2022
Melani RD, Gerbasi VR, Anderson LC, Sikora JW, Toby TK, Hutton JE, Butcher DS, Negrão F, Seckler HS, Srzentić K, Fornelli L, Camarillo JM, LeDuc RD, Cesnik AJ, Lundberg E, Greer JB, Fellers RT, Robey MT, DeHart CJ, Forte E, Hendrickson CL, Abbatiello SE, Thomas PM, Kokaji AI, Levitsky J, Kelleher NL. The Blood Proteoform Atlas: A reference map of proteoforms in human hematopoietic cells. Science. 2022 Jan 28;375(6579):411-418. doi: 10.1126/science.aaz5284. Epub 2022 Jan 27. PMID: 35084980.
2021
Taghian T, Batista AR, Kamper S, Caldwell M, Lilley L, Li H, Rodriguez P, Mesa K, Zheng S, King RM, Gounis MJ, Todeasa S, Maguire A, Martin DR, Sena- Esteves M, Meade TJ, Gray-Edwards HL. Real-time MR tracking of AAV gene therapy with βgal-responsive MR probe in a murine model of GM1-gangliosidosis. Mol Ther Methods Clin Dev. 2021 Aug 26;23:128-134. doi: 10.1016/j.omtm.2021.08.003. PMID: 34703836; PMCID: PMC8517204.
Kwong AJ, Pham TND, Oelschlager HE, Munshi HG, Scheidt KA. Rational Design, Optimization, and Biological Evaluation of Novel MEK4 Inhibitors against Pancreatic Adenocarcinoma. ACS Med Chem Lett. 2021 Sep 15;12(10):1559-1567. doi: 10.1021/acsmedchemlett.1c00376. PMID: 34676038; PMCID: PMC8521629.
Schachner LF, Tran DP, Lee A, McGee JP, Jooss K, Durbin K, Seckler HDS, Adams L, Cline E, Melani R, Ives AN, Des Soye B, Kelleher NL, Patrie SM. Reassembling protein complexes after controlled disassembly by top-down mass spectrometry in native mode. Int J Mass Spectrom. 2021 Jul;465:116591. doi: 10.1016/j.ijms.2021.116591. Epub 2021 Mar 27. PMID: 34539228; PMCID: PMC8445521.
Vincent MP, Karabin NB, Allen SD, Bobbala S, Frey MA, Yi S, Yang Y, Scott EA. The Combination of Morphology and Surface Chemistry Defines the Immunological Identity of Nanocarriers in Human Blood. Adv Ther (Weinh). 2021 Aug;4(4):2100062. doi: 10.1002/adtp.202100062. Epub 2021 Jun 13. PMID: 34485684; PMCID: PMC8411909.
Wilkins JT, Seckler HS, Rink J, Compton PD, Fornelli L, Thaxton CS, LeDuc R, Jacobs D, Doubleday PF, Sniderman A, Lloyd-Jones DM, Kelleher NL. Spectrum of Apolipoprotein AI and Apolipoprotein AII Proteoforms and Their Associations With Indices of Cardiometabolic Health: The CARDIA Study. J Am Heart Assoc. 2021 Sep 7;10(17):e019890. doi: 10.1161/JAHA.120.019890. Epub 2021 Sep 2. PMID: 34472376; PMCID: PMC8649248.
Dumrongprechachan V, Salisbury RB, Soto G, Kumar M, MacDonald ML, Kozorovitskiy Y. Cell-type and subcellular compartment-specific APEX2 proximity labeling reveals activity-dependent nuclear proteome dynamics in the striatum. Nat Commun. 2021 Aug 11;12(1):4855. doi: 10.1038/s41467-021-25144-y. PMID: 34381044; PMCID: PMC8357913.
Huang ZN, Callmann CE, Cole LE, Wang S, Mirkin CA. Synergistic Immunostimulation through the Dual Activation of Toll-like Receptor 3/9 with Spherical Nucleic Acids. ACS Nano. 2021 Jul 19:10.1021/acsnano.1c03093. doi: 10.1021/acsnano.1c03093. Epub ahead of print. PMID: 34278782; PMCID: PMC8766625.
Callmann CE, Kusmierz CD, Dittmar JW, Broger L, Mirkin CA. Impact of Liposomal Spherical Nucleic Acid Structure on Immunotherapeutic Function. ACS Cent Sci. 2021 May 26;7(5):892-899. doi: 10.1021/acscentsci.1c00181. Epub 2021 Apr 15. PMID: 34079904; PMCID: PMC8161491.
Brenner B, Song KH, Sun C, Zhang HF. Improving spatial precision and field- of-view in wavelength-tagged single-particle tracking using spectroscopic single-molecule localization microscopy. Appl Opt. 2021 May 1;60(13):3647-3658. doi: 10.1364/AO.415275. PMID: 33983297; PMCID: PMC8648066.
Stack T, Liu Y, Frey M, Bobbala S, Vincent M, Scott E. Enhancing subcutaneous injection and target tissue accumulation of nanoparticles via co- administration with macropinocytosis inhibitory nanoparticles (MiNP). Nanoscale Horiz. 2021 May 1;6(5):393-400. doi: 10.1039/d0nh00679c. Epub 2021 Apr 22. PMID: 33884386; PMCID: PMC8127988.
Wu M, Minkowicz S, Dumrongprechachan V, Hamilton P, Kozorovitskiy Y. Ketamine Rapidly Enhances Glutamate-Evoked Dendritic Spinogenesis in Medial Prefrontal Cortex Through Dopaminergic Mechanisms. Biol Psychiatry. 2021 Jun 1;89(11):1096-1105. doi: 10.1016/j.biopsych.2020.12.022. Epub 2021 Jan 8. PMID: 33637303; PMCID: PMC8740507.
2020
Devitt A, Hsu D, vand den Eijnde J, Blaney MB, Dickent RD. Literature Highlights: Evaluation of Potential Safety Hazards Associated with the Suzuki–Miyaura Cross-Coupling of Aryl Bromides with Vinylboron Species. ACS Chem. Health Saf. 2020 March 10;27(2):83-85. doi:.
