Automation and Robotics for Genetic Analysis

James H. Smith1, Deepika Madan2, Jay Salhaney2, Marcy Engelstein2

1 Genomic Profiling Systems, Cambridge, Massachusetts, 2 Genome Therapeutics Corporation, Waltham, Massachusetts
Publication Name:  Current Protocols in Human Genetics
Unit Number:  Appendix 2E
DOI:  10.1002/0471142905.hga02es21
Online Posting Date:  May, 2001
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Abstract

This guide to laboratory robotics covers a wide variety of methods amenable to automation including mapping, genotyping, barcoding and data handling, template preparation, reaction setup, colony and plaque picking, and more.

     
 
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Table of Contents

  • PCR‐Based Genotyping
  • Mapping by Hybridization and Detection
  • Colony and Plaque Picking
  • DNA Template Preparation
  • Sequencing
  • Process Control
  • Summary
  • Literature Cited
  • Figures
  • Tables
     
 
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Materials

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Figures

Videos

Literature Cited

Literature Cited
   Ahn, S.J., Costa, J., and Emanuel, J.R. 1996. PicoGreen quantitation of DNA:Effective evaluation of samples pre‐ or post‐PCR. Nucl.Acids Res. 13:2623‐2625.
   Auger, S., Thomann, H., Orris, D., Ayers, M., Wierzbowski, J., and Mao, J. 1996. Automated hybridization and imaging for chemiluminescent‐based multiplex sequencing. Proc. SPIE. 2985:145‐152.
   Birnboim, H.C. 1983. A rapid alkaline extraction method for the isolation of plasmid DNA. Methods Enzymol. 100:243‐255.
   Birnboim, H.C. and Doly, J. 1979. A rapid alkaline extraction procedure for screening recombinant plasmid DNA. Nucl. Acids Res. 7:1513‐1523.
   Engelstein, M., Aldredge, T.J., Madan, D., Smith, J.H., Mao, J.I., Smith, D.R., and Rice, P.W. 1998. An efficient, automatable template preparation for high throughput sequencing. Microbiol. Comp.Genomics 3:237‐241.
   Garner, H.R., Armstrong, B., and Kramarsky, D.A. 1992. High‐throughput DNA preparation system. Genet. Anal. Tech. Appl. 9:134‐139.
   Gress, T.M., Hoheisel, J.D., Lennon, G.G., Zehetner, G., and Lehrach, H. 1992. Hybridization fingerprinting of high‐density cDNA‐library arrays with cDNA pools derived from whole tissues. Mammal.Genome. 3:609‐619.
   Hawkins, T.L., McKernan, K.J., Jacotot, L.B., MacKenzie, J.B., Richardson, P.M., and Lander, E.S. 1997. DNA sequencing: a magnetic attraction to high‐throughput genomics. Science 276:1887‐1889.
   Hawkins, T., O'Connor‐Morin, T., Roy, A., and Santillan, C. 1994. DNA purification and isolation using a solid phase. Nucl. Acids Res. 22:4543‐4544.
   Itoh, M., Carninci, P., Nagaoka, S., Sasaki, N., Okazaki, Y., and Ohsumi, T. 1997. Simple and rapid preparation of plasmid template by a filtration method using microtiter filter plates. Nucl. Acids Res. 25:13115‐1316.
   Jones, P., Watson, A., Davies, M., and Stubbings, S. 1992. Integration of image analysis and robotics into a fully automated colony picking and plate handling system. Nucl. Acids Res 20:4599‐4606.
   Maier, E., Meier‐Ewert, S., Ahmadi, A., Curtis, J., and Lehrach, H. 1994. Application of robotic technology to automated fingerprint analysis by oligonucleotide hybridization. J. BioTechnol. 35:191‐203.
   Olsen, A.S., Combs, J., Garcia, E., Elliott, J., Amemiya, C., de Jong, P., and Threadgill, G. 1993. Automated production of high density cosmid and YAC colony filters using a robotic workstation. BioTechniques 14(1):116‐123.
   Sambrook, J., E.F. Fritsch, and T. Maniatis. 1989. Molecular Cloning: A Laboratory Manual, 2nd ed. Cold Spring Harbor Laboratory,Cold Spring Harbor, N.Y.
   Singer, V.L., Jones, L.J., Yue, S.T., and Haugland, R.P. 1997. Characterization of PicoGreen reagent and development of a fluorescence‐based solution assay for double‐stranded DNA quantitation. Anal. Biochem. 249:228‐238.
   Uber, D.C., Jaklavic, J.M., Theil, E.H., Lishanskaya, A., and McNeely, M.R. 1991. Application of robotics and image processing to automated colony picking and arraying. BioTechniques 11:642‐647.
   Weber, J.L. and May, P.E. 1989. Abundant class of human DNA polymorphisms which can be typed using the polymerase chain reaction. Am. J. Hum. Genet. 44:388‐396.
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