Stanley Tabor and Charles Richardson 
Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115 
stabor@heckle.med.harvard.edu 

16. Mutagenesis and Reaction Condition Studies of T7 RNA Polymerase Variants to Incorporate Deoxynucleotides 

Mark Knuth, Scott Lesley, Heath Klock, Michelle Mandrekar, Ryan Olson, James Schaefer, and Kris Zimmerman 
Promega Corporation 2800 Woods Hollow Rd. Madison, WI 53711 
mknuth@promega.com 

Hayashizaki Y, Okazaki Y, Kawai J, Carninci P, Shibata K, Ito M, Tateno M, Sasaki N, Konno H, Sugahara Y, Kawahire S, Izawa M, Shibata Y, Watahiki M, Yoneda Y, Tanaka T, Matuura S, Muramatsu, M 
Genome Sciences Center, Genome Science Lab. RIKEN Japan 

17. Megabase and Gigabase Templates: Direct Automated Sequencing off Microbial and Eukaryotic Chromosomal DNA 

S. Kozyavkin, A. Malykh, O. Malykh, Y. Mirokhin, and A. Slesarev 
Fidelity Systems, Inc., 7961 Cessna Avenue, Gaithersburg, MD 20879-4117 
http://www.fidelitysystems.com 
fsi1@fidelitysystems.com 

18. PCR Using Branched Modular Primers 

Maura M. Devine, Mugasimangalam C. Raja, and Levy E. Ulanovsky 
CMB, Argonne National Laboratory, Argonne, IL 60439-4833 
levy@anl.gov 

19. Synthesis, Characterization, and Potential Applications of Biotinylated Energy Transfer Oligonucleotides 

Jin Xie¹, Richard A. Mathies², and Alexander N. Glazer¹ 
Departments of ¹Molecular and Cell Biology and ²Chemistry, University of California, Berkeley, CA 94720 
Glazer@uclink4.berkeley.edu 

20. Development of a Multilabel DNA Mapping Technique Using SERS Gene Probes 

Tuan Vo-Dinh¹, David L. Stokes¹, Guy D. Griffin¹, Jean-Pierre Alarie¹, Edward J. Michaud¹, Terry Bunde¹, Ung-Jin Kim², Melvin I. Simon^2 
1Life Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN 37831-6101, USA 
²Division of Biology, California Institute of Technology, Pasadena, CA 91125, USA 
tvo@ornl.gov 

Gregory G. Mahairas, Keith D. Zackrone, Stephanie Tipton, Sarah Schmidt, Alan Blanchard, Anne West, and Leroy Hood 
Department of Molecular Biotechnology, University of Washington, Seattle, WA 98195 

John J. Dunn, Laura Praissman, Laura-Li Butler-Loffredo, John J. McNulty, and F. William Studier 
Biology Department, Brookhaven National Laboratory, Upton, NY 11973-5000 
jdunn@bnl.gov 

22. Direct Conversion of PCR Products into Bidirectional Sequencing Fragments 

Kenneth W. Porter, Ahmad Hasan, Kaizhang He, Jack Summers, and Barbara Ramsay Shaw 
Department of Chemistry, Duke University, Durham, NC 27708-0346 
brs@chem.duke.edu 

23. Analysis of Gradients of Polymer Concentration or Ionic Strength 

Mark A. Quesada, David J. Fisk, and F. William Studier 
Biology Department, Brookhaven National Laboratory, Upton, NY 11973 
quesada@bnl.gov 

24. Design and Assembly of a Turnkey, High Throughput Oligonucleotide Synthesis Facility for Use on the Human Genome Project 

J. Shawn Roach and Harold R. Garner 
Center for Biomedical Invention, University of Texas Southwestern Medical Center, 5323 Harry Hines Blvd. NB11.102B, Dallas, TX 75235-8573 
roach@ryburn.swmed.edu 

25. Prep Track I - A Dynamic Approach to Liquid Handing Robotics 

D. Humphries, M. Pollard, J. Bercovitz, C. Reiter, and B. Gray 
Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, California 
DEHumphries@lbl.gov 

26. PrepTrack II Design: Lessons Learned from PrepTrack I 

John Bercovitz, Martin Pollard, David Humphries, Mario Cepeda, Charlie Reiter, and Bruce Gray 
Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, California 
JHBercovitz@lbl.gov 

27. Adapting the Tecan Genesis 2 Meter Workstation for High Density Agarose Gel Loading 

Linda Sindelar, John Bercovitz, Mario Cepeda, and David Humphries 
Joint Genome Institute, Lawrence Berkeley Laboratory, Berkeley, California 
LESindelar@lbl.gov 

