SAMDI Publications

High-throughput Screening

  • Discovery of SIRT3 Inhibitors Using SAMDI Mass Spectrometry. K. Patel, J. Sherrill, M. Mrksich and M.D. Scholle. J. Biomol. Screen., 2015, 20, 842-848. [Abstract]
  • HTS of Small Molecule Libraries using SAMDI. Gurard-Levin, Scholle, Eisenberg, Mrksich. ACS Comb Science. 2011. 13(4):347-50. [Abstract]
  • Chemical Screening by Mass Spectrometry to Identify Inhibitors of Anthrax Lethal Factor. D.-H. Min, W.-J. Tang and M. Mrksich, Nature Biotechnology, 2004, 22, 717-720. [Abstract]

Histone Modifying Enzymes

  • Bifunctional conjugates with potent inhibitory activity towards cyclooxygenase and histone deacetylase. Raji I, Yadudu F, Janeira E, Fathi S, Szymczak L, Kornacki JR, Komatsu K, Li JD, Mrksich M, Oyelere AK. Bioorg Med Chem., 2016 Dec 24.[Abstract]
  • A structure-activity relationship of non-peptide macrocyclic histone deacetylase inhibitors and their anti-proliferative and anti-inflammatory activities. Tapadar S, Fathi S, Raji I, Omesiete W, Kornacki JR, Mwakwari SC, Miyata M, Mitsutake K, Li JD, Mrksich M, Oyelere AK. Bioorg Med Chem., 2015 Dec 15;23(24):7543-64. [Abstract]
  • Acetyltransferase PCAF Regulates Crosstalk-Dependent Acetylation of Histone H3 by Distal Site Recognition. J.R. Kornacki, A.D. Stuparu and M. Mrksich. ACS Chemical Biology, 2015, 10, 157-164.[Abstract]
  • A High-Throughput Mass Spectrometry Assay Coupled with Redox Activity Testing Reduces Artifacts and False Positives in Lysine Demethylase Screening. Wigle TJ, Swinger KK, Campbell JE, Scholle MD, Sherrill J, Admirand EA, Boriack-Sjodin PA, Kuntz KW, Chesworth R, Moyer MP, Scott MP, Copeland RA. J Biomol Screen. 2015 Mar 9: 1-11. [Abstract]
  • Profiling Deacetylase Activities in Cell Lysates with Peptide Arrays and SAMDI Mass Spectrometry. H.-Y. Kuo, T.A. DeLuca, W.M. Miller and M. Mrksich. Anal. Chem., 2013,85, 10635-10642.[Abstract]
  • Synthesis and Structure-Activity Relationship of 3-Hydroxypyridine-2-thione-Based Histone Deactylase Inhibitors. Q.H. Sodji, V. Patil, J.R. Kornacki, M. Mrksich and A.K. Oyelere. J. Med. Chem., 2013, 56, 9969-9981.[Abstract]
  • Convergent evolution of chromatin modification by structurally distinct enzymes: comparative enzymology of histone H3 Lys27 methylation by human polycomb repressive complex 2 and vSET. Swalm BM, Hallenbeck KK, Majer CR, Jin L, Scott MP, Moyer MP, Copeland RA, Wigle TJ. Biochem J., 2013, Jul 15;453(2):241-7. [Abstract]
  • Peptide Arrays Identify Isoform-Selective Substrates for Profiling Endogenous Lysine Deacetylase Activity. Z.A. Gurard-Levin, K. Killian, J. Kim, K. Bahr, and M. Mrksich. ACS Chem. Biol. 2010. 5:9, 863-873 [Abstract]
  • Combining Mass Spectrometry and Peptide Arrays to Profile the Specificities of the Histone Deacetylases. Z.A. Gurard-Levin, J. Kim, and M. Mrksich, ChemBioChem, 2009, 10, 2159. [Abstract]
  • The Activity of HDAC8 Depends on Local and Distal Sequences of Its Peptide Substrates. Z.A. Gurard-Levin and M. Mrksich, Biochemistry, 2008, 47(23), 6242-6250. [Abstract]

Cell-based Assays

  • Nanopatterned Extracellular Matrices Enable Cell-Based Assays with a Mass Spectrometric Readout. Cabezas MD, Mirkin CA, Mrksich M. Nano Letters, 2017 Jan 25.[Abstract]
  • Cellular Assays with a Molecular Endpoint Measured by SAMDI Mass Spectrometry. Berns EJ, Cabezas MD, Mrksich M. Small, 2016 Jul;12(28):3811-8.[Abstract]

