报告题目: |
Molecular Tools for Omics |
报告人: |
张丕明教授 |
|
美国亚利桑那州立大学
|
报告时间: |
2012-09-14 14:30 |
报告地点: |
何添楼310会议室 |
主办单位: |
化学系 |
简介: |
PEIMING ZHANG, Ph.D.
1554 E. Douglas Ave., Gilbert, AZ 85234 | 480‐965‐5491 (O) | peiming.zhang@asu.edu
EDUCATION
Ph.D. | Organic Synthesis and Structure Chemistry | Institute of Chemistry, Chinese Academy of Sciences, China |1990
Thesis: Studies on Supramolecules ‐ Synthesis, Structures, and Inclusion Properties of Calixarene Derivatives
Supervisor: Prof. Zitan Huang
M.S. | Polymer Chemistry | Institute of Chemistry, Chinese Academy of Sciences, Beijing, China |1986
Thesis: Synthesis and Characterization of Polymer Derivatives of anticancer drug cis‐platinum Complexes
Supervisor: Prof. Sumen Sun
B.S. | Chemistry | Hunan Normal University, Changsha, Hunan Province, China | 1982
POSITIONS AND EMPOLYMENT
. Associate Professor of research and Director of the Bioconjugation and interface Chemistry Facility | The Biodesign
Institute at Arizona State University, Tempe, AZ | 2004‐present
. Associate Professor of research |Arizona State University, Tempe, AZ | 2003 to 2004
. Senior Medicinal Chemist | Biota, Inc., Carlsbad, CA | 2002 to 2003
. Principal Staff Scientist | Motorola Life Sciences, Tempe, AZ |1998 to 2002
. Research scientist | Walther Cancer Institute, Indianapolis, IN | 1993 to 1998
. Post Doctor | Purdue University, West Lafayett, IN | 1990 to 1993
CURRENT RESEARCH AREAS
. Tunneling‐based Single Biopolymer Sequencing
Objective: an electronic detection method for genomic and proteomic sequencing.
. Fabrication of Biomolecule Nanoarrays on Different Dimensions
Objective: (1) a universal DNA nanoarray for hybridization‐based targeted DNA sequencing.
(2) a pillared protein nanoarray.
. Recogntion Imaging of Single Protein Molecules
Objective: a single molecule method for detection of cancer biomarkers.
. Chemistry on Surface Functionalization and Bioconjugation
Objective: (1) biocompatible surfaces.
(2) attachment and conjugation of biomolecules.
(3) multi‐functional and multi‐dimensional linkers.
. SELEX of Aptamers for Epigemomics
Objective: a novel technique based on Next Generation Sequencing for aptamer selection.
RESEARCH FUNDING
. Instrument to optimize DNA sequencing by Recognition Tunneling, NIH, ongoing.
. Tunnel Junction for reading all four bases with high discrimination, NIH, ongoing.
. Sequencing by Recognition, completed.
. Sequencing by Recognition, a supplement, completed.
. Fabrication of Universal DNA Nanoarrays for Sequencing by Hybridization, NIH, completed.
. Water –Soluble Arrays for Personalized Medicine, NIH, completed.
2
MANAGEMENT EXPERIENCE
. A recharge facility that provides services to ASU and the local community in surface analysis, chemical analysis and
separation | 2004‐present
. A research group currently consisting of one research scientist, 5 graduate students, and a undergraduate | 2004‐
present
. The research collaboration of Motorola Life Sciences with Genometrix | 1999‐2002
PROFESSIONAL SERVICE
. Member of the NCI SBIR review panel
. Reviewer for Journals of American Chemical Society
. Member of doctoral dissertation and comprehensive exam committees of graduate students
. HRMS Lab Faculty Advisory Committee, Department of Chemsitry & Biochemistry, ASU
. Member of Faculty Advisory Team for Industry liaison of the Biodesign Institute, ASU
. Member of Faculty Advisory Team for research computational support of the Biodesign Institute, ASU
. Mentor for research interns from local High Schools
ACCOMPLISHMENTS
. The invention of universal reader and realted sequencing technologies by tunneling technologies were licensed to
Roche/IBM by ASU, 2011.
