Sequencing

Directed Genomic DNA Sequencing on Human Chromosome 5
Christopher H. Martin, Cheryl A. Davis, Cheryl L. Ericsson, Carol A. Mayeda, Herb Moise, and Michael J. Palazzolo

Computational and Biological Analysis of 1.2 Mb of sequence at 5q31
Kelly A. Frazer, Yukihiko Ueda, Maria R. Garofalo, Jan-Fang Cheng, Nomi Harris, Frank Eeckman, and Edward M. Rubin

Sequencing by Parallel Primer Walking of a 240 kb Human Chromosome 7q Telomere Region: Sample Sequencing (SASE) Analysis as a Framework for Complete Large Scale Genomic Sequencing
Han-Chang Chi, Judy M. Buckingham, A. Christine Munk, Elizabeth Saunders, Rebecca Lobb, Jingmei Liu, Quincey Simmons, Michael R. Altherr, Darrell Ricke, Jung-Rung Wu, and Robert K. Moyzis

Sequencing Human Chromosome 16: SAmple SEquencing (SASE) Analysis as a Framework for Identifying Genes and Complete Large-scale Genomic Sequencing
Darrell O. Ricke, Judith M. Buckingham, A. Christine Munk, Rebecca Lobb, Elizabeth H. Saunders, Jingmei Liu, Norman A. Doggett, Michael R. Altherr, Larry L. Deaven, and Robert K. Moyzis

Cycle Sequencing with 18-mers Produced from a Hexamer Library by Ligation of Hexamers on Hexamer Templates
John J. Dunn, Laura-Li Butler-Loffredo, and F. William Studier

Fesmid Vector for DNA Mapping and Sequencing
John J. Dunn, Matthew Randesi, and F. William Studier

Complete Sequence of a 34.8-kbp Fesmid Clone of Borrelia burgdorferi Determined in Part by Primer Walking with Hexamer Strings
John J. Dunn, Laura-Li Butler-Loffredo, Jan Kieleczawa, and F. William Studier

Automated Multiplex Microbial Genome Sequencing
Robert B. Weiss, Mark Stump, Joshua Cherry, Brett Duval, Robert Black, Sandy Kazuko, Jane Macfarlane, Diane Dunn, and Peter Cartwright

The Genome Sequence of Methanobacterium Thermoautotrophicum
Douglas R. Smith, Lynn Doucette-Stamm, Hong Mei Lee, Joanne Dubois, Craig Deloughery, Tyler Aldredge, Romina Bashirzadeh, Derron Blakely, Wendy Caubet, Maria Chung, Katie Gilbert, Chenghua Ma, Pamela Parenteau, Rupal Patel, Dayong Qui, Skip Shimer, Xing Wang, Jamey Wierzbowski, Jork Nolling, and John Reeve

Use of Partial CviJl Digestion as an Alternative Approach to Generate Cosmid Sublibraries for Large-Scale DNA Sequencing Projects
Jeffrey C. Gingrich, Denise M. Boehrer, and Subha B. Basu

Genomic Sequencing of Human Chromosome 19 and Comparative Analysis of Human and Rodent DNA Repair Gene Regions.
Jane Lamerdin, Mishelle Montgomery, Stephanie Stilwagen, Melissa Ramirez, Aaron Adamson, Subha Basu, Ami Kyle, Paula McCready, Jeff Gingrich, Anne Olsen, Larry Thompson, Emilio Garcia, and Anthony Carrano.

Shotgun Sequencing of a Cosmid Using the M13-102 Direct Selection Vector
Richard A. Guilfoyle, Danhua Chen, Arthur Johnson, Todd Francisco, Tetsuyoshi Ono, David Rank, and Lloyd M. Smith

Whole Genome Shotgun Sequencing of the 1.8 Mb Genome of the Hyperthermophilic Archaea Pyrobaculum Aerophilum
Ung-Jin Kim, Steve Marsh, Ronald Swanson, Melvin I. Simon, Sorel Fitz-Gibbon, and Jeffrey Miller

Whole Genome Shotgun Sequencing and Assembly of the Mycoplasma Genitalium Genome
Claire M. Fraser, Jeannine D. Gocayne, Owen White, Mark D. Adams, Robert D. Fleischmann, Rebecca Clayton, Kenneth F. Bott, Hamilton O. Smith, Clyde A. Hutchison III, and J. Craig Venter

Complete Genome Sequencing and Characterization of the Thermophilic Methanogen, Methanococcus Jannaschii
Carol J. Bult, Mark Adams, Rob Fleischmann, Jeannine Gocayne, Granger Sutton, Lixin Zhou, Owen White, Lisa FitzGerald, Judy Blake, Rebecca Clayton, Ewen Kirkness, Neil Geoghagen, Jan Weidman, Joyce Fuhrmann, Brian Dougherty, Hanna Tomb, Claudia Reich, Claire Fraser, Gary Olsen, Hamilton Smith, Carl Woese, and J.C. Venter

Large-scale Sequencing of the Human and Mouse T cell Receptor Beta Loci
Lee Rowen, Kai Wang, Inyoul Lee, Cecilie Boysen, Ben F. Koop, and Leroy Hood.