Qin L, Wang S, Dominguez D, Long A, Chen S, Fan J, Ahn J, Skakuj K, Huang Z, Lee A, Mirkin C, Zhang B. Development of Spherical Nucleic Acids for Prostate Cancer Immunotherapy. Frontiers in immunology. 2020;11:1333. PubMed PMID: 32733447; PubMed Central PMCID: PMC7362897; doi: 10.3389/fimmu.2020.01333.
Yi S, Karabin NB, Zhu J, Bobbala S, Lyu H, Li S, Liu Y, Frey M, Vincent M, Scott EA. An Injectable Hydrogel Platform for Sustained Delivery of Anti-inflammatory Nanocarriers and Induction of Regulatory T Cells in Atherosclerosis. Frontiers in bioengineering and biotechnology. 2020;8:542. PubMed PMID: 32582667; PubMed Central PMCID: PMC7289959; doi: 10.3389/fbioe.2020.00542.
Yamankurt G, Stawicki RJ, Posadas DM, Nguyen JQ, Carthew RW, Mirkin CA. The effector mechanism of siRNA spherical nucleic acids. Proceedings of the National Academy of Sciences of the United States of America. 2020 January 21;117(3):1312-1320. PubMed PMID: 31900365; PubMed Central PMCID: PMC6983385; doi: 10.1073/pnas.1915907117.
Huang ZN, Cole LE, Callmann CE, Wang S, Mirkin CA. Sequence Multiplicity within Spherical Nucleic Acids. ACS nano. 2020 January 28;14(1):1084-1092. PubMed PMID: 31917535; PubMed Central PMCID: PMC7027983; doi: 10.1021/acsnano.9b08750.
Fornelli L, Srzentić K, Toby TK, Doubleday PF, Huguet R, Mullen C, Melani RD, Dos Santos Seckler H, DeHart CJ, Weisbrod CR, Durbin KR, Greer JB, Early BP, Fellers RT, Zabrouskov V, Thomas PM, Compton PD, Kelleher NL. Thorough Performance Evaluation of 213 nm Ultraviolet Photodissociation for Top-down Proteomics. Molecular & cellular proteomics : MCP. 2020 February;19(2):405-420. PubMed PMID: 31888965; PubMed Central PMCID: PMC7000117; doi: 10.1074/mcp.TIR119.001638.
Ferrer JR, Sinegra AJ, Ivancic D, Yeap XY, Qiu L, Wang JJ, Zhang ZJ, Wertheim JA, Mirkin CA. Structure-Dependent Biodistribution of Liposomal Spherical Nucleic Acids. ACS nano. 2020 February 25;14(2):1682-1693. PubMed PMID: 31951368; PubMed Central PMCID: PMC7119368; doi: 10.1021/acsnano.9b07254.
Hu B, Berkey C, Feliciano T, Chen X, Li Z, Chen C, Amini S, Nai MH, Lei QL, Ni R, Wang J, Leow WR, Pan S, Li YQ, Cai P, Miserez A, Li S, Lim CT, Wu YL, Odom TW, Dauskardt RH, Chen X. Thermal-Disrupting Interface Mitigates Intercellular Cohesion Loss for Accurate Topical Antibacterial Therapy. Advanced materials (Deerfield Beach, Fla.). 2020 March;32(12):e1907030. PubMed PMID: 32072703; doi: 10.1002/adma.201907030.
Kafader JO, Melani RD, Schachner LF, Ives AN, Patrie SM, Kelleher NL, Compton PD. Native vs Denatured: An in Depth Investigation of Charge State and Isotope Distributions. Journal of the American Society for Mass Spectrometry. 2020 March 4;31(3):574-581. PubMed PMID: 31971796; PubMed Central PMCID: PMC7539638; doi: 10.1021/jasms.9b00040.
Bobbala S, Allen SD, Yi S, Vincent M, Frey M, Karabin NB, Scott EA. Employing bicontinuous-to-micellar transitions in nanostructure morphology for on-demand photo-oxidation responsive cytosolic delivery and off-on cytotoxicity. Nanoscale. 2020 March 5;12(9):5332-5340. PubMed PMID: 32090217; PubMed Central PMCID: PMC7197099; doi: 10.1039/c9nr10921h.
Kafader JO, Durbin KR, Melani RD, Des Soye BJ, Schachner LF, Senko MW, Compton PD, Kelleher NL. Individual Ion Mass Spectrometry Enhances the Sensitivity and Sequence Coverage of Top-Down Mass Spectrometry. Journal of proteome research. 2020 March
6;19(3):1346-1350. PubMed PMID: 32032494; PubMed Central PMCID: PMC7060802; doi: 10.1021/acs.jproteome.9b00797.
Kafader JO, Melani RD, Durbin KR, Ikwuagwu B, Early BP, Fellers RT, Beu SC, Zabrouskov V, Makarov AA, Maze JT, Shinholt DL, Yip PF, Tullman-Ercek D, Senko MW, Compton PD, Kelleher NL. Multiplexed mass spectrometry of individual ions improves measurement of proteoforms and their complexes. Nature methods. 2020 April;17(4):391-394. PubMed PMID: 32123391; PubMed Central PMCID: PMC7131870; doi: 10.1038/s41592-020-0764-5.
Olp MD, Sprague DJ, Goetz CJ, Kathman SG, Wynia-Smith SL, Shishodia S, Summers SB, Xu Z, Statsyuk AV, Smith BC. Covalent-Fragment Screening of BRD4 Identifies a Ligandable Site Orthogonal to the Acetyl-Lysine Binding Sites. ACS chemical biology. 2020 April
17;15(4):1036-1049. PubMed PMID: 32149490; PubMed Central PMCID: PMC7271629; doi: 10.1021/acschembio.0c00058.
