Life's simple measures: Unlocking the proteome

Journal of Molecular Biology

Volumn 422, Issue 5, 2012, Pages 595-606

  Brody, Edward ^a   Gold, Larry ^a   Mehan, Mike ^a   Ostroff, Rachel ^a   Rohloff, John ^a   Walker, Jeff ^a   Zichi, Dom ^a  

^a SomaLogic Inc   (United States)

Author keywords

aptamers; cancer; diagnostics; proteomics; SOMAmers

Indexed keywords

APTAMER; BIOTIN; DNA; PROTEINASE INHIBITOR; PROTEOME; SLOW OFF RATE MODIFIED APTAMER; STREPTAVIDIN; TUMOR MARKER; UNCLASSIFIED DRUG;

BIOINFORMATICS; BODY FLUID; DNA LIBRARY; DNA SEQUENCE; HUMAN; HYBRIDIZATION; LUNG CANCER; MATERIALS HANDLING; NONHUMAN; PRIORITY JOURNAL; PROTEIN PROTEIN INTERACTION; PROTEOMICS; REVIEW;

EID: 84865688732     PISSN: 00222836     EISSN: 10898638     Source Type: Journal    
DOI: 10.1016/j.jmb.2012.06.021     Document Type: Review

References (22)

1. E.N. Brody, L. Gold, R.M. Lawn, J.J. Walker, and D. Zichi High-content affinity-based proteomics unlocking protein biomarker discovery Expert Rev. Mol. Diagn. 10 2010 1013 1022
2. C. Tuerk, and L. Gold Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase Science 249 1990 505 510
3. A.D. Ellington, and J.W. Szostak In vitro selection of RNA molecules that bind specific ligands Nature 346 1990 818 822
4. L. Gold Oligonucleotides as research, diagnostic, and therapeutic agents J. Biol. Chem. 270 1995 13581 13584
5. L. Gold, D. Ayers, J. Bertino, C. Bock, A. Bock, and E.N. Brody Aptamer based multiplexed proteomic technology for biomarker discovery PLoS One 5 2010 e15004
6. J.D. Vaught, C. Bock, J. Carter, T. Fitzwater, M. Otis, and D. Schneider Expanding the chemistry of DNA for in vitro selection JACS 132 2010 4141 4151
7. M.R. Mehan, R. Ostroff, S.K. Wilcox, F. Steele, and D. Schneider Highly multiplexed proteomic platform for biomarker discovery, diagnostics and therapeutics J. Lambris, D. Rickelin, M. Holers, Complement Therapeutics Special Issue 2012 Springer New York City in press
8. T.R. Keeney, C. Bock, L. Gold, S. Kraemer, B. Lollo, and M. Nikrad Automation of the SomaLogic proteomics assay: a platform for biomarker discovery J. Assoc. Lab. Automation 14 2009 360 366
9. S. Kraemer, J.D. Vaught, C. Bock, L. Gold, E. Katilius, and T.R. Keeney From SOMAmer-based biomarker discovery to diagnostic and clinical applications: a SOMAmer-based, streamlined multiplex proteomic assay PLoS One 2011 e26332
10. R. Peytavi, F.R. Raymond, D. Gagne, F.J. Picard, G. Jia, and J. Zoval Microfluidic device for rapid (< 15 min) automated microarray hybridization Clin. Chem. 51 2005 1836 1844
11. J. Liu, B.A. Williams, R.M. Gwirtz, B.W. Wold, and S. Quake Enhanced signals and fast nucleic acid hybridization by microfluidic chaotic mixing Angew. Chem. Int. Ed. 45 2006 3618 3623
12. M.R. Mehan, D. Ayers, D. Thirstrup, W. Xiong, R. Ostroff, and E. Brody Protein signature of lung cancer tissues PLoS One 2012 e35157
13. A. Jemal, R. Siegal, E. Ward, Y. Hao, J. Xu, and M.J. Thun Cancer Statistics, 2009 CA Cancer J. Clin. 59 2009 22 249
14. World Cancer Report (2008). Boyle, P. & Levin, B., eds. International Agency for Research on Cancer (IARC), Lyon.
15. M. Okada, W. Nishio, T. Sakamoto, K. Uchino, T. Yuki, A. Nakagawa, and N. Tsubota Effect of tumor size on prognosis in patients with non-small cell lung cancer: the role of segmentectomy as a type of lesser resection J. Thorac. Cardiovasc. Surg. 129 2005 87 93
16. R.M. Ostroff, W.L. Bigbee, W. Franklin, L. Gold, M. Mehan, and Y.E. Miller Unlocking biomarker discovery: large scale application of aptamer proteomic technology for early detection of lung cancer PLoS One 5 2010 e15003
17. R. Ostroff, T. Foreman, T.R. Keeney, S. Stratford, J.J. Walker, and D. Zichi The stability of the circulating human proteins to variations in sample collection and handling procedures measured with an aptamer-based proteomics array J. Proteomics 73 2010 649 666
18. R.S. Stearman, L. Dwyer-Nield, M.C. Grady, A.M. Malkinson, and M.W. Geraci A macrophage gene expression signature defines a field effect in the lung tumor microenvironment Cancer Res. 68 2008 34 43
19. J.D. Storey A direct approach to false discovery rates J. R. Stat. Soc., B 64 2002 479 498
20. L. Breiman Random forests Machine Learning 45 2001 5 32
21. R. Wehrens Chemometrics with R 2011 Springer-Verlag Berlin Heidelberg 43 65
22. H.I. Pass, and M. Carbone Current status of screening for malignant pleural mesothelioma Thorac. Cardiovasc. Surg. 21 2009 97 104