Sequencing of BACS and Cosmids Covering the Human T Cell Receptor Alpha/Delta Region
Cecilie Boysen, Inyoul Lee, Kai Wang, and Leroy Hood

The Merck Gene Index - an Update
Keith Elliston, Jeffrey Aaronson, Barbara Eckman, Richard Blevins, Shahid Imran, Joseph Myerson, and Alan Williamson

High-performance DNA Sequencing Using Energy Transfer Fluorescent Primers
Jingyue Ju, Indu Kheterpal, Su-Chun Hung, James R. Scherer, Alexander N. Glazer, and Richard A. Mathies

Fluorescence Energy-transfer Cyanine Heterodimers with High Affinity for Double-stranded DNA
Scott C. Benson, Zhaoxian Zeng, and Alexander N. Glazer

DNA Preparation and Automation at the Lawrence Berkeley National Laboratory, Human Genome Center
Martin Pollard

Modular, Continuous-throughput System for Processing Biochemical Samples in Microtiter Plates
Anthony D.A. Hansen, Martin J. Pollard, and Joseph M. Jaklevic

Low Cost Automated Preparation of Plasmid, Cosmid And Yeast DNA
Tuyen Nguyen, Randy F. Sivila, Joshua P. Dyer, and William P. MacConnell

Automated Fluorescent Detection for Multiplex DNA Sequencing
Andy Marks, Tony Schurtz, F. Mark Ferguson, Leonard Di Sera, Alvin Kimball, Diane Dunn, Doug Adamson, Peter Cartwright, Robert B. Weiss, and Raymond F. Gesteland

DNA Sequencing by Single Molecule Detection
R.L. Affleck, J.N. Demas, P.M. Goodwin, J.H. Jett, R.A. Keller, J.C. Martin, J.A. Schecker, D.J. Semin, and M. Wu

High Efficiency, Single Molecule Detection for DNA Sequencing
Rhett L. Affleck, James N. Demas, Peter M. Goodwin, James H. Jett, Minq Wu, and Richard A. Keller

One-step PCR Sequencing
Kenneth W. Porter, J. David Briley, and Barbara Ramsay Shaw

The Cow DNA Sequencer - Instrumentation and Software for Unattended Cosmid Oriented Walking and Large Scale DNA Sequencing of the Human Genome
Harold R. Garner, David Burbee, Stafford Brignac, Kim Burzynski, Christopher Davies, Michelle Gilbert, Ken Kupfer, Ping Li, Shane Probst, Simon Rayner, Emilee Strunk, and Glen A. Evans,

COW (Cosmid Oriented Walking) DNA Sequencing: A Novel Strategy for Rapid, Direct, and Automated Sequencing of the Human Genome Based on Sequence Sampled Maps
Dave Burbee, Chris Davies, Michelle Gilbert, Kim Burzynski, Emilee Strunk, Jeff Schageman, James McFarland, Ken Kupfer, Skip Garner, and Glen A. Evans

Integration of Laboratory Automation for the Human Genome Project: The Sequatron
Trevor L. Hawkins, Cheryl Evans, David Goon, Jarrod Loncor, Tara O'Connor, Jim McDermott, Niall Moloney, Meghan Lane, William Fitzhugh, David Wang, and William Lee

DNA Sequencing Technology: Walking with Modular Primers
Levy Ulanovsky, Lev Kotler, Mugasimangalam Raja, Maya Shmulevitz, and Alexander Beskin

Side Excitation of Fluorescence in Ultrathin Slab Gel Electrophoresis
Danhua Chen, Mark D. Peterson, Robert L. Brumley, Jr., Michael C. Giddings, Eric C. Buxton, Michael S. Westphall, Lloyd Smith, and Lloyd M. Smith

DNA Sequencing and Analysis by Multi-capillary Electrophoresis Using Replaceable Linear Polyacrylamide
Barry L. Karger, Emanuel Carrilho, Jan Berka, Marie Ruiz-Martinez, Frantisek Foret, Steve Carson, and Arthur Miller

Multiple Capillary DNA Sequencer that uses Fiber-Optic Illumination and Detection
Mark A. Quesada, Shiping Zhang, Janine Graves, and F. William Studier

Development of Instrumentation for DNA Sequencing at a Rate of 40 Million Bases Per Day
Edward S. Yeung, Huan-Tsung Chang, Qingbo Li, Xiandan Lu, and Eliza Fung

Multiple Capillary DNA Sequencing
Norman J. Dovichi, Jian-Zhong Zhang, JuYing Yan, Jiang Rong, Rong Liu, Sue Bay, Pieter Roos, Karl Voss, and Scott Dellinger

Development of a High-throughput and High-sensitivity Capillary Array DNA Sequencer
Jian Jin, William F. Kolbe, and Jocelyn C. Schultz