Larkin IN, Garimella V, Yamankurt G, Scott AW, Xing H, Mirkin CA. Dual-Readout Sandwich Immunoassay for Device-Free and Highly Sensitive Anthrax Biomarker Detection. Analytical chemistry. 2020 June 2;92(11):7845-7851. PubMed PMID: 32437125; PubMed Central PMCID: PMC7418077; doi: 10.1021/acs.analchem.0c01090.
Frey M, Vincent M, Bobbala S, Burt R, Scott E. Mapping the supramolecular assembly space of poly(sarcosine)-b-poly(propylene sulfide) using a combinatorial copolymer library. Chemical communications (Cambridge, England). 2020 June 18;56(49):6644-6647. PubMed PMID: 32406439; doi: 10.1039/d0cc00925c.
Ives AN, Su T, Durbin KR, Early BP, Dos Santos Seckler H, Fellers RT, LeDuc RD, Schachner LF, Patrie SM, Kelleher NL. Using 10,000 Fragment Ions to Inform Scoring in Native Top-down Proteomics. Journal of the American Society for Mass Spectrometry. 2020 July
1;31(7):1398-1409. PubMed PMID: 32436704; PubMed Central PMCID: PMC7539637; doi: 10.1021/jasms.0c00026.
Kwong AJ, Scheidt KA. Non-‘classical’ MEKs: A review of MEK3-7 inhibitors. Bioorganic & medicinal chemistry letters. 2020 July 1;30(13):127203. PubMed PMID: 32389527; PubMed Central PMCID: PMC7299838; doi: 10.1016/j.bmcl.2020.127203.
Modak M, Frey MA, Yi S, Liu Y, Scott EA. Employment of targeted nanoparticles for imaging of cellular processes in cardiovascular disease. Current opinion in biotechnology. 2020 July 15;66:59-68. PubMed PMID: 32682272; doi: 10.1016/j.copbio.2020.06.003.
Srzentić K, Fornelli L, Tsybin YO, Loo JA, Seckler H, Agar JN, Anderson LC, Bai DL, Beck A, Brodbelt JS, van der Burgt YEM, Chamot-Rooke J, Chatterjee S, Chen Y, Clarke DJ, Danis PO, Diedrich JK, D’Ippolito RA, Dupré M, Gasilova N, Ge Y, Goo YA, Goodlett DR, Greer S, Haselmann KF, He L, Hendrickson CL, Hinkle JD, Holt MV, Hughes S, Hunt DF, Kelleher NL, Kozhinov AN, Lin Z, Malosse C, Marshall AG, Menin L, Millikin RJ, Nagornov KO, Nicolardi S, Paša-Tolić L, Pengelley S, Quebbemann NR, Resemann A, Sandoval W, Sarin R, Schmitt ND, Shabanowitz J, Shaw JB, Shortreed MR, Smith LM, Sobott F, Suckau D, Toby T, Weisbrod CR, Wildburger NC, Yates JR 3rd, Yoon SH, Young NL, Zhou M. Interlaboratory Study for Characterizing Monoclonal Antibodies by Top-Down and Middle-Down Mass Spectrometry. Journal of the American Society for Mass Spectrometry. 2020 September 2;31(9):1783-1802. PubMed PMID: 32812765; PubMed Central PMCID: PMC7539639; doi: 10.1021/jasms.0c00036.
Chen C, Soto G, Dumrongprechachan V, Bannon N, Kang S, Kozorovitskiy Y, Parisiadou L. Pathway-specific dysregulation of striatal excitatory synapses by LRRK2 mutations. eLife. 2020 October 2;9. PubMed PMID: 33006315; PubMed Central PMCID: PMC7609054; doi: 10.7554/eLife.58997.
Robinson SA, Hartman EC, Ikwuagwu BC, Francis MB, Tullman-Ercek D. Engineering a Virus-like Particle to Display Peptide Insertions Using an Apparent Fitness Landscape. Biomacromolecules. 2020 October 12;21(10):4194-4204. PubMed PMID: 32880435; doi: 10.1021/acs.biomac.0c00987.
Deighan WI, Winton VJ, Melani RD, Anderson LC, McGee JP, Schachner LF, Barnidge D, Murray D, Alexander HD, Gibson DS, Deery MJ, McNicholl FP, McLaughlin J, Kelleher NL, Thomas PM. Development of novel methods for non-canonical myeloma protein analysis with an innovative adaptation of immunofixation electrophoresis, native top-down mass spectrometry, and middle-down de novo sequencing. Clinical chemistry and laboratory medicine. 2020 October 20. PubMed PMID: 33079696; doi: 10.1515/cclm-2020-1072.
2019
Betori R.C., May C.M., Scheidt K.A. Combined Photoredox/Enzymatic C-H Benzylic Hydroxylations, Angew Chem Int Ed Engl. 58:16490-16494, 2019. PMCID: PMC6829040.
Betori RC, McDonald BR, Scheidt KA. Reductive annulations of arylidene malonates with unsaturated electrophiles using photoredox/ Lewis acid cooperative catalysis. Chem Sci. 2019 Feb 6;10(11):3353-3359.
Cinelli MA, Do HT, Miley GP, Silverman RB. Inducible nitric oxide synthase: Regulation, structure, and inhibition. Med Res Rev. 2019 Jun 13. Review.
Chowdhury SR, Kennedy S, Zhu K, Mishra R, Chuong P, Nguyen AU, Kathman SG, Statsyuk AV. Discovery of covalent enzyme inhibitors using virtual docking of covalent fragments. Bioorg. & Med. Chem. Lett. 2019 January 1;29(1):36-39.
Donnelly DP, Rawlins CM, DeHart CJ, Fornelli L, Schachner LF, Lin Z, Lippens JL, Aluri KC, Sarin R, Chen B, Lantz C, Jung W, Johnson KR, Koller A, Wolff JJ, Campuzano IDG, Auclair JR, Ivanov AR, Whitelegge JP, Paša-Tolić L, Chamot-Rooke J, Danis PO, Smith LM, Tsybin YO, Loo JA, Ge Y, Kelleher NL, Agar JN. Best practices and benchmarks for intact protein analysis for top-down mass spectrometry. Nat Methods. 2019 Jul;16(7):587-594. Review.
