Expression Genetics: Accelerated and High-throughput Methods

Front Cover
Michael McClelland, Arthur Beck Pardee
BioTechniques Books, 1999 - Science - 379 pages
Inexpensive handheld device for the construction of high-density nucleic acid arrays. (M. Schummer, W.-I. Ng, P. S. Nelson, R. E. Bumgarner, and L. Hood). Update by M. Schummer. Adapting the Biomek 2000 laboratory automation workstation for printing DNA microarrays. (J. Macas, M. Nouzová, and D. W. Galbraith) Update by J. Macas, M. Nouzová, and D. W. Galbraith. Parallel production of oligonucleotide arrays using membranes and reagent jet printing. (D. I. Stimpson, P. W. Cooley, S. M. Knepper, and D. B. Wallace) Update by D. I. Stimpson. Agarose-embedded tissue arrays for histologic and genetic analysis. (G. S. Tsao-Wu, C. H. Weber, L. R. Budgeon, and K. C. Cheng) Update by K. C. Cheng, L. G. Beckwith and X. Wang. Using oligonucleotide probe arrays to access genetic diversity. (R. J. Lipshutz, D. Morris, M. Chee, E. Hubbell, M. J. Kozal, N. Shah, N. Shen, R. Yang, and S. P. A. Fodor) Update by M. Hurt. Direct hybridization of large-insert genomic clones on high-density gridded cDNA filter arrays. (S. Kern and G. M. Hampton) Update by L. C. Amler, S. Kern, and G. M. Hampton. TurboPrep II: and inexpensive, high-throughput plasmid template preparation protocol. (D. S. Konecki and J. J. Phillips) Update by D. S. Konecki and J. J. Phillips. Amplification of mRNAs from single, fixed, TUNEL-Positive Cells. (D. M. O'Dell, R. Raghupathi, P. B. Crino, B. Morrison 3, J. H. Eberwine, and T. K. MsIntosh) Update by D. M. O'Dell, R. Raghupathi, P. B. Crino, B. Morrison 3, J. H. Eberwine, and T. K. MsIntosh. Laser capture microdissection of single cells from complex tissues. (C. A. Suarez-Quian, S. R. Goldstein, T. Phida, P. D. Smith, J. I. Peterson, E. Wellner, M. Ghany, and R. F. Bonner) B Fingerprinting Methods. Non-Radioisotopic AFLP Protocol Applied to Honey Bee (Apis mellifera L.) DNA. (A. Suazo and H. G. Hall). Chemiluminescent Detection of APLP Markers. (J.-J. Lin, J. Ma, and J. Kuo). DAF Optimization using tagushi methods and the effect of thermal cycling parameters on DNA amplification. (G. Caetano-Anollés). C. subtraction. High-Stringency substraction for the identification of differentially regulated cDNA clones. (C. P. Scutt and P. M. Gilmartin). Differential screening of a subtracted cDNA library: a method to search for genes preferentially expressed in multiple tissues. (H. Jin, X. Cheng, L. Diatchenko, P. D. Siebert, and C.-C. Huang). Update by L. Diatchenko, S. Trelogan, and P. D. Siebert. Isolation of differentially expressed genes by combining representational difference analysis (RDA) and cDNA library arrays. (M. Geng, C. Wallrapp, F. Muller-Pillasch, M. Frohme, J. D. Hoheisel, and T. M. Gress). Update by M. M. Geng, C. Wallrapp, F. Muller-Pillasch, M. Frohme, J. D. Hoheisel, and T. M. Gress. D. cDNA array applications. High-Throughput cDNA screening utilizing a low order neural network filter. (G. M. Huang, J. Farkas, and L. Hood). Update by G. M. Huang. Nonradioactive detection of differentially expressed genes using complex RNA or DNA hybridization probes. (R. Ross, X.-L. Ross, B. Rueger, T. Laengin, and A. B. Reske-Kunz). Update by R. Ross, X.-L. Ross, B. Rueger, T. Laengin, and A. B. Reske-Kunz. Representative cDNA libraries and their utility in gene expression profiling. ( W. O. Endege, K. E. Steinmann, L. A. Boardman, S. N. Thibodeau, and R. Schlegel). E. Quantitative RT-PCR. High-Throughput RT-PCR analysis of multiple transcripts using a microplate RNA isolation procedure. One-step fluorescent probe product-enhanced reverse transcriptase assay. (B. A. Arnold, R. W. Hepler, and P. M. Keller). Update by B. A. Arnold, R. W. Hepler, and P. M. Keller. Flow Cytometric quantification of surface-displayed recombinant receptors on staphylococci. (C. Andréoni, L. Goetsch, C. libon, P. Samuelson, T. N. Nguyen, A. Robert, M. Uhlén, H. Binz, and S. Stahl). Update by C. Andréoni, L. Goetsch, C. libon, P. Samuelson, T. N. Nguyen, A. Robert, M. Uhlén, H. Binz, and S. Stahl. Gene VIII-Based, Phage-Display vectors for selection against complex mixtures of ligands. (K. Jacobsson and L. Frykberg) Update by K. Jacobsson and L. Frykberg. Biopanning phage display libraries using magnetic beads Vs. Polystyrene Plates. (S. J. McConnell, T. Dinh, M.-H. Le, and D. G. Spinella). Fusion proteins could generale false positives in peptide phage display. (K. K. Murthy, I. Ekiel, S.-H. Shen, and D. Banville). Update by K. K. Murthy, I. Ekiel, S.-H. Shen, and D. Banville. Phosphorylation-Directed antibodies in high-flux screens for compounds that modulate signal transduction. (J. A. Alberta and C. D. Stiles). Update by J. A. Alberta and C. D. Stiles. B. Two-Hybrid selection. Mammalian Two-Hybrid system: A complementary approach to the yeast two-hybrid system. ( Y. Luo, A. Batalao, H. Zhou, and L. Zhu). Development of a yeast trihybrid screen using stable yeast strains and regulated protein expression. (K. J. Fuller, M. A. Morse, J. H. M. White, S. J. Dowell, and M. J. Sims). Update by K. J. Fuller, M. A. Morse, J. H. M. White, S. J. Dowell, and M. J. Sims. Use of a dicistronic expression cassette enconding the green fluorescent protein for the screening and selection of cells expressing inducible gene products. (D. D. Mosser, A. W. Caron, L. Bourget, P. Jocolieur, and B. Massie). Update by D. D. Mosser, A. W. Caron, L. Bourget, P. Jocolieur, and B. Massie. Dual-function reporte protein for analysis of gene expression in living cells. (R.N. Day, M. Kawecki and D. Berry). Fusion of green fluorescent protein with the Zeocin Resistance marker allows visual screening and drug selection of transfected euraryotic cells. (R.P. Bennett, C.A. Cox, J.P. Hoeffler). Update by R.P. Bennett, C.A. Cox, J.P. Hoeffler. Green fluorescent protein tag for studies of drug induced translocation of nuclear protein RH-II/Gu. (B.C. Valdez, L. Perlaky, Z.-J. Cai, D. Henning, and H. Busch). Fission yeast expression vectors adapted for positive identification of gene insertion and green fluorescent protein fusion. (Y. Zhao, R.T. Elder, M. Chen, and J. Cao). Update by Y. Zhao, R.T. Elder, M. Chen, and J. Cao. Tracking and quantitation of retroviral-mediated transfer using a completely humanized, red-shifted green fluorescent protein gene. (R.R. Muldoon, J. P. Levy, S.R. Kain, P.A. Kitts, and C.J. Link Jr). A combined selection and reporter gene for retroviral and transgenic studies. (J. Blake, P. C. Salinas, and S. M. hughes). Retroviral gene transfer in chondrogenic limb bud micromass cultures. (N. S. Stott, Y.-S. Lee, and C.-M. Chuong). Update by W.-P. Wang, N. Kasahara, and C.-M. Chuong. High-efficiency gene transfer and pharmacologic selection of genetically engineered human keratinocytes. (H. Deng, K.A. Choate, Q. Lin, and P.A. Khavary).