. A founding member of Motorola Biochip Systems, 1998.
. A universal base was licensed Glen Reseach, 1994.
PUBLICATIONS
1. Shuai Chang, Shuo Huang, Hao Liu, Peiming Zhang, Feng Liang, Rena Akahori, Shengqin Li, Brett Gyarfas, John
Shumway, Brian Ashcroft, Jin He, Stuart Lindsay, Chemical recognition and binding kinetics in a functionalized tunnel
junction, Nanotechnology 2012, 23 (23): 235101/1‐235101/14
2. Joshua Hihath, Shaoyin Guo, Peiming Zhang, Nongjian Tao, Effects of cytosine methylation on DNA charge transport,
Journal of Physics: Condensed Matter 2012, 24 (16): 164204/1‐164204/6.
3. Feng Liang, Shengqing Li, Stuart Lindsay, Peiming Zhang, Synthesis, Physicochemical Properties, and Hydrogen bonding
of 4(5)‐Substituted‐imidazole‐2‐carboxamide, a Potential Universal Reader for DNA Sequencing by Recognition
Tunneling, Chemsitry, A European Journal 2012, 18 (19): 5998‐6007.
4. Shuai Chang, Jin He, Peiming Zhang, Brett Gyarfas, Stuart Lindsay, Gap Distance and Interactions in a Molecular
Tunnel Junction, J. Am. Chem. Soc. 2011, 133 (36): 14267‐14269.
5. Bharath R. Takulapalli, Michael E. Morrison, Jian Gu; Peiming Zhang, A nanocontact printing system for sub‐100 nm
aligned patterning, Nanotechnology 2011, 22 (28):285302.
6. Stuart Lindsay, Jin He, Otto Sankey, Prokop Hapala, Pavel Jelinek, Peiming Zhang, Shuai Chang, Shuo Huang, Recogntion
Tunneling, Nanotechnology 2010, 21 (26): 262001/1‐262001/12.
7. Shuo Huang, Jin He, Shuai Chang, Peiming Zhang, Feng Liang, Shengqin Li, Michael Tuchband, Fuhrmann, Alexander;
Ros, Robert; Stuart Lindsay, Identifying single bases in a DNA oligomer with electron tunneling, Nature
Nanotechnology 2010, 5 (12): 868‐873.
8. Shuo Huang, Shuai Chang, Jin He, Peiming Zhang, Feng Liang, Michael Tuchband, Shengqing Li, Stuart Lindsay,
Recognition Tunneling Measurement of the Conductance of DNA Bases Embedded in Self‐Assembled Monolayers,
Journal of Physical Chemistry C 2010, 114 (48): 20443‐20448
9. Shuai Chang, Shuo Huang, Jin He, Feng Liang, Peiming Zhang, Shengqing Li, Xiang Chen, Sankey, Otto; Stuart Lindsay,
Electronic Signatures of all Four DNA Nucleosides in a Tunneling Gap, Nano Letters 2010, 10 (3): 1070‐1075.
10. Xiaonan Shan, Xinping Huang, Kyle J.Foley, Peiming Zhang, Kangping Chen, Shaopeng Wang, Nongjian Tao, Measuring
Surface Charge Density and Particle Height Using Surface Plasmon Resonance Technique, Analytical Chemistry 2010,
82 (1): 234‐240.
11. Shuai Chang, Jin He, Lisha Lin, Peiming Zhang, Feng Liang, Michael Young, Shuo Huang, Stuart Lindsay, Tunnel
conductance of Watson‐Crick nucleoside‐base pairs from telegraph noise, Nanotechnology 2009, 20 (18): 185102/1‐
185102/7
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12. Shuai Chang, Jin He, Ashley Kibel, Myeong Lee, Otto Sankey, Peiming Zhang, Stuart Lindsay, Tunnelling readout of
hydrogen‐bonding‐based recognition, Nature Nanotechnology 2009, 4 (5): 297‐301.
