An approach to high-throughput genotyping

Genome Research

Volumn 6, Issue 9, 1996, Pages 781-790

  Hall, Jeff M ^a   LeDuc, Carrie A ^a   Watson, Andy R ^a   Roter, Alan H ^a  

^a CELERA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DNA; DNA MARKER;

COMPUTER ANALYSIS; DATA BASE; DNA DETERMINATION; GENE MAPPING; GENOTYPE; HUMAN; HUMAN GENETICS; INFORMATION PROCESSING; MEDICAL RESEARCH; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; REVIEW;

EID: 0029827854     PISSN: 10549803     EISSN: None     Source Type: Journal    
DOI: 10.1101/gr.6.9.781     Document Type: Review

References (32)

1. Adams, M.D., A.R. Kerlavage, J.M. Kelley, J.D. Gocayne, C. Fields, C.M. Fraser, and J.C. Venter. 1994. A model for high throughput automated DNA sequencing and analysis core facilities. Nature 368: 474-475.
2. Ahn, S.J., J. Costa, and J.R. Emanuel. 1996. PicoGreen quantitation of DNA: Effective evaluation of samples pre- or post-PCR. Nuc. Acids Res. 24: 2623-2625.
3. Botstein, D., R. White, M. Skolnick, and R. Davis. 1980. Construction of a genetic linkage map in man using restriction fragment length polymorphisms. Am. J. Hum. Genet. 32: 314-331.
4. Brownstein, M.J., J.D. Carpten, and J.R. Smith. 1996. Modulation of non-templated nucleotide addition by Taq DNA Polymerase: Primer modifications that facilitate genotyping. BioTechniques 20: 1004-1010.
5. Callen, D.F., A.D. Thompson, Y. Shen, H.A. Phillips, R.I. Richards, J.C. Mulley, and G.R. Sutherland. 1993. Incidence and origin of null alleles in the (AC)n microsatellite markers. Am. J. Hum. Genet. 52: 922-927.
6. Cooperative Human Linkage Center. 1994. A comprehensive human linkage map with centimorgan density. Science 265: 2049-2054.
7. Delahunty, C.M., W. Ankener, S. Brainerd, D. Nickerson, and I. Mononen. 1995. Finnish-type aspartylglucosaminuria detected by oligonucleotide ligation assay. Clin. Chem. 41: 59-61.
8. Dib, C., S. Faure, C. Fizames, D. Samson, N. Dourot, A. Vignal, P. Millasseau, S. Marc, J. Kazan, E. Seboun, M. Lathrop, G. Gyapay, J. Morissette, and J. Weissenbach. 1996. A comprehensive genetic map of the human genome based on 5,264 microsatellites. Nature 380: 152-154.
9. Dietrich, W.F., J. Miller, R. Steen, M.A. Merchant, D. Damron-Boles, Z. Husain, R. Dredge, M.J. Daly, K.A. Ingalls, T.J. O'Connor, et al. 1996. A comprehensive genetic map of the mouse genome. Nature 380: 149-152.
10. Ehm, M.G., M. Kimmel, and R .Cottingham. 1996. Error detection for genetic data, using likelihood methods. Am. J. Hum. Genet. 58: 225-234.
11. Elston, R.C., X. Guo, and L. Williams. 1996. Two-stage global search designs for linkage analysis. Genet. Epidemiol. (in press).
12. Fleischmann, R.D., M.D. Adams, O. White, R.A. Clayton, W.F. Kirkness, A.R. Kerlavage, C.J. Bult, J.F. Tomb, B.A. Dougherty, J.M. Merrick, K. McKenney, G. Sutton, W. FitzHugh, C. Fields, J.D. Gocayne, J. Scott, R. Shirley, L.I. Liu, A. Glodek, J.M. Kelley, J.F. Weidman, C.A. Phillips, T. Spriggs, E. Hedblom, M.D. Cotton, T.R. Utterback, M.C. Hanna, D.T. Nguyen, D.M. Saudek, R.C. Brandon, L.D. Fine, J.L. Fritchman, J.L. Fuhrmann, N.S.M. Geoghagen, C.L. Gnehm, L.A. McDonald, K.V. Small, L.M. Fraser, H.O. Smith, and J.C. Venter. 1995. Whole-genome random sequencing and assembly of Haemophilus influenzae Rd. Science 269: 496-512.
13. Fodor, S.P., R.P. Rava, X.C. Huang, A.C. Pease, C.P. Holmes, C.L. Adams. 1993. Multiplexed biochemical assays with biological chips. Nature 364: 555-556.