Eller MJ, Chandra K, Coughlin EE, Odom TW, Schweikert EA. Label Free Particle-by-Particle Quantification of DNA Loading on Sorted Gold Nanostars. Anal Chem. 2019 May 7;91(9):5566-5572.
Ferrer JR, Wertheim JA, Mirkin CA. Dual Toll-Like Receptor Targeting Liposomal Spherical Nucleic Acids. Bioconjug Chem. 2019 Mar 20;30(3):944-951. PMCID: PMC6446553.
Gladstein S, Almassalha LM, Cherkezyan L, Chandler JE, Eshein A, Eid A, Zhang D, Wu W, Bauer GM, Stephens AD, Morochnik S, Subramanian H, Marko JF, Ameer GA, Szleifer I, Backman V. Multimodal interference-based imaging of nanoscale structure and macromolecular motion uncovers UV induced cellular paroxysm. Nat Commun. 2019 Apr 10;10(1):1652. PMCID: PMC6458150.
Guan C.M., Chinen A.B., Ferrer J.R., Ko C.H., Mirkin C.A. Impact of Sequence Specificity of Spherical Nucleic Acids on Macrophage Activation in Vitro and in Vivo, Mol Pharm. 16:4223-4229, 2019.
Kathman S.G., Statsyuk A.V. 2019, Methodology for Identification of Cysteine-Reactive Covalent Inhibitors, Methods Mol Biol. 1967:245-262.
Moore L.K., Caldwell M.A., Townsend T.R., MacRenaris K.W., Moyle-Heyrman G., Rammohan N., Schonher E.K., Burdette J.E., Ho D., Meade T.J. Water-Soluble Nanoconjugate for Enhanced Cellular Delivery of Receptor-Targeted Magnetic Resonance Contrast Agents, Bioconjug Chem. 2019.
Moreno B, DiCorato A, Park A, Mobilia K, Knapp R, Bleher R, Wilke C, Alvares K, Joester D. Culture of and experiments with sea urchin embryo primary mesenchyme cells. Methods Cell Biol. 2019;150:293-330. Review.
Moully E.H., Berns E.J., Mrksich M. Label-Free Assay of Protein Tyrosine Phosphatase Activity in Single Cells, Anal Chem. 91:13206-13212, 2019.
Ro SY, Schachner LF, Koo CW, Purohit R, Remis JP, Kenney GE, Liauw BW, Thomas PM, Patrie SM, Kelleher NL, Rosenzweig AC. Native top-down mass spectrometry provides insights into the copper centers of membrane-bound methane monooxygenase. Nat Commun. 2019 Jun 17;10(1):2675. PMCID:PMC6572826.
Saito E., Kuo R., Kramer K.R., Gohel N., Giles D.A., Moore B.B., Miller S.D., Shea L.D. Design of biodegradable nanoparticles to modulate phenotypes of antigen-presenting cells for antigen-specific treatment of autoimmune disease, Biomaterials. 222:119432, 2019.
Saito E, Kuo R, Pearson RM, Gohel N, Cheung B, King NJC, Miller SD, Shea LD. Designing drug-free biodegradable nanoparticles to modulate inflammatory monocytes and neutrophils for ameliorating inflammation. J Control Release. 2019 Apr 28;300:185-196
Schachner LF, Ives AN, McGee JP, Melani RD, Kafader JO, Compton PD, Patrie SM, Kelleher NL. Standard Proteoforms and Their Complexes for Native Mass Spectrometry. J Am Soc Mass Spectrom. 2019 Jul;30(7):1190-1198. PMCID: PMC6592724.
Toby TK, Fornelli L, Srzentić K, DeHart CJ, Levitsky J, Friedewald J, Kelleher NL. A comprehensive pipeline for translational top-down proteomics from a single blood draw. Nat Protoc. 2019 Jan;14(1):119-152. PMCID: PMC6439476.
Wang S., Chen Y., Wang S., Li P., Mirkin C.A., Farha O.K. DNA-Functionalized Metal-Organic Framework Nanoparticles for Intracellular Delivery of Proteins, J Am Chem Soc. 141:2215-2219, 2019.
Wang S, Qin L, Yamankurt G, Skakuj K, Huang Z, Chen PC, Dominguez D, Lee A, Zhang B, Mirkin CA. Rational vaccinology with spherical nucleic acids. Proc Natl Acad Sci U S A. 2019 May 21;116(21):10473-10481.PMCID: PMC6535021
Wilkins JT, Seckler HS. HDL modification: recent developments and their relevance to atherosclerotic cardiovascular disease. Curr Opin Lipidol. 2019 Feb;30(1):24-29. PMCID: PMC6439474.
Yamankurt G, Berns EJ, Xue A, Lee A, Bagheri N, Mrksich M, Mirkin CA. Exploration of the nanomedicine-design space with high-throughput screening and machine learning. Nat Biomed Eng. 2019 Apr;3(4):318-327. PMCID: PMC6452897.
2018
Park YJ, Kenney GE, Schachner LF, Kelleher NL, Rosenzweig AC. Repurposed HisC Aminotransferases Complete the Biosynthesis of Some Methanobactins. Biochemistry.2018 Apr 25. doi: 10.1021/acs.biochem.8b00296. [Epub ahead of print] PubMed PMID:29694778.
Miley GP, Rote JC, Silverman RB, Kelleher NL, Thomson RJ. Total Synthesis of Tambromycin Enabled by Indole C-H Functionalization. Org Lett. 2018 Mar 27. doi: 10.1021/acs.orglett.8b00700. [Epub ahead of print] PubMed PMID: 29584440.
Kenney GE, Dassama LMK, Pandelia ME, Gizzi AS, Martinie RJ, Gao P, DeHart CJ, Schachner LF, Skinner OS, Ro SY, Zhu X, Sadek M, Thomas PM, Almo SC, Bollinger JM Jr., Krebs C, Kelleher NL, Rosenzweig AC. The biosynthesis of methanobactin. Science. 2018 Mar 23;359(6382):1411-1416. doi: 10.1126/ science.aap9437. PubMed PMID: 29567715.