High-throughput Fluorescent Sequencer Development
William F. Kolbe, Jocelyn C. Schultz, and Jian Jin

Developments in High Throughput Electrophoresis System for DNA Sequencing and Large Fragment Analysis
Joseph W. Balch, Courtney Davidson, Larry Brewer, Jackson Koo, Ray Mariella, and Anthony Carrano

Third-generation DNA Sequencing and Analysis Technologies: Capillary Array Electrophoresis Chips and Single Molecule DNA Fragment Detection
Richard A. Mathies, Steve M. Clark, Andrew J. de Mello, Brian B. Haab, Jingyue Ju, Indu Kheterpal, James R. Scherer, Yiwen Wang, and Adam T. Woolley

Detection of Tin-Labeled DNA on Hybridization Chips
H.F. Arlinghaus, Margaret N. Kwoka, K. Bruce Jacobson, and K. L. Beattie

Mass Spectrometry in the Human Genome Project
Peter Williams, Chau-Wen Chou, David Dogruel, Jennifer Krone, Kathy Lewis, and Randall Nelson

Self-Assembled Matrix Monolayer for UV-MALDI Mass Spectrometry
Stephane Mouradian, Christine M. Nelson, and Lloyd M. Smith

Analyzing Sequencing Reactions from Bacteriophage M13 by MALDI Mass Spectrometry
Stephane Mouradian, David R. Rank, and Lloyd M. Smith

Factors Influencing DNA Stability In Matrix-Assisted Laser Desorption/Ionization (MALDI) Mass Spectrometry
Christine M. Nelson, Lin Zhu, Wei Tang, and Lloyd M. Smith

Mass Spectrometer Oligonucleotide Analyzer and Its Applications
C. H. Winston Chen, Nelli I. Taranenko, Y. F. Zhu, and S. L. Allman

Mass Spectrometric Molecular Weight Measurement of PCR-Amplified DNA
Gregory B. Hurst, Mitchel J. Doktycz, R.P. Woychik, and Michelle V. Buchanan

Rapid, Accurate Detection of DNA Sequence Variants via Electrospray M.S.
Chris E. Hopkins, Mark Leppert, Jim McCloskey, Pamela Crain, and Raymond Gesteland

Analysis of Oligonucleotide Mixtures by Electrospray Ionization-Mass Spectrometry
David C. Muddiman, Xueheng Change Harold R. Udseth, and Richard D. Smith

High Speed Sequencing of Single DNA Molecules in the Gas Phase by FTICR-MS
Richard D. Smith, David C. Muddiman, Xueheng Cheng, S. A. Hofstadler, and J. E. Bruce

Advanced Detectors for Mass Spectrometry
W.H. Benner and J.M. Jaklevic

New Technologies for Genome Sequencing and Analysis*
George M. Church, Richard Baldarelli, James Chou, Poguang Wang, Helena Graner, Linxiao Xu, Pete Estep, Dereth Phillips, Saeed Tavazoie, and Keith Robison

Preparation of Oligonucleotide Arrays for Hybridization Studies and Arrayed Primer Extension (APEX) for Mutation Detection and Sequencing
Michael C. Pirrung, Lara Fallon, J.-C. Bradley, William P. Hawe, Shin Han, and Glenn McGall

Piezoelectric Sensor Arrays for the Detection and Quantification of Genetic Polymorphism
J. C. Andle, D. J. McAllister, J. T. Weaver, C. P. H. Vary, and J. F. Vetelino

Biological Microchips: Development and Applications
A. Mirzabekov, G. Yershov, V. Barsky, E. Timofeev, D. Guschin, V. Shick, S. Dubiley, D. Pobedimskaya, and D. Prudnikov

Robot for Producing Oligonucleotide Microchips
G.M. Yershov, A.I. Belgovsky, L.D. Drobyshev, V.N. Sushkov, N.V. Mologina, D. Guschin, J. Steele, A. Gemmel, A. Zaslavsky, D. Naylor, and A.D. Mirzabekov

Chemical Ways to Improve DNA Sequencing by Hybridization with Oligonucleotide Microchips (SHOM)
Edward N. Timofeev, Andrew G. Kunitsyn, Svetlana V. Kochetkova, Andrew D. Mirzabekov, and Vladimir L. Florentiev

SHOM: Significant Improvement in the Accuracy of DNA Hybridization Tests by the Statistics of Mismatched Duplexes
M.A. Livshits and A.D. Mirzabekov

Efficiency of Sequencing by Hybridization on Oligonucleotide Matrix Supplemented by Measurement of the Distance Between DNA Segments
Yuri P. Lysov, Fedor N. Gnuchev, Andrei A. Mironov, Alexey A. Chernyi, and Andrei D. Mirzabekov

Detection of Beta-Thalassemia Mutations by Hybridization with Oligonucleotide Microchips
V. Shick, S. Dubiley, N. Kalganova, D. Pobedimskaya, D. Prudnikov, A. Perov, D. Guschin, S. Belikov, and A. Mirzabekov