14. Ginns, E., J. Ott, J. Egeland, C. Allen, C. Fann, D. Pauls, J. Weissenbach, J. Carulli, K. Falls, T. Keith, and S. Paul. 1996. A genome-wide search for chromosomal loci linked to bipolar affective disorder in the old Order Amish. Nature Genet. 12: 431-435.
15. Ginot, F., I. Bordelais, S. Nguyen, and G. Gyapay. 1996. Correction of some genotyping errors in automated fluorescent microsatellite analysis by enzymatic removal of one base overhangs. Nuc. Acids Res. 24: 540-541.
16. Golden, J.B., III, D. Torgersen, and C. Tibbetts. 1993. Pattern recognition for automated DNA sequencing: I. On-line signal conditioning and feature extraction for basecalling. Intelligent Sys. Molec. Biol. 1: 136-144.
17. Hayatsu, H., S.K. Pan, and T. Ukita. 1971. Reaction of sodium hypochlorite with nucleic acids and their constituents. Chem. Pharm. Bull. 19: 2189-2192.
18. Ju, J., A.N. Glazer, and A Mathies. 1996. Energy transfer primers: A new fluorescence labeling paradigm for DNA sequencing and analysis. Nature Med. 2: 246-249.
19. Kwok, S. and R. Higuchi. 1989. Avoiding false positives with PCR. Nature 339: 237-238.
20. Lander, E.S. and N.J. Schork. 1994. Genetic dissection of complex traits. Science 265: 2037-2048.
21. Lin, Z., C. Xiangfeng, and H. Li. 1996. Multiplex genotype determination at a large number of gene loci. Proc. Natl. Acad. Sci. 93: 2582-2587.
22. Longo, M.C., M.S. Berninger, and J.L. Hartley. 1990. Use of uracil DNA glycosylase to control carry-over contamination in polymerase chain reactions. Gene 93: 125-128.
23. McIndoe, R.A., M.S. Linhardt, and L. Hood. 1995. Single-tube genomic DNA isolation from whole blood without pre-isolating white blood cells. BioTechniques 19: 30-32.
24. Murray, J.C., K.H. Buetow, J.L. Weber, S. Ludwigsen, T. Scherpbier-Heddema, F. Manion, J. Quillen, V.C. Sheffield, S. Sunden, and G.M. Duyk. 1994. A comprehensive human linkage map with centimorgan density. Science 265: 2049-2054.
25. Perlin, M., G. Lancia, and S. Ng. 1995. Toward fully automated genotyping: Genotyping microsatellite markers by deconvolution. Am. J. Hum. Genet. 57: 1199-1210.
26. Reed, P., J. Davies, J. Copman, S. Bennett, S. Palmer, L. Pritchard, S. Gough, Y. Kawaguchi, H. Cordell, K. Balfour, S. Jenkins, E. Powell, A. Vignal, and J. Todd. 1994. Chromosome-specific microsatellite sets for fluorescence-based semi-automated genome mapping. Nature Genet. 7: 390-395.
27. Shuber, F., V. Grondin, and K. Klinger. 1995. A simplified procedure for developing multiplex PCRs. Genome Res. 5: 488-493.
28. Smith, J.C., R. Anwar, J. Riley, D. Jenner, A.F. Markham, and A.J. Jeffreys. 1990. Highly polymorphic minisatellite sequences: Allele frequencies and mutation rates for five locus-specific probes in a Caucasian population. J. Forensic Sci. Soc. 30: 19-24.
29. Tamaki, K., D.G. Monckton, A. MacLeod; D.L. Neil, M. Allen, and A.J. Jeffreys. 1992. Minisatellite variant repeat (MVR) mapping: Analysis of "null" repeat units at D1S8. Hum. Mol. Genet. 1: 401-106.
30. Utah Marker Development Group. 1995. A collection of ordered tetranucleotide-repeat markers from the human genome. Am. J. Hum. Genet. 57: 619-628.
31. Wang, Y., J. Ju, B. Carpenter, J. Atherton, G. Sensabaugh, and R. Mathies. 1995. Rapid sizing of short tandem repeat alleles using capillary array electrophoresis and energy-transfer fluorescent primers. Anal. Chem. 67: 1197-1203.
32. Weeks, D.E. and G.M. Lathrop. 1995. Polygenic disease: Methods for mapping complex disease traits. Trends Genet. 11: 513-519.