13. Jin He, Lisha Lin, Hao Liu, Peiming Zhang, Myeong Lee, O. F. Sankey, S. M. Lindsay, A hydrogen‐bonded electrontunneling
circuit reads the base composition of unmodified DNA, Nanotechnology 2009, 20 (7): 075102/1‐075102/8.
14. Jian Gu, Xiaoyin Xiao, Bharath R. Takulapalli, Michael E.Morrison, Peiming Zhang, Frederic Zenhausern, A new approach
to fabricating high density nanoarrays by nanocontact printing, Journal of Vacuum Science & Technology, B:
Microelectronics and Nanometer Structures‐‐Processing, Measurement, and Phenomena 2008, 26 (6): 1860‐1865.
15. Brian A.Ashcroft, Quinn Spadola, Shahid Qamar, Peiming Zhang, Gerald Kada, Rouvain Bension, Stuart Lindsay, An
AFM/rotaxane molecular reading head for sequence‐dependent DNA structures, Small 2008, 4 (9): 1468‐1475.
16. Jin He, Lisha Lin, Peiming Zhang, Quinn Spadola, Zhiqun Xi, Qiang Fu, Stuart Lindsay, Transverse Tunneling through DNA
Hydrogen Bonded to an Electrode, Nano Letters 2008,8 (8): 2530‐2534.
17. Jin He, Lisha Lin, Peiming Zhang, Stuart Lindsay, Identification of DNA Basepairing via Tunnel‐Current Decay, Nano
Letters 2007, 7 (12): 3854‐3858.
18. Joshua Hihath, Fang Chen, Peiming Zhang, Nongjian Tao, Thermal and electrochemical gate effects on DNA
conductance, Journal of Physics: Condensed Matter 2007, 19 (21): 215202/1‐215202/9.
19. Erica S. Forzani, Xiulan Li, Peiming Zhang, Nongjian Tao, Ruth Zhang, Islamshah Amlani, Raymond Tsui, Larry A.
Nagahara, Tuning the chemical selectivity of SWNT‐FETs for detection of heavy‐metal ions, Small 2006, 2 (11): 1283‐
1291.
20. Joshua Hihath, Bingqian Xu, Peiming Zhang, and Nongjian Tao, Study of single‐nucleotide polymorphisms by means of
electrical conductance measurements, PNAS 2005, 102: 16979‐16983.
21. Bingqian Xu, Peiming Zhang, and Nongjian Tao, Direct Conductance Measurement of Single DNA molecules in aqueous
solutions, Nano Lett. 2004, 4 (6): 1105‐1108.
22. Natasha Paul, Geoffrey Hopes, Peiming Zhang, Jie Zhou, V. J. Davisson and Donald E. Bergstrom, DNA Polymerase
Template Interactions probed by Degenerated Isosteric Nucleobase Analogs, Chemistry and Biology 2003, 10 (9): 815 –
825.
23. Peiming Zhang, Natalia Briones, Chang‐Gong Liu, Charles K. Brush, Tom Powdrill, Yuri Belosludtsev, and Mike Hogan,
Acceleration of nucleic acid hybridization on DNA microarrays driven by pH tunable modifications, Nucleosides,
Nucleotides Nucleic Acids 2001, 20 (4‐7): 1251‐1254.
24. Peiming Zhang, Michael Egholm, Natasha Paul, Maneesh Pingle, Donald E. Bergstrom, Peptide Nucleic Acid‐DNA
Duplexes Containing the Universal Base 3‐Nitropyrrole, Methods 2001, 23 (2): 132‐140.
25. Douglas A.Klewer, Peiming Zhang, Donald E.Bergstrom, V. Jo Davisson, Andy C. Li‐Wang, Conformations of Nucleoside
Analogue 1‐(2'‐Deoxy‐β‐D‐ribofuranosyl)‐1,2,4‐triazole‐3‐carboxamide in Different DNA Sequence Contexts,
Biochemistry 2001, 40 (6): 1518‐1527.
