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Volumn 17, Issue 3, 2006, Pages 207-217

Fundamentals of sequencing of difficult templates-An overview

Author keywords

Difficult templates; DNA sequencing; Heat denaturation

Indexed keywords

DNA;

EID: 33947395029     PISSN: 15240215     EISSN: 19434731     Source Type: Journal    
DOI: None     Document Type: Article
Times cited : (69)

References (34)
  • 4
    • 34547393478 scopus 로고    scopus 로고
    • DNA sequencing of a moderately difficult template: Evaluation of the results from a Thermus thermophilus unknown test sample
    • Adams PS, Dolejsi MK, Hardin S, Mische S, Nanthakamur B, Riethman H, et al. DNA sequencing of a moderately difficult template: Evaluation of the results from a Thermus thermophilus unknown test sample. BioTechniques 1996;21:678.
    • (1996) BioTechniques , vol.21 , pp. 678
    • Adams, P.S.1    Dolejsi, M.K.2    Hardin, S.3    Mische, S.4    Nanthakamur, B.5    Riethman, H.6
  • 5
    • 84867605115 scopus 로고    scopus 로고
    • Effects of DMSO, thermocycling and editing on a template with 72% GC rich area: Results from the 2nd Annual ABRF sequencing survey demonstrate that editing is the major factor in improving sequencing accuracy. Ninth International Genome Sequencing and Analysis Conference
    • Adams PS, Dolejsi MK, Grills G, Hardin S, McMinimy DL, Rush J, et al. Effects of DMSO, thermocycling and editing on a template with 72% GC rich area: Results from the 2nd Annual ABRF sequencing survey demonstrate that editing is the major factor in improving sequencing accuracy. Ninth International Genome Sequencing and Analysis Conference. Microb Comp Genomics 1997;2:198.
    • (1997) Microb Comp Genomics , vol.2 , pp. 198
    • Adams, P.S.1    Dolejsi, M.K.2    Grills, G.3    Hardin, S.4    McMinimy, D.L.5    Rush, J.6
  • 7
    • 77955650662 scopus 로고    scopus 로고
    • Sequencing of difficult DNA templates
    • In Kieleczawa J (ed), Jones and Bartlett Publishers, Sudbury MA
    • Kieleczawa J. Sequencing of difficult DNA templates. In Kieleczawa J (ed), DNA Sequencing: Optimizing the Process and Analysis. Jones and Bartlett Publishers, Sudbury MA, 2005, pp. 27-34.
    • (2005) DNA Sequencing: Optimizing the Process and Analysis , pp. 27-