Publications

Export 285 results:
Author Title Type [ Year(Asc)]
2021
Weisbrod C.R, Anderson L.C, Hendrickson C.L, Schaffer L.V, Shortreed M.R, Smith L.M, Shabanowitz J., Hunt D.F.  2021.  Advanced Strategies for Proton-Transfer Reactions Coupled with Parallel Ion Parking on a 21 T FT-ICR MS for Intact Protein Analysis. Analytical Chemistry. 93:9119-9128.
Rolfs Z., Smith L.M.  2021.  Automated Assignment of Proteoform Classification Levels. Journal of Proteome Research. 20:4101-4105.
Shortreed M.R, Millikin R.J, Liu L., Rolfs Z., Miller R.M, Schaffer L.V, Frey B.L, Smith L.M.  2021.  Binary Classifier for Computing Posterior Error Probabilities in MetaMorpheus. Journal of Proteome Research. 20:1997-2004.
Schaffer L.V, Anderson L.C, Butcher D.S, Shortreed M.R, Miller R.M, Pavelec C., Smith L.M.  2021.  Construction of Human Proteoform Families from 21 Tesla Fourier Transform Ion Cyclotron Resonance Mass Spectrometry Top-Down Proteomic Data. Journal of Proteome Research. 20:317-325.
Jia W.Y, Kim S.H, Scalf M.A, Tonzi P., Millikin R.J, Guns W.M, Liu L., Mastrocola A.S, Smith L.M, Huang T.T et al..  2021.  Fused in sarcoma regulates DNA replication timing and kinetics. Journal of Biological Chemistry. 297
Knoener R., Evans E., Becker J.T, Scalf M., Benner B., Sherer N.M, Smith L.M.  2021.  Identification of host proteins differentially associated with HIV-1 RNA splice variants. eLife. 10
Lu L., Scalf M., Shortreed M.R, Smith L.M.  2021.  Mesh Fragmentation Improves Dissociation Efficiency in Top-down Proteomics. 32:1319-1325.
Miller R.M, Ibrahim K., Smith L.M.  2021.  ProteaseGuru: A Tool for Protease Selection in Bottom-Up Proteomics. Journal of Proteome Research. 20:1936-1942.
Yau B., Naghiloo S., Diaz-Vegas A., Carr A.V, Van Gerwen J., Needham E.J, Jevon D., Chen S.Y, Hoehn K.L, Brandon A.E et al..  2021.  Proteomic pathways to metabolic disease and type 2 diabetes in the pancreatic islet. Iscience. 24
Cesnik A.J, Miller R.M, Ibrahim K., Lu L., Millikin R.J, Shortreed M.R, Frey B.L, Smith L.M.  2021.  Spritz: A Proteogenomic Database Engine. Journal of Proteome Research. 20:1826-1834.
2019
Donnelly D.P, Rawlins C.M, DeHart C.J, Fornelli L, Schachner L.F, Lin Z, Lippens J.L, Aluri K.C, Sarin R, Chen B et al..  2019.  Best practices and benchmarks for intact protein analysis for top-down mass spectrometry. Nature methods. 16(7)
Spiniello M., Steinbrink M.I, Cesnik A.J, Miller R.M, Scalf M., Shortreed M.R, Smith L.M.  2019.  Comprehensive in vivo identification of the c-Myc mRNA interactome using HyPR-MS. Cold Spring Harbor Laboratory Press.
Dai Y., Buxton K.E, Schaffer L.V, Miller R.M, Millikin R.J, Scalf M., Frey B.L, Shortreed M.R, Smith L.M.  2019.  Constructing Human Proteoform Families Using Intact-Mass and Top-Down Proteomics with a Multi-Protease Global Post-Translational Modification Discovery Database. Journal of Proteome Research. 18(10)
Ling C., Nishimoto K., Rolfs Z., Smith L.M, Frey B.L, Wellham N.V.  2019.  Differentiated fibrocytes assume a functional mesenchymal phenotype with regenerative potential. Science advances. 5(5)
Holden M.T, Smith L.M.  2019.  Encrypted Oligonucleotide Arrays for Molecular Authentication. ACS Combinatorial Science.
Smith L.M, Thomas P.M, Shortreed M.R, Schaffer L.V, Fellers R.T, LeDuc R.D, Tucholski T., Ge Y., Agar J.A, Anderson L.C et al..  2019.  A five-level classification system for proteoform identifications. Nature methods. 16(10)
Rolfs Z., Solntsev S.K, Shortreed M.R, Frey B.L, Smith L.M.  2019.  Global Identification of Post-Translationally Spliced Peptides with Neo-Fusion. Journal of Proteome Research. 18:349-358.
Mayer K.S, Chen X., Sanders D., Chen J., Jiang J., N P., Scalf M., Smith L.M, Zhong X..  2019.  HDA9-PWR-HOS15 is a core histone deacetylase complex regulating transcription and development. Plant Physiology. 180(1):342-355.
Schaffer L.V, Millikin R.J, Miller R.M, Anderson L.C, Fellers R.T, Ge Y., Kelleher N.L, LeDuc R.D, Liu X., Payne S.H et al..  2019.  Identification and Quantification of Proteoforms by Mass Spectrometry. Proteomics.
Miller R.M, Millikin R.J, Hoffman C.V, Solntsev S.K, Sheynkman G.M, Shortreed M.R, Smith L.M.  2019.  Improved Protein Inference from Multiple Protease Bottom-Up Mass Spectrometry Data. Journal of Proteome Research. 18(9)
Schaffer L.V, Tucholski T., Shortreed M.R, Ge Y., Smith L.M.  2019.  Intact-Mass Analysis Facilitating the Identification of Large Human Heart Proteoforms. Analytical Chemistry. 91(17)

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