Lisa Jones

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Title(s)	Professor, Chemistry and Biochemistry
School	Vc-academic Affairs
Address	9500 Gilman Drive # La Jolla CA 92093
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Research

research activities and funding

Protein Footprinting Coupled to Mass Spectrometry for the Study of Protein Higher Order Structure in Complex Model Systems
NIH R35GM144324Sep 21, 2022 - Aug 31, 2027
Role: Principal Investigator

Development of a novel pulse-chase in-cell footprinting method for protein folding analysis
NIH R01GM128985Aug 1, 2018 - Apr 30, 2022
Role: Principal Investigator

Development of an In Vivo Footprinting Method Coupled with Mass Spectrometry in C. elegans
NIH R01GM127595Jun 1, 2018 - Mar 31, 2022
Role: Principal Investigator

Bibliographic

Publications

Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.

Altmetrics Details

PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.

Recommendations and considerations for hydroxyl radical protein footprinting-mass spectrometry. Nat Methods. 2026 May 14. Wecksler AT, Wang L, Bernstein LJ, Huang RY, Gupta S, Kristensen LG, Ralston CY, Sobott F, Sun Y, Brenowitz M, Farquhar ER, Chance MR, Kuang XC, Gross ML, Jones LM, Novak P, Misra SK, Sharp JS. PMID: 42135487.

View in: PubMed Mentions: Fields:
Cli Clinical Laboratory Techniques
Radical footprinting in mammalian whole blood. Nat Commun. 2026 02 07; 17(1). Zhao M, Tobin L, Misra SK, Shami AA, Sharma A, Locklar J, Mobarak SA, Luo H, Jones LM, Stewart JA, Sharp JS. PMID: 41654491; PMCID: PMC12992662.

View in: PubMed Mentions: Fields:
Bio Biology Sci Science
Translation:Humans Animals Cells
Improved High-Throughput Platform for In-Cell Fast Photochemical Oxidation of Proteins via an Automated XY Stage (AXYS). J Am Soc Mass Spectrom. 2026 Mar 04; 37(3):710-716. Morris JJ, Lee C, Thai TQ, Jones LM. PMID: 41649372; PMCID: PMC12964522.

View in: PubMed Mentions: Fields:
Che Chemistry Techniques
Translation:Cells
Radical Footprinting in Mammalian Whole Blood. bioRxiv. 2025 May 28. Zhao M, Tobin L, Misra SK, Sharma A, Locklar J, Shami A, Mobarak S, Luo H, Jones LM, Stewart JA, Sharp JS. PMID: 39386581; PMCID: PMC11463377.

View in: PubMed Mentions:
Covalent Labeling Automated Data Analysis Platform for High Throughput in R (coADAPTr): A Proteome-Wide Data Analysis Platform for Covalent Labeling Experiments. J Am Soc Mass Spectrom. 2024 Dec 04; 35(12):3301-3307. Shortt RL, Pino LK, Chea EE, Ramirez CR, Polasky DA, Nesvizhskii AI, Jones LM. PMID: 39356573; PMCID: PMC11622367.

View in: PubMed Mentions: Fields:
Che Chemistry Techniques
Dimethylthiourea as a Quencher in Hydroxyl Radical Protein Footprinting Experiments. J Am Soc Mass Spectrom. 2023 Dec 06; 34(12):2864-2867. Shami AA, Misra SK, Jones LM, Sharp JS. PMID: 37971787; PMCID: PMC13088195.

View in: PubMed Mentions: 4 Fields:
Che Chemistry Techniques
Translation:Cells
Efficient Analysis of Proteome-Wide FPOP Data by FragPipe. Anal Chem. 2023 11 07; 95(44):16131-16137. Rojas Ramírez C, Espino JA, Jones LM, Polasky DA, Nesvizhskii AI. PMID: 37878603.