26. Douglas A. Klewer, Aaron Hoskins, Peiming Zhang, V. J. Davisson, Donald E. Bergstrom, Andy C. LiWang, NMR structure
of a DNA duplex containing nucleoside analog 1‐(2'‐deoxy‐.‐D‐ribofuranosyl)‐3‐nitropyrrole and the structure of the
unmodified control, Nucleic Acids Research 2000, 28 (22): 4514‐4522.
27. Mohammad Ahmadian, Peiming Zhang, Donald E. Bergstrom, A comparative study of the thermal stability of
oligodeoxyribonucleotides containing 5‐substituted 2'‐deoxyuridines, Nucleic Acids Research 1998, 26 (13): 3127‐3135.
28. Peiming Zhang, D. Bergstrom, V. Jo. Davisson, Geoffrey C. Hoops, W. Travis. Johnson, D. Klewer and N. Paul,
Exploratory studies on azole carboxamides as nucleobase analogs: Thermal denaturation studies on oligonucleotide
duplexes containing pyrrole‐3‐carboxamide, Nucleic Acids Research 1998, 26 (9): 2208‐2215.
29. Donald E. Bergstrom, Peiming Zhang, and Natasha Paul, dsDNA Stability Dependence on pH and Salt Concentration,
BioTechniques 1998, 24 (6): 992‐994.
30. Geoffrey C. Hoops, Peiming Zhang, W. Travis Johnson, Donald E. Bergstrom, and V. Jo Davisson, The Thermus aquaticus
DNA Polymerase Incorporates Mixtures of Nucleotides Using Templates Containing Selected Degenerate Azole
Nucleosides, Nucleic Acids Research 1997, 25 (24): 4866‐4871.
31. Donald Bergstrom, Peiming Zhang, W. Travis Johnson, Comparison of the base pairing properties of a series of
nitroazole nucleobase analogues in the sequence 5.‐d(CGCXAATTYGCG)‐3., Nucleic Acids Research 1997, 25 (10): 1935‐
1942.
32. W. Travis Johnson, Peiming Zhang, Donald Bergstrom, The Synthesis and Stability of Oligodeoxyribonucleotides
Containing the Deoxyadenosine Mimic 1‐(2.‐Deoxy‐.‐D‐ribofuranosyl) imidazole‐4‐carboxamide, Nucleic Acids
Research 1997, 25 (3): 559‐567.
33. D. E. Bergstrom, Peiming Zhang, and W. Travis Johnson, Design and Synthesis of Heterocyclic Carboxamides as Natural
Nucleic Acid Base Mimics, Nucleosides and Nucleotides 1996, 15 (1‐3): 59‐68.
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34. D. E. Bergstrom, Peiming Zhang, P. Toma, P. C. Andrews, and R. Nichols, Synthesis, Structure and Deoxyribonucleic Acid
Sequencing with a Universal Nucleoside: 1‐(2'‐Deoxy‐ ‐D‐ribofuranosyl)‐3‐nitropyrrole, J. Am. Chem. Soc. 1995, 117:
1201‐1209.
35. D. E. Bergstrom, Peiming Zhang, W. Travis Johnson, V. Jo. Davission, T. Klem, P. C. Andrews and R. Nichols, Fivemembered
Ring Heterocycles as DNA Components ‐ Tools for Molecular Biology, FASEB J. 1995. 9 (6): A1396,
36. D. E. Bergstrom, Peiming Zhang, J. Zhou, Synthesis of 2'‐Deoxy‐ ‐D‐ribofuranosyl Imidazole and Thiazole C‐Nucleosides,
J. Chem. Soc. Perkins Trans 1 1994: 3029‐3033.
37. R. Nichols, P. C. Andrews, Peiming Zhang, D. E. Bergstrom, A Universal Nucleoside for Use at Ambiguous Sites in DNA
Primers, Nature 1994, 369: 492‐493.
38. F. Bai, J. Yang, Z. Wang, Peiming Zhang, Z. Huang, Study on the Complexation Property of Calixarenes, Chinese Science
Bulletin 1994, 39: 921‐924.