Clevenger KD, Ye R, Bok JW, Thomas PM, Islam MN, Miley GP, Robey MT, Chen C, Yang K, Swyers M, Wu E, Gao P, Wu CC, Keller NP, Kelleher NL. Interrogation of Benzomalvin Biosynthesis Using Fungal Artificial Chromosomes with Metabolomic Scoring (FAC-MS): Discovery of a Benzodiazepine Synthase Activity. Biochemistry. 2018 Mar 20. doi: 10.1021/acs.biochem.8b00076. [Epub ahead of print] PubMed PMID:29533658.
Parkinson EI, Tryon JH, Goering AW, Ju KS, McClure RA, Kemball JD, Zhukovsky S, Labeda DP, Thomson RJ, Kelleher NL, Metcalf WW. Discovery of the Tyrobetaine Natural Products and Their Biosynthetic Gene Cluster via Metabologenomics. ACS Chem Biol. 2018 Mar 13. doi:10.1021/acschembio. 7b01089. [Epub ahead of print] PubMed PMID: 29510029.
Morochnik S, Zhu Y, Duan C, Cai M, Reid RR, He TC, Koh J, Szleifer I, Ameer GA. A thermoresponsive, citrate-based macromolecule for bone regenerative engineering. J Biomed Mater Res A. 2018 Feb 2. doi: 10.1002/jbm.a.36358. [Epub ahead of print] PubMed PMID: 29396921
Skakuj K, Wang S, Qin L, Lee A, Zhang B, Mirkin CA. Conjugation Chemistry-Dependent T-Cell Activation with Spherical Nucleic Acids. J Am Chem Soc. 2018 Jan 31;140(4):1227-1230. doi: 10.1021/jacs.7b12579. Epub 2018 Jan 22. PubMed PMID: 29356509; PubMed Central PMCID: PMC5831183.
Gladstein S, Stawarz A, Almassalha LM, Cherkezyan L, Chandler JE, Zhou X, Subramanian H, Backman V. Measuring Nanoscale Chromatin Heterogeneity with Partial Wave Spectroscopic Microscopy. Methods Mol Biol. 2018;1745:337-360. doi:10.1007/978-1-4939-7680-5_19. PubMed PMID: 29476478.
Frey M, Bobbala S, Karabin N, Scott E. Influences of nanocarrier morphology on therapeutic immunomodulation. Nanomedicine (Lond). 2018 Aug 7. doi:10.2217/nnm-2018-0052. [Epub ahead of print] PubMed PMID: 30084296.
Kalman R, Stawarz A, Nunes D, Zhang D, Dela Cruz MA, Mohanty A, Subramanian H, Backman V, Roy HK. 2018, Biophotonic detection of high order chromatin alterations in field carcinogenesis predicts risk of future hepatocellular carcinoma: A pilot study. PLoS One. 13(5):e0197427. Erratum in: PLoS One. 2018 Jul 24;13(7):e0201500.
Lee A, Betori RC, Crane EA, Scheidt KA. 2018, An Enantioselective Cross-Dehydrogenative Coupling Catalysis Approach to Substituted Tetrahydropyrans. J Am Chem Soc. 140(20):6212-6216.
Mullowney MW, McClure RA, Robey MT, Kelleher NL, Thomson RJ. Natural products from thioester reductase containing biosynthetic pathways. Nat Prod Rep. 2018 Sep 19;35(9):847-878.
Ramirez YA, Adler T, Altmann E, Tiesmeyer C, Klemm T, Sauer F, Kathman S, Statsyuk A, Sotriffer C, Kisker C. 2018, Structural basis of substrate recognition and covalent inhibition of Cdu1 from Chlamydia trachomatis. ChemMedChem. 2018 Oct 8;13(19):2014-2023.
Riley NM, Sikora JW, Seckler HS, Greer JB, Fellers RT, LeDuc RD, Westphall MS, Thomas PM, Kelleher NL, Coon JJ. 2018, The Value of Activated Ion Electron Transfer Dissociation for High-Throughput Top-Down Characterization of Intact Proteins. Anal Chem. 90(14):8553-8560.
Seckler HDS, Fornelli L, Mutharasan RK, Thaxton CS, Fellers R, Daviglus M, Sniderman A, Rader D, Kelleher NL, Lloyd-Jones DM, Compton PD, Wilkins JT. A Targeted, Differential Top-Down Proteomic Methodology for Comparison of ApoA-I Proteoforms in Individuals with High and Low HDL Efflux Capacity. J Proteome Res. 2018;17(6):2156-64. PubMed PMID: 29649363.
Xu L, Gordon R, Farmer R, Pattanayak A, Binkowski A, Huang X, Avram M, Krishna S, Voll E, Pavese J, Chavez J, Bruce J, Mazar A, Nibbs A, Anderson W, Li L, Jovanovic B, Pruell S, Valsecchi M, Francia G, Betori R, Scheidt K, Bergan R. 2018, Precision therapeutic targeting of human cancer cell motility. Nat Commun.;9(1):2454.
Yue J, Pallares RM, Cole LE, Coughlin EE, Mirkin CA, Lee A, Odom TW. Smaller CpG-Conjugated Gold Nanoconstructs Achieve Higher Targeting Specificity of Immune Activation. 2018, ACS Appl Mater Interfaces. 10(26):21920-21926.
2017
Roca H, Jones JD, Purica MC, Weidner S, Koh AJ, Kuo R, Wilkinson JE, Wang Y, Daignault-Newton S, Pienta KJ, Morgan TM, Keller ET, Nör JE, Shea LD, McCauley LK. Apoptosis-induced CXCL5 accelerates inflammation and growth of prostate tumor metastases in bone. J Clin Invest. 2018 Jan 2;128(1):248-266. doi:10.1172/JCI92466. Epub 2017 Nov 27. PMCID:PMC5749545.