28. Technology Development for the Human Genome Project 

Chris Robinson¹, Todd Brooks¹, Travis Crane¹, Chris Elkin² and Trevor L. Hawkins^1,2 
1College of Medicine, University of Florida, Gainesville, Florida and ²CuraGen Corporation, Gainesville, Florida 
thawkins@fl.curagen.com 

29. Automation for High Throughput Genomic DNA Sequencing 

Ronald W. Davis 
Biochemistry Department, Stanford University, Stanford, California 
princed@leland.stanford.edu 

Eric Lander 
Whitehead Institute, Cambridge, Massachusetts 
lander@wi.mit.edu 

31. Laboratory Automation for Finish Sequencing at LLNL 

Stephan Trong, Arthur Kobayashi, David J. Ow, Matt P. Nolan, Tom Slezak, Stephanie A. Stilwagen, Glenda G. Quan, and Jane Lamerdin 
Human Genome Center, Biology and Biotechnology Research Program, Lawrence Livermore National Laboratory, Livermore, California 
trong1@llnl.gov 

32. Sheath-Flow Capillary Array DNA Sequencer Development at JGI/LBNL 

Jian Jin, William F. Kolbe, Yunian Lou, Earl W. Cornell, Alex Cheung, and Joseph M. Jaklevic 
Ernest Orlando Lawrence Berkeley National Laboratory, University of California, Engineering Science Department, 1 Cyclotron Road, Berkeley, CA 94720 
Jian_Jin@lbl.gov 

33. Fully Automated DNA Sequencing with a Commercial 96-Capillary Array Instrument 

Qingbo Li, Thomas E. Kane, Changsheng Liu, Harry Zhao, Robert Fields, and John Kernan 
SpectruMedix Corp., 2124 Old Gatesburg Rd., State College, PA 16803 
qbli@spectrumedix.com 

34. Automation and Integration of Multiplexed On-Line Sample Preparation with Capillary Electrophoresis for High-Throughput DNA Sequencing 

Edward S. Yeung, Hongdong Tan, and Nanyan Zhang 
Ames Laboratory, Ames, Iowa 
yeung@ameslab.gov 

35. Long-Read DNA Sequencing by Capillary Array Electrophoresis 

Oscar Salas-Solano, Lev Kotler, Zoran Sosic, Arthur W. Miller, Yongwu Yang, Haihong Zhou, and Barry L. Karger 
Barnett Institute and Department of Chemistry, Northeastern University, 360 Huntington Avenue, Boston, MA 02115 
bakarger@lynx.neu.edu 

36. DNA Sequencing Using Capillary Array Electrophoresis 

Indu Kheterpal¹, Gary T. Wedemeyer¹, Yuping Cai², Alexander N. Glazer², and Richard A. Mathies^1 
1Departments of Chemistry and ²Molecular and Cellular Biology, University of California, Berkeley, CA 94720 
indu@zinc.cchem.berkeley.edu 

37. Focused Single Molecule DNA Detection in Microfabricated Capillary Electrophoresis Chips 

Brian B. Haab and Richard A. Mathies 
Department of Chemistry, University of California, Berkeley, CA 94720 
rich@zinc.cchem.berkeley.edu 

38. Ultra-High Throughput DNA Genotyping and Sequencing on Radial Capillary Array Electrophoresis Microplates 

Peter C. Simpson, James R. Scherer, Yining Shi, and Richard A. Mathies 
University of California, Berkeley, CA 94720 
peter@zinc.cchem.berkeley.edu 

39. Integrated Sequencing Sample Preparation on CE Microplates 

Yining Shi¹, Indu Kheterpal¹, Jin Xie², Alexander N. Glazer², and Richard A. Mathies^1 
1Departments of Chemistry and ²Molecular and Cellular Biology, University of California, Berkeley, CA 94720 
rich@zinc.cchem.berkeley.edu 

40. Integrated Electrochemical Detection with Microfabricated Capillary Electrophoresis Chips 

Pankaj Singhal¹, Jin Xie², Alexander N. Glazer^1, and Richard A. Mathies² 
Departments of ¹Chemistry and ² Molecular and Cellular Biology, University of California, Berkeley, CA 94720 
pankaj@zinc.cchem.berkeley.edu 

41. Integrated Microchip Devices for DNA Analysis 

R. S. Foote, W. C. Dunn, J. Khandurina, N. Kroutchinina, T. McKnight, L. C. Waters, S. C. Jacobson, and J. M. Ramsey 
Chemical & Analytical Sciences Division, Oak Ridge National Laboratory, P.O. Box 2008, Oak Ridge, TN 37830-6142 
footers@ornl.gov 