39. Peiming Zhang, F. Guo, Z. Huang, Studies of the Inclusion Property of Tetrahydrocalix[4]arene, Acta Chimica Sinica
1992, 50:209‐215
40. D. Bergstrom, Peiming Zhang, An Efficient Route to C‐4 Linked Imidazole Nucleosides: Synthesis of 2‐Carbamoyl‐4‐(2'‐
deoxy‐β‐D‐Ribofuranosyl) imidazole, Tetrahedron Letters 1991, 32: 6485‐6488.
41. Peiming Zhang, F. Guo, Z. Huang, Synthesis of Triacetoxyhydroxycalix[4]arene and Crystal Structure of Its Acetonitrile
Clathrate, Acta Chimica Sinica 1989, 47: 731‐737.
42. Z. Wang, Peiming Zhang, S. Sun, Synthesis and Characterization of Polymer Derivatives of Cis‐platinum Complexes,
Chinese Journal of Polymer Science 1987, 4: 359‐369.
INVENTIONS
1. Stuart Lindsay, Jin He, Peiming Zhang, Kevin Reinhart, Nanopore and carbon nanotube based DNA sequencer and a
serial recogntion sequencer, US 20110120868 (2011)
2. Kevin Reinhart, Stuart Lindsay, Peiming Zhang, Nanopore and carbon nanotube based DNA sequencer and a serial
recognition elements, WO 2010042514 (2010).
3. Colin Nuckolls, Jinyao Tang, Stuart Lindsay, Jin He, Peiming Zhang, Kevin Reinhart, A nanopore‐ and carbon nanotubebased
electrophoretic biopolymer sequencing and sequencing apparatus, WO 2009117517 (2009).
4. Stuart Lindsay, Jin He, Peiming Zhang, Nanopore and carbon nanotube based DNA sequencer and a serial recognition
sequencer, WO 2009117522 (2009).
5. Stuart Lindsay, Peiming Zhang, Devices and methods for target molecule characterization, WO 2008124706 (2008).
6. John Chaput, Stuart Lindsay, Hao Yan, Peiming Zhang, Use of self‐assembling tiling nanoarrays comprising 2'‐5'
oligonucleotide probes in gene expression profiling and potential diagnostic applications, WO 2007139849 (2007).
7. Stuart Lindsay, Hao Yan, John Chaput, Yan Liu, Peiming Zhang, Self‐assembling, tiling, nucleic acid nanoarrays for use in
nanofabrication and nanostructures, WO 2006124089 (2006).
8. Jaymie Robin Sawyer, Changming Li, Vi‐En Choong, George Maracas, Peiming Zhang, Protein and peptide sensors using
electrical detection methods, US 20050023155 (2005).
9. James Xia, Charles K Brush, Vineet Gupta, Heshu Huang, Changming Li, George Maracas, Robert Marrero, Melissa L
Ray, Lei Sun, Peiming Zhang, Compositions and methods for rolling circle amplification, US 20040014078 (2004)
10. Changming Li, Jaymie Robin Sawyer, Vi‐En Choong, George Maracas, Peiming Zhang, Protein and peptide sensors using
electrical detection methods, U.S. 6,824,669 (2004)
11. Norman G. Fuller, W. Travis Johnson, M. Gaskin, Peiming Zhang, Schiff Base Reductant Co‐dispense Process, US
6500921 (2002).
12. Song Shi, Peiming Zhang, George Maracas, Column‐and‐row‐addressable high‐density biochip array,
WO 2001043870 (2001).
13. D. E. Bergstrom, P. C. Andrews, and R. Nichols, Peiming Zhang, Oligonucleotides having universal nucleoside spacers, US
5681947 (1997).
14. D. E. Bergstrom, P. C. Andrews, and R. Nichols, Peiming Zhang, 3‐Nitropyrrole nucleoside, US 5438131 (1995).
BOOK CHAPTER
1. Peiming Zhang, Jian Gu, Jin He, Weimin Gao, Weiwen Zhang, Stuart Lindsay, Deirdre R. Melddrum, Next‐Generation
and Future Sequencing Technologies and Metagenomics, in Metagenomics and Its Applications in Agriculture,
Biomedicine and Environmental Studies, 2011, Ed. Robert W. Li, NoVa Science Publishers, Inc. |
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