Skinner OS, Haverland NA, Fornelli L, Melani RD, Do Vale LHF, Seckler HS, Doubleday PF, Schachner LF, Srzentić K, Kelleher NL, Compton PD. Top-down characterization of endogenous protein complexes with native proteomics. Nat Chem Biol. 2018 Jan;14(1):36-41. doi: 10.1038/nchembio.2515. Epub 2017 Nov 13. PMCID: PMC5726920.
Morochnik S, Nap RJ, Ameer GA, Szleifer I. Structural behavior of competitive temperature and pH-responsive tethered polymer layers. Soft Matter. 2017 Sep 27;13(37):6322-6331. doi: 10.1039/c7sm01538k. PMID: 28905971
Toby TK, Abecassis M, Kim K, Thomas PM, Fellers RT, LeDuc RD, Kelleher NL, Demetris J, Levitsky J. Peripheral blood mononuclear cell proteoforms as novel rejection biomarkers in liver transplant recipients. American Journal of Transplantation. 2017 Sep;17(9):2458-2467. doi: 10.1111/ajt.14359. Epub 2017 Jun 27.. doi: 10.1111/ajt.14359. PMID: 28510335.
Kuo R, Saito E, Miller SD, Shea LD. Peptide-Conjugated Nanoparticles Reduce Positive Co-stimulatory Expression and T Cell Activity to Induce Tolerance. Mol Ther. 2017 Jul 5;25(7):1676-1685. doi: 10.1016/j.ymthe.2017.03.032. Epub 2017 Apr 10. PMCID: PMC5498812.
Clevenger KD, Bok JW, Ye R, Miley GP, Verdan MH, Velk T, Chen C, Yang K, Robey MT, Gao P, Lamprecht M, Thomas PM, Islam MN, Palmer JM, Wu CC, Keller NP, Kelleher NL. A scalable platform to identify fungal secondary metabolites and their gene clusters. Nat Chem Biol. 2017 Aug;13(8):895-901. doi: 10.1038/nchembio.2408. Epub 2017 Jun 12. PMCID: PMC5577364
Wang S, McGuirk CM, Ross MB, Wang S, Chen P, Xing H, Liu Y, Mirkin CA. General and Direct Method for Preparing Oligonucleotide-Functionalized Metal-Organic Framework Nanoparticles. J Am Chem Soc. 2017 Jul 26;139(29):9827-9830. doi: 10.1021/jacs.7b05633. Epub 2017 Jul 18. PMID: 28718644
Clevenger KD, Bok JW, Ye R, Miley GP, Verdan MH, Velk T, Chen C, Yang KH, Robey MT, Gao P, Lamprecht M, Thomas PM, Islam MN, Palmer J, Wu CC, Keller NP, Kelleher NL. Large-Scale Identification of New Secondary Metabolites Using Heterologous Expression and Metabolomic Screening of Fungal Biosynthetic Gene Clusters. Nature Chemical Biology. 2017 Jun 12. doi:10.1038/nchembio.2408. [Epub ahead of print] PMID:28604695
Yue J, Feliciano TJ, Li W1, Lee A, Odom TW. Gold Nanoparticle Size and Shape Effects on Cellular Uptake and Intracellular Distribution of siRNA Nanoconstructs. Bioconjug Chem. 2017 Jun 21;28(6):1791-1800. doi: 10.1021/acs.bioconjchem.7b00252. Epub 2017 Jun 12. PubMed PMID: 28574255
Betori RC, Miller ER, Scheidt KA, “A Biocatalytic Route to Highly Enantioenriched β-Hydroxydioxinones,” Synth. Cat. 2017, 359, 1131-1137. 2017 Mar 3. NIHMSID: NIHMS876300
Que E.L., Duncan E.F., Bayer A.R., Philips S.J., Roth E.W., Bleher R., Gleber S.C., Vogt S., Woodruff T.K., O’Halloran T.V. 2017, Zinc sparks induce physiochemical changes in the egg zona pellucida that prevent polyspermy. Integr Biol (Camb). 2017 Feb 20;9(2):135-144. doi: 10.1039/c6ib00212a. PMCID: PMC5439353.
Fornelli L, Toby TK, Schachner LF, Doubleday PF, Srzentić K, DeHart CJ, Kelleher NL. Top-down proteomics: Where we are, where we are going? J Proteomics. 2018 Mar 20;175:3-4. doi: 10.1016/j.jprot.2017.02.002. Epub 2017 Feb 7. PMCID: PMC5547015.
Fornelli L, Toby TK, Schachner LF, Doubleday PF, Srzentić K, DeHart CJ,Kelleher NL. Top-down proteomics: Where we are, where we are going? J Proteomics. 2018 Mar 20;175:3-4. doi: 10.1016/j.jprot.2017.02.002. Epub 2017 Feb 7. P PMCID: PMC5547015.
Kozorovitskiy Y., Bannon N., Dumrongprechachan V. Striatal neuromodulation: From Single Synapse to the Proteome, Neuropsychopharmacology. 42:S313-S314, 2017 ABSTRACT
Toby TK, Abecassis M, Kim K, Thomas PM, Fellers RT, LeDuc RD, Kelleher NL,Demetris J, Levitsky J. 2017, Proteoforms in Peripheral Blood Mononuclear Cells as Novel Rejection Biomarkers in Liver Transplant Recipients. Am J Transplant. (9):2458-2467.
Wang S, McGuirk CM, Ross MB, Wang S, Chen P, Xing H, Liu Y, Mirkin CA. 2017, General and Direct Method for Preparing Oligonucleotide-Functionalized Metal-Organic Framework Nanoparticles. J Am Chem Soc. 139(29):9827-9830.
2016
Skinner OS, Schachner LF, Kelleher NL. The Search Engine for Multi-Proteoform Complexes: An Online Tool for the Identification and Stoichiometry Determination of Protein Complexes. Curr Protoc Bioinformatics. 2016 Dec 8;56:13.30.1-13.30.11. doi: 10.1002/cpbi.16. PubMed PMID: 27930806; PubMed Central PMCID: PMC5152683
McClure RA, Goering AW, Ju KS, Baccile JA, Schroeder FC, Metcalf WW, Thomson RJ, Kelleher NL. 2016, Elucidating the rimosamide-detoxin natural product families and their biosynthesis using metabolite/gene cluster correlations. ACS Chem Biol. 11:3452-3460.