View in: PubMed Mentions: 9 Fields:
Che Chemistry Techniques
Translation:Cells
Development of Spheroid-FPOP: An In-Cell Protein Footprinting Method for 3D Tumor Spheroids. J Am Soc Mass Spectrom. 2023 Mar 01; 34(3):417-425. Shortt RL, Wang Y, Hummon AB, Jones LM. PMID: 36700916; PMCID: PMC9983004.

View in: PubMed Mentions: 10 Fields:
Che Chemistry Techniques
Translation:Humans Cells
Hydroxyl radical protein footprinting for analysis of higher order structure. Trends Biochem Sci. 2022 11; 47(11):989-991. Johnson DT, Jones LM. PMID: 35750595.

View in: PubMed Mentions: 5 Fields:
Bio Biochemistry
Hydroxyl Radical Protein Footprinting: A Mass Spectrometry-Based Structural Method for Studying the Higher Order Structure of Proteins. Chem Rev. 2022 04 27; 122(8):7532-7561. McKenzie-Coe A, Montes NS, Jones LM. PMID: 34633178.

View in: PubMed Mentions: 30 Fields:
Che Chemistry
Translation:Cells
Evaluating the Sulfate Radical Anion as a New Reagent for In-Cell Fast Photochemical Oxidation of Proteins. J Am Soc Mass Spectrom. 2021 Jul 07; 32(7):1644-1647. McKenzie-Coe AA, Johnson DT, Peacock RB, Zhang Z, Jones LM. PMID: 34170666.

View in: PubMed Mentions: 1 Fields:
Che Chemistry Techniques
Translation:Humans Cells
Platform Incubator with Movable XY Stage: A New Platform for Implementing In-Cell Fast Photochemical Oxidation of Proteins. J Vis Exp. 2021 05 17; (171). Johnson D, Punshon-Smith B, Espino JA, Gershenson A, Jones LM. PMID: 34057447; PMCID: PMC9196142.

View in: PubMed Mentions: Fields:
Bio Biology Med Medicine (General)
Translation:Humans Cells
Chemical Penetration Enhancers Increase Hydrogen Peroxide Uptake in C. elegans for In Vivo Fast Photochemical Oxidation of Proteins. J Proteome Res. 2020 09 04; 19(9):3708-3715. Espino JA, Zhang Z, Jones LM. PMID: 32506919; PMCID: PMC7861136.

View in: PubMed Mentions: 8 Fields:
Bio Biochemistry
Translation:Animals Cells
In Vivo Fast Photochemical Oxidation of Proteins Using Enhanced Multiplexing Proteomics. Anal Chem. 2020 06 02; 92(11):7596-7603. Espino JA, King CD, Jones LM, Robinson RAS. PMID: 32383586; PMCID: PMC7815197.

View in: PubMed Mentions: 3 Fields:
Che Chemistry Techniques
Translation:Animals Cells
THE MAKING OF A FOOTPRINT IN PROTEIN FOOTPRINTING: A REVIEW IN HONOR OF MICHAEL L. GROSS. Mass Spectrom Rev. 2021 05; 40(3):177-200. McKenzie-Coe A, Shortt R, Jones LM. PMID: 32400038; PMCID: PMC7849054.

View in: PubMed Mentions: 4 Fields:
Che Chemistry Techniques
Validation of the Applicability of In-Cell Fast Photochemical Oxidation of Proteins across Multiple Eukaryotic Cell Lines. J Am Soc Mass Spectrom. 2020 Jul 01; 31(7):1372-1379. Kaur U, Johnson DT, Jones LM. PMID: 32142260.

View in: PubMed Mentions: 8 Fields:
Che Chemistry Techniques
Translation:Animals Cells
Characterizing Cellular Proteins with In-cell Fast Photochemical Oxidation of Proteins. J Vis Exp. 2020 03 11; (157). Chea EE, Rinas A, Espino JA, Jones LM. PMID: 32225159.

View in: PubMed Mentions: 2 Fields:
Bio Biology Med Medicine (General)
Translation:Cells
Implementing In-Cell Fast Photochemical Oxidation of Proteins in a Platform Incubator with a Movable XY Stage. Anal Chem. 2020 01 21; 92(2):1691-1696. Johnson DT, Punshon-Smith B, Espino JA, Gershenson A, Jones LM. PMID: 31860269; PMCID: PMC7944481.

