Publications

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2022
Hansen S.R, White D.S, Scalf M., Correa I.R, Smith L.M, Hoskins A.A, Staley J.P.  2022.  Multi-step recognition of potential 5' splice sites by the Saccharomyces cerevisiae U1 snRNP. eLife. 11
Plubell D.L, Kall L., Webb-Robertson B.J, Bramer L.M, Ives A., Kelleher N.L, Smith L.M, Montine T.J, Wu C.C, MacCoss M.J.  2022.  Putting Humpty Dumpty Back Together Again: What Does Protein Quantification Mean in Bottom-Up Proteomics? br Journal of Proteome Research. 21:891-898.
Plubell D.L, Kall L., Webb-Robertson B.J, Bramer L.M, Ives A., Kelleher N.L, Smith L.M, Montine T.J, Wu C.C, MacCoss M.J.  2022.  Putting Humpty Dumpty Back Together Again: What Does Protein Quantification Mean in Bottom-Up Proteomics? br Journal of Proteome Research. 21:891-898.
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., Frey B.L, Shi X.D, Kawai Y., Smith L.M, Welham N.V.  2021.  An atlas of protein turnover rates in mouse tissues. Nature Communications. 12
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)
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)
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)
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.
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.
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.
2018
Zaidan N.Z, Walker K.J, Brown J.E, Schaffer L.V, Scalf M., Shortreed M.R, Iyer G., Smith L.M, Sridharan R..  2018.  Compartmentalization of HP1 Proteins in Pluripotency Acquisition and Maintenance. Stem Cell Reports. 10:627-641.
Aebersold R., Agar J.N, Amster I.J, Baker M.S, Bertozzi C.R, Boja E.S, Costello C.E, Cravatt B.F, Fenselau C., Garcia B.A et al..  2018.  How many human proteoforms are there? Nature Chemical Biology. 14:206-214.
Aebersold R., Agar J.N, Amster I.J, Baker M.S, Bertozzi C.R, Boja E.S, Costello C.E, Cravatt B.F, Fenselau C., Garcia B.A et al..  2018.  How many human proteoforms are there? Nature Chemical Biology. 14:206-214.
Aebersold R., Agar J.N, Amster I.J, Baker M.S, Bertozzi C.R, Boja E.S, Costello C.E, Cravatt B.F, Fenselau C., Garcia B.A et al..  2018.  How many human proteoforms are there? Nature Chemical Biology. 14:206-214.
Aebersold R., Agar J.N, Amster I.J, Baker M.S, Bertozzi C.R, Boja E.S, Costello C.E, Cravatt B.F, Fenselau C., Garcia B.A et al..  2018.  How many human proteoforms are there? Nature Chemical Biology. 14:206-214.
Aebersold R., Agar J.N, Amster I.J, Baker M.S, Bertozzi C.R, Boja E.S, Costello C.E, Cravatt B.F, Fenselau C., Garcia B.A et al..  2018.  How many human proteoforms are there? Nature Chemical Biology. 14:206-214.
2017
Li Q., Shortreed M.R, Wenger C.D, Frey B.L, Schaffer L.V, Scalf M., Smith L.M.  2017.  Global Post-Translational Modification Discovery. J Proteome Res.
2016
Li Q.Y, Chang Z., Oliveira G., Xiong M., Smith L.M, Frey B.L, Welham N.V.  2016.  Protein turnover during in vitro tissue engineering. Biomaterials. 81:104-113.
Li Q.Y, Uygun B.E, Geerts S., Ozer S., Scalf M., Gilpin S.E, Ott H.C, Yarmush M.L, Smith L.M, Welham N.V et al..  2016.  Proteomic analysis of naturally-sourced biological scaffolds. Biomaterials. 75:37-46.
2015
Ling C.Y, Li Q.Y, Brown M.E, Kishimoto Y., Toya Y., Devine E.E, Choi K.O, Nishimoto K., Norman I.G, Tsegyal T. et al..  2015.  Bioengineered vocal fold mucosa for voice restoration. Science Translational Medicine. 7
Shortreed M.R, Wenger C.D, Frey B.L, Sheynkman G.M, Scalf M., Keller M.P, Attie A.D, Smith L.M.  2015.  Global Identification of Protein Post-translational Modifications in a Single-Pass Database Search. Journal of Proteome Research. 14:4714-4720.
Holden M.T, Carter M.CD, Wu C.H, Wolfer J., Codner E., Sussman M.R, Lynn D.M, Smith L.M.  2015.  Photolithographic Synthesis of High-Density DNA and RNA Arrays on Flexible, Transparent, and Easily Subdivided Plastic Substrates. Analytical Chemistry. 87:11420-11428.
Holden M.T, Carter M.CD, Wu C.H, Wolfer J., Codner E., Sussman M.R, Lynn D.M, Smith L.M.  2015.  Photolithographic Synthesis of High-Density DNA and RNA Arrays on Flexible, Transparent, and Easily Subdivided Plastic Substrates. Analytical Chemistry. 87:11420-11428.
2014
Jagtap P.D, Johnson J.E, Onsongo G., Sadler F.W, Murray K., Wang Y.B, Shenykrnan G.M, Bandhakavi S., Smith L.M, Griffin T.J.  2014.  Flexible and Accessible Workflows for Improved Proteogenomic Analysis Using the Galaxy Framework. Journal of Proteome Research. 13:5898-5908.

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