Chinen AB, Ferrer JR, Merkel TJ, Mirkin CA. Relationships between Poly(ethylene glycol) Modifications on RNA-Spherical Nucleic Acid Conjugates and Cellular Uptake and Circulation Time. Bioconjug Chem. 2016 Oct 20. [Epub ahead of print] PMID: 27762539
Savaryn JP, Toby TK, Kelleher NL. A researcher’s guide to mass spectrometry-based proteomics. Proteomics. 2016 Sep;16(18):2435-43. doi: 10.1002/pmic.201600113. PMID: 27553853
Goering AW, Li J, McClure RA, Thomson RJ, Jewett MC, Kelleher NL. In Vitro Reconstruction of Nonribosomal Peptide Biosynthesis Directly from DNA Using Cell-Free Protein Synthesis. ACS Synth Biol. 2016 Aug 9. [Epub ahead of print] PMID: 27478992
Henke MT, Soukup AA, Goering AW, McClure RA, Thomson RJ, Keller NP, Kelleher NL. New Aspercryptins, Lipopeptide Natural Products, Revealed by HDAC Inhibition in Aspergillus nidulans. ACS Chem Biol. 2016 Aug 19;11(8):2117-23. doi: 10.1021/acschembio.6b00398. PMID: 27310134
Kathman SG, Statsyuk AV. Covalent Tethering of Fragments For Covalent Probe Discovery. Medchemcomm. 2016 Apr 1;7(4):576-585. PMID: 27398190
Toby TK, Fornelli L, Kelleher NL. Progress in Top-Down Proteomics and the Analysis of Proteoforms. Annu Rev Anal Chem (Palo Alto Calif). 2016 Jun 12;9(1):499-519. doi: 10.1146/annurev-anchem-071015-041550. PMID: 27306313
Savaryn JP, Toby TK, Catherman AD, Fellers RT, LeDuc RD, Thomas PM, Friedewald JJ, Salomon DR, Abecassis MM, Kelleher NL. Comparative top down proteomics of peripheral blood mononuclear cells from kidney transplant recipients with normal kidney biopsies or acute rejection. Proteomics. 2016 Jul;16(14):2048-58. doi: 10.1002/pmic.201600008. PMID:27120713
Goering AW, McClure RA, Doroghazi JR, Albright JC, Haverland NA, Zhang Y, Ju KS, Thomson RJ, Metcalf WW, Kelleher NL. Metabologenomics: Correlation of Microbial Gene Clusters with Metabolites Drives Discovery of a Nonribosomal Peptide with an Unusual Amino Acid Monomer. ACS Cent Sci. 2016 Feb 24;2(2):99-108. doi: 10.1021/acscentsci.5b00331. PMID: 27163034
Ntai I, Toby TK, LeDuc RD, Kelleher NL. A Method for Label-Free, Differential Top-Down Proteomics. Methods Mol Biol. 2016;1410:121-33. doi: 10.1007/978-1-4939-3524-6_8. PMID: 26867742
Chen Y, McClure RA, Kelleher NL. Screening for Expressed Nonribosomal Peptide Synthetases and Polyketide Synthases Using LC-MS/MS-Based Proteomics. Methods Mol Biol. 2016;1401:135-47. doi: 10.1007/978-1-4939-3375-4_9. PMID: 26831706
2015
Lee E. and Scheidt K., 2015, Studies toward the total synthesis of chrolactomycin and the development of novel small molecule telomerase inhibitors. 249th ACS National Meeting, Denver, 2015, Poster presentation 41 BIOL: Current Topics in Biological Chemistry ABSTRACT
Damon PL, Liss CJ, Lewis RA, Morochnik S, Szpunar DE, Telser J, Hayton TW. Quantifying the Electron Donor and Acceptor Abilities of the Ketimide Ligands in M(N═C(t)Bu2)4 (M = V, Nb, Ta). Inorg Chem. 2015 Oct 19;54(20):10081-95. doi: 10.1021/acs.inorgchem.5b02017. PMID: 26419513
McShan D, Kathman S, Lowe B, Xu Z, Zhan J, Statsyuk A, Ogungbe IV. Identification of non-peptidic cysteine reactive fragments as inhibitors of cysteine protease rhodesain. Bioorg Med Chem Lett. 2015 Oct 15;25(20):4509-12. doi: 10.1016/j.bmcl.2015.08.074. PMID: 26342866
Chinen AB, Guan CM, Ferrer JR, Barnaby SN, Merkel TJ, Mirkin CA. Nanoparticle Probes for the Detection of Cancer Biomarkers, Cells, and Tissues by Fluorescence. Chem Rev. 2015 Oct 14;115(19):10530-74. doi: 10.1021/acs.chemrev.5b00321. Review. PMID:26313138
Stawarz A, Kalman R, Subramanian H, Zhang D, Roy H, Backman V. P-Rf-454 Detectable Nanoscale Alterations for Prediction of Future Risk of Hepatocellular Carcinoma. 2015 Biomedical Engineering Society, Oct. 7-10, Tampa FL; ABSTRACT
Kathman SG, Span I, Smith AT, Xu Z, Zhan J, Rosenzweig AC, Statsyuk AV. A Small Molecule That Switches a Ubiquitin Ligase From a Processive to a Distributive Enzymatic Mechanism. J Am Chem Soc. 2015 Oct 7;137(39):12442-5. doi: 10.1021/jacs.5b06839. PMID: 26371805
Kim K, Compton PD, Toby TK, Thomas PM, Wilkins JT, Mutharasan RK, Kelleher NL. Reducing protein oxidation in low-flow electrospray enables deeper investigation of proteoforms by top down proteomics. EuPA Open Proteom. 2015 Sep;8:40-47. PMID: 26753126
Dennis KL, Saadalla A, Blatner NR, Wang S, Venkateswaran V, Gounari F, Cheroutre H, Weaver CT, Roers A, Egilmez NK, Khazaie K. T-cell Expression of IL10 Is Essential for Tumor Immune Surveillance in the Small Intestine. Cancer Immunol Res. 2015 Jul;3(7):806-14. doi: 10.1158/2326-6066.CIR-14-0169. PMID: 25855122
Bayer A., Que E., Duncan F., Woodruff T.K., O’Halloran T.V. Zinc fluxes in control of gamete maturation, cell cycle and fertilization.2015 Cell Biology of Metals Gordon Conference, West Dover, Vermont, July 2015. ABSTRACT
Wu HC, Yamankurt G, Luo J, Subramaniam J, Hashmi SS, Hu H, Cunha SR. Identification and characterization of two ankyrin-B isoforms in mammalian heart. Cardiovasc Res. 2015 Sep 1;107(4):466-77. doi: 10.1093/cvr/cvv184. Epub 2015 Jun 24.