View in: PubMed Mentions: 14 Fields:
Che Chemistry Techniques
Translation:Cells
Fast photochemical oxidation of proteins (FPOP): A powerful mass spectrometry-based structural proteomics tool. J Biol Chem. 2019 08 09; 294(32):11969-11979. Johnson DT, Di Stefano LH, Jones LM. PMID: 31262727; PMCID: PMC6690683.

View in: PubMed Mentions: 53 Fields:
Bio Biochemistry
Translation:Cells
Illuminating Biological Interactions with in Vivo Protein Footprinting. Anal Chem. 2019 05 21; 91(10):6577-6584. Espino JA, Jones LM. PMID: 31025855; PMCID: PMC6533598.

View in: PubMed Mentions: 34 Fields:
Che Chemistry Techniques
Translation:Animals Cells
Rosetta Protein Structure Prediction from Hydroxyl Radical Protein Footprinting Mass Spectrometry Data. Anal Chem. 2018 06 19; 90(12):7721-7729. Aprahamian ML, Chea EE, Jones LM, Lindert S. PMID: 29874044; PMCID: PMC6008241.

View in: PubMed Mentions: 34 Fields:
Che Chemistry Techniques
Translation:Humans Cells
Modifications generated by fast photochemical oxidation of proteins reflect the native conformations of proteins. Protein Sci. 2018 06; 27(6):1047-1056. Chea EE, Jones LM. PMID: 29575296; PMCID: PMC5980583.

View in: PubMed Mentions: 15 Fields:
Bio Biochemistry
Translation:Cells
In Cell Footprinting Coupled with Mass Spectrometry for the Structural Analysis of Proteins in Live Cells. Anal Chem. 2015 Aug 04; 87(15):7971-8. Espino JA, Mali VS, Jones LM. PMID: 26146849.

View in: PubMed Mentions: 55 Fields:
Che Chemistry Techniques
Translation:Animals Cells
Fast photochemical oxidation of proteins coupled to multidimensional protein identification technology (MudPIT): expanding footprinting strategies to complex systems. J Am Soc Mass Spectrom. 2015 Apr; 26(4):540-6. Rinas A, Jones LM. PMID: 25409907.

View in: PubMed Mentions: 7 Fields:
Che Chemistry Techniques
Translation:Cells
Complementary MS methods assist conformational characterization of antibodies with altered S-S bonding networks. J Am Soc Mass Spectrom. 2013 Jun; 24(6):835-45. Jones LM, Zhang H, Cui W, Kumar S, Sperry JB, Carroll JA, Gross ML. PMID: 23483515; PMCID: PMC3651811.

View in: PubMed Mentions: 21 Fields:
Che Chemistry Techniques
Translation:Humans Animals Cells
Fast photochemical oxidation of proteins for epitope mapping. Anal Chem. 2011 Oct 15; 83(20):7657-61. Jones LM, B Sperry J, A Carroll J, Gross ML. PMID: 21894996; PMCID: PMC3193551.

View in: PubMed Mentions: 71 Fields:
Che Chemistry Techniques
Translation:Cells
Fast photochemical oxidation of proteins for comparing structures of protein-ligand complexes: the calmodulin-peptide model system. Anal Chem. 2011 Jan 01; 83(1):311-8. Zhang H, Gau BC, Jones LM, Vidavsky I, Gross ML. PMID: 21142124; PMCID: PMC3078576.

View in: PubMed Mentions: 42 Fields:
Che Chemistry Techniques
Translation:Animals Cells
Images in clinical medicine. Benign mediastinal teratoma. N Engl J Med. 2008 Aug 21; 359(8):841. Jones LM, Bradshaw DA. PMID: 18716301.

View in: PubMed Mentions: 1 Fields:
Med Medicine (General)
Translation:Humans