Kinases, Caspases, and more

  • Rapid Evaluation and Screening of Interfacial Reactions on Self-Assembled Monolayers. J. Li, P. S. Thiara and M. Mrksich, Langmuir, 2007, 23, 11826-11835. [Abstract]
  • Assays of Endogenous Caspase Activities: A Comparison of Mass Spectrometry and Fluorescence Formats. J. Su, T. W. Rajapaksha, M. E. Peter and M. Mrksich, Anal. Chem., 2006, 78 (14), 4945-4951. [Abstract]
  • Combining Microfluidic Networks and Peptide Arrays for Multi-Enzyme Assays. J. Su, M.R. Bringer, R.F. Ismagilov and M. Mrksich. J. Am. Chem. Soc., 2005, 127, 7280-7281. [Abstract]
  • A Method for Connecting Solution Phase Enzyme Activity Assays with Immobilized Format Analysis by Mass Spectrometry. D.-H. Min, W.-S. Yeo and M. Mrksich, Anal. Chem., 2004, 76(14), 3923-3929. [Abstract]
  • Profiling Kinase Activities by Using a Peptide Chip and Mass Spectrometry. D.-H. Min, J. Su and M. Mrksich, Angew. Chem. Int. Ed., 2004, 43(44), 5973-5977. [Abstract]
  • Peptide Chips for the Evaluation of Protein Kinase Activity. B. T. Houseman, J. H. Huh, S. J. Kron and M. Mrksich, Nature Biotech., 2002, 20, 270-274. [Abstract]


  • Profiling the Selectivity of DNA Ligases in an Array Format with Mass Spectrometry. J. Kim and M. Mrksich, Nucleic Acids Research, 2010. [Abstract]
  • Biochemical Assays of Immobilized Oligonucleotides with Mass Spectrometry. H. Tsubery and M. Mrksich, Langmuir, 2008, 24(10), 5433-5438. [Abstract]


  • Functional Assays of Membrane-Bound Proteins with SAMDI-TOF Mass Spectrometry. V.L. Marin, T.H. Bayburt, S.G. Silgar and M. Mrksich, Angew. Chem. Int. Ed., 2007, 46(46), 8796-8798. [Abstract]
  • Label-Free Detection of Protein-Protein Interactions on Biochips. W. S. Yeo, D. H. Min , R. W. Hsieh, G. L. Greene and M. Mrksich, Angew. Chem. Int. Ed., 2005, 44(34). 5480-5483. [Abstract]
  • Selective Immobilization of Protein to Self-Assembled Monolayers Presenting Active Site Directed Capture Ligands. C. D. Hodneland, Y.-S. Lee, D.-H. Min and M. Mrksich, Proc. Natl. Acad. Sci. USA, 2002, 99, 5048-5052. [Abstract]

Peptides and Carbohydrates

  • Discovery of Glycosyltransferases Using Carbohydrate Arrays and Mass Spectrometry. L. Ban, N. Pettit, L. Li, A.D. Stuparu, L. Cai, W. Chen, W. Guan, P.W. Wang and M. Mrksich. Nat. Chem. Biol., 2012, 8, 769-773.[Abstract]
  • On-Chip Synthesis and Label-Free Assays of Oligosaccharide Arrays. L. Ban and M. Mrksich, Angew. Chem. Int. Ed., 2008, 47(18), 3396-3399. [Abstract]
  • Maleimide-Functionalized Self-Assembled Monolayers for the Preparation of Peptide and Carbohydrate Biochips. B. T. Houseman, E. S. Gawalt and M. Mrksich, Langmuir, 2003, 19(5), 1522-1531. [Abstract]
  • Using Mass Spectrometry to Characterize Self-Assembled Monolayers Presenting Peptides, Proteins and Carbohydrates. J. Su and M. Mrksich, Angew. Chem. Int. Ed., 2002, 41, 4715-4718. [Abstract]
  • Toward Quantitative Assays with Peptide Chips: A Surface Engineering Approach. B. T. Houseman and M. Mrksich, Trends Biotech., 2002, 20 (7), 279-281. [Abstract]
  • Carbohydrate Arrays for the Evaluation of Protein Binding and Enzyme Activity. B. T. Houseman and M. Mrksich, Chem. Biol., 2002, 9, 443-454. [Abstract]

Small Molecule Detection

  • Measuring Drug Metabolism Kinetics and Drug-Drug Interactions Using Self-Assembled Monolayers for Matrix-Assisted Laser Desorption-Ionization Mass Spectrometry. Anderson LL, Berns EJ, Bugga P, George AL Jr, Mrksich M. Anal Chem., 2016 Sep 6;88(17):8604-9. [Abstract]
  • SAMDI Mass Spectrometry-Enabled High-Throughput Optimization of a Traceless Petasis Reaction. Diagne AB, Li S, Perkowski GA, Mrksich M, Thomson RJ. ACS Comb Sci., 2015 Nov 9;17(11):658-62. [Abstract]


  • Self-Assembled Monolayers for MALDI-TOF Mass Spectrometry for Immunoassays of Human Protein Antigens. S.M. Patrie and M. Mrksich, Anal. Chem., 2007, 79(15), 5878-5887. [Abstract]
  • Antibody Arrays Prepared by Cutinase-Mediated Immobilization on Self-Assembled Monolayers. Y. Kwon, Z. Han, E. Karatan, M. Mrksich and B.K. Kay, Anal. Chem., 2004, 76(19), 5713-5720. [Abstract]


  • Mass Spectroscopy of Self-Assembled Monolayers: A New Tool for Molecular Surface Science. M. Mrksich, ACS Nano, 2008, 2(1), 7-18. [Abstract]
  • Combining Self-Assembled Monolayers and Mass Spectrometry for Applications in Biochips. Z.A. Gurard-Levin and M. Mrksich, Annu. Rev. Anal. Chem., 2008, 1, 767-800. [Abstract]