42. Single Nucleotide Polymorphism Detection and Identification Directly from Human Genomic DNA by Invasive Cleavage of Oligonucleotide Probes 

Victor Lyamichev, Andrea L. Mast, Jeff G. Hall, James Prudent, Tamara Sander, Monika de Arruda, David Arco, Bruce P. Neri, and Mary Ann D. Brow 
Third Wave Technologies, Inc., 502 S. Rosa Rd. Madison, WI 53719 
madbrow@twt.com 

43. High Throughput SNP Discovery and Scoring Using Bead-Based Flow Cytometry 

P. Scott White, Hong Cai, and John P. Nolan 
Los Alamos National Laboratory, Los Alamos, New Mexico 
swhite@telomere.lanl.gov 

44. DNA Characterization by Electrospray Ionization-Fourier Transform Ion Cyclotron Resonance Mass Spectrometry 

David S. Wunschel, Ljiljana Pasa Tolic, Bingbing Feng, James E. Bruce, Harold R. Udseth, and Richard D. Smith 
Environmental Molecular Sciences Laboratory, Mail Stop: K8-98, Pacific Northwest National Laboratory, Richland, WA 99352 
dick.smith@pnl.gov 

45. Laser Desorption Mass Spectrometry for DNA Sequencing and Analysis 

C. H. Winston Chen, N. R. Isola, N. I. Taranenko, V. V. Golovlev, and S. L. Allman 
Life Science Division, Oak Ridge National Laboratory, Oak Ridge, TN 37831 
chenc@ornl.gov 

46. PCR Product Size Measurement using MALDI Mass Spectrometry 

G.B. Hurst, Y. Kim, K. Weaver, and M.V. Buchanan 
Organic and Biological Mass Spectrometry, Oak Ridge National Laboratory, Oak Ridge, Tennessee 
hurstgb@ornl.gov 

47. Analyzing Genetic Variations by Mass Spectrometry 

Lloyd M. Smith, Travis Berggren, Tim Griffin, Zhengdong Fei, and Mark Scalf 
Department of Chemistry, University of Wisconsin, Madison, WI 53706-1396 
smith@chem.wisc.edu 

48. DNA Sequencing by Single Molecule Detection 

James H. Jett, Peter M. Goodwin, James H. Werner, Hong Cai, and Richard A. Keller 
Chemical Sciences and Technology Division and Life Sciences Division, Los Alamos National Laboratory, Los Alamos, NM 87545 
jett@lanl.gov 

49. Manipulation of Single DNA Molecules by Induced-Dipole Forces in Micro-Fabricated Structures 

Chip Asbury, Paolo Prati, and Ger van den Engh 
Department of Molecular Biotechnology, University of Washington, WA 98195 
asbury@biotech.washington.edu 
  

50. A Quantitative Analytical Tool for Improving DNA-Based Diagnostic Arrays 

Tom J. Whitaker 
Atom Sciences, Inc., 114 Ridgeway Center, Oak Ridge, TN 37830 
whitaker@atom-sci.com 

51. A Light-Directed DNA/RNA- Microarray Synthesizer 

Xiaochuan Zhou¹, Robert Setterquist¹, Xiaolian Gao², Peilin Yu², Eric LeProust², Laëtitia Sonigo², Jean Philippe Pellois², Hua Zhang², Erdogan Gulari³, and Ning Gulari^3 
1 Xeotron Corporation, Houston, TX 77030 
² University of Houston, Department of Chemistry, Houston, TX 77204-5641 
³ University of Michigan, Department of Chemical Engineering and Center for Display Technology and Manufacturing, Ann Arbor, MI 48109 
xczhou@email.msn.com 

52. Development of Flowthrough Genosensor Chips 

Mitchel J. Doktycz and Kenneth L. Beattie 
Oak Ridge National Laboratory, P.O. Box 2008, Oak Ridge, TN 37831-6123 
okz@ornl.gov 

53. Sequence Analysis and Thermodynamic Studies of Short DNA Duplexes on Oligonucleotide Generic Microchip 

A. Fotin, D. Proudnikov, E. Timofeev, G. Yershov, Eu. Kirillov, A. Drobyshev, E. Khomyakova, A. Zasedatelev, and A. Mirzabekov 
Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, 117984 Moscow, Russia; Argonne National Laboratory, Argonne, IL 60439, USA; and Moscow Institute of Physics and Technology, 141700 Dolgoprudny, Russia 
timofeye@everest.bim.anl.gov 

W. Henry Benner and Joseph M. Jaklevic 
LBNL, MS: 70A-3363, 1 Cyclotron Road, Berkeley, CA 94720 
timofeye@everest.bim.anl.gov