Albright JC, Henke MT, Soukup AA, McClure RA, Thomson RJ, Keller NP, Kelleher NL. Large-scale metabolomics reveals a complex response of Aspergillus nidulans to epigenetic perturbation. ACS Chem Biol. 2015 Jun 19;10(6):1535-41. doi: 10.1021/acschembio.5b00025. PMID: 25815712
Ferrer JR, Chokechanachaisakul A, Wertheim JA. New Tools in Experimental Cellular Therapy for the Treatment of Liver Diseases. Curr Transplant Rep. 2015 Jun 1;2(2):202-210. PMID: 26317066
Toby, T.K., Fornelli, L., Kim, K., Salomon, D.R., Abecassis, M.M., Kelleher, N.L. MP 557: Proteoform reaction monitoring by top-down proteomics: Moving from discovery to targeted64 validation of intact protein biomarkers. 2015 ASMS National Conference. May 31 – June 4, St. Louis, MO. ABSTRACT
Yamankurt G, Wu HC, McCarthy M, Cunha SR. Exon organization and novel alternative splicing of Ank3 in mouse heart. PLoS One. 2015 May 29;10(5):e0128177. doi: 10.1371/journal.pone.0128177. eCollection 2015.
Kalman, R., Subramanian, H., Nunes, D., DeLaCruz, M., Wali, R.K., Jepeal, L.I., Stawarz, A., Zhang, D., Backman, V., and Hemant, H.K. 951 Biophonotic Detection of High Order Chromatin Alterations in Field Carcinogenesis Predicts Risk of Future Hepatocellular Carcinoma: A Pilot Study. Gastroenterology 148.4 (2015): S-184. April 2015 Volume 148, Issue 4, Supplement 1, Pages S-184–S-185
Bayer A., Que E., Duncan F., Woodruff T.K., O’Halloran T.V. 2015,107-Zinc fluxes in control of gamete maturation, cell cycle and fertilization. 249th American Chemical Society National Meeting, Denver, Colorado, March 2015. BIOL: Current Topics in Biological Chemistry. ABSTRACT.
Ferrer J., Chernyak N., Wertheim J., Mirkin C. MEDI 106: Design and synthesis of a dual-targeting liposomal spherical nucleic acid. American Chemical Society (ACS) National Meeting, Boulder, CO Spring 2015 ABSTRACT
Que EL, Bleher R, Duncan FE, Kong BY, Gleber SC, Vogt S, Chen S, Garwin SA, Bayer AR, Dravid VP, Woodruff TK, O’Halloran TV. Quantitative mapping of zinc fluxes in the mammalian egg reveals the origin of fertilization-induced zinc sparks. Nat Chem. 2015 Feb;7(2):130-9. doi: 10.1038/nchem.2133. PMID: 25615666
2014
Boehler RM, Kuo R, Shin S, Goodman AG, Pilecki MA, Gower RM, Leonard JN, Shea LD. Lentivirus delivery of IL-10 to promote and sustain macrophage polarization towards an anti-inflammatory phenotype. Biotechnol Bioeng. 2014 Jun;111(6):1210-21. doi: 10.1002/bit.25175. Erratum in: Biotechnol Bioeng. 2014 Jul;111(7):1469. Gower, R M [added]. PMID: 24375008
Kathman SG, Xu Z, Statsyuk AV. A fragment-based method to discover irreversible covalent inhibitors of cysteine proteases. J Med Chem. 2014 Jun 12;57(11):4969-74. doi: 10.1021/jm500345q. PMID: 24870364
2013
Ye H, Toby TK, Sommers CD, Ghasriani H, Trehy ML, Ye W, Kolinski RE, Buhse LF, Al-Hakim A, Keire DA. Characterization of currently marketed heparin products: key tests for LMWH quality assurance. J Pharm Biomed Anal. 2013 Nov;85:99-107. doi: 10.1016/j.jpba.2013.06.033. PMID: 23917037
Dennis KL, Wang Y, Blatner NR, Wang S, Saadalla A, Trudeau E, Roers A, Weaver CT, Lee JJ, Gilbert JA, Chang EB, Khazaie K. Adenomatous polyps are driven by microbe-instigated focal inflammation and are controlled by IL-10-producing T cells. Cancer Res. 2013 Oct 1;73(19):5905-13. doi: 10.1158/0008-5472.CAN-13-1511. PMID: 23955389
Chen Y, McClure RA, Zheng Y, Thomson RJ, Kelleher NL. Proteomics guided discovery of flavopeptins: anti-proliferative aldehydes synthesized by a reductase domain-containing non-ribosomal peptide synthetase. J Am Chem Soc. 2013 Jul 17;135(28):10449-56. doi: 10.1021/ja4031193. PMID:23763305
Chen Y, Unger M, Ntai I, McClure RA, Albright JC, Thomson RJ, Kelleher NL. Gobichelin A and B: Mixed-Ligand Siderophores Discovered Using Proteomics. Medchemcomm. 2013 Jan 1;4(1):233-238. PMID:23336063