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Contents

Adapting the Biomek 2000 Laboratory Automation Workstation
13
HighThroughput cDNA Screening Utilizing a Low Order Neural
17
Parallel Production of Oligonucleotide Arrays Using Membranes
21
Copyright

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About the author (1999)

Michael McClelland teaches English at Wittenberg University in Springfield, Ohio. In his ten-year career as a journalist, he covered Florida politics and the environment in Tallahassee. "Oyster Blues", his first novel, was a bestselling Amazon.com ebook, and a Featured Selection of both the Literary Guild and the Mystery Guild. His next comic crime novel, "Tattoo Blues", is forthcoming in hardcover from iBooks.

Dr. Gary S. Stein is Haidak Distinguished Professor and Chairman, Department of Cell Biology, and Professor of Medicine, University of Massachusetts Medical School, and Professor of Medicine. He is also Deputy Director for Research at the University of Massachusetts Cancer Center. The central theme of Dr. Stein's research has been to discover mechanisms controlling proliferation and differentiation with emphasis on compromised regulation that is linked with disease. Dr. Stein has also had major and lasting impact in skeletal biology, where he established the foundation for addressing bone tissue specific gene expression, and provided valuable insight into aberrations that accompany the onset and progression of skeletal disease.

Dr. Arthur B. Pardee is Professor Emeritus, Harvard University. For over 20 years he was Professor of Biological Chemistry and Molecular Pharmacology, Harvard University, and Chief, Division of Cell Growth and Regulation, Dana-Farber Cancer Institute. He is an elected fellow of the American Association for the Advancement of Science, and has served as president of the American Society of Biological Chemists and American Association for Cancer Research. Dr. Pardee's pioneering work in mammalian cells is the foundation for our current understanding of mechanisms that govern competency for proliferation and cell cycle progression.

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