journal Article %J Journal of Proteome Research %D 2017 %T Elucidating Escherichia coil Proteoform Families Using Intact-Mass Proteomics and a Global PTM Discovery Database %A Dai, Y. X. %A Shortreed, M. R. %A Scalf, M. %A Frey, B. L. %A Cesnik, A. J. %A Solntsev, S. %A Schaffer, L. V. %A Smith, L. M. %B Journal of Proteome Research %V 16 %P 4156-4165 %8 Nov %@ 1535-3893 %G eng %R 10.1021/acs.jproteome.7b00516 %0 Journal Article %J Journal of Proteome Research %D 2017 %T Elucidating Protein-DNA Interactions in Human Alphoid Chromatin via Hybridization Capture and Mass Spectrometry %A Buxton, K. E. %A Kennedy-Darling, J. %A Shortreed, M. R. %A Zaidan, N. Z. %A Olivier, M. %A Scalf, M. %A Sridharan, R. %A Smith, L. M. %B Journal of Proteome Research %V 16 %P 3433-3442 %8 Sep %@ 1535-3893 %G eng %R 10.1021/acs.jproteome.7b00448 %0 Journal Article %J Journal of Proteome Research %D 2016 %T Elucidating Proteoform Families from Proteoform Intact-Mass and Lysine-Count Measurements %A Shortreed, M. R. %A Frey, B. L. %A Scalf, M. %A Knoener, R. A. %A Cesnik, A. J. %A L. M. Smith %B Journal of Proteome Research %V 15 %P 1213-1221 %8 Apr %@ 1535-3893 %G eng %R 10.1021/acs.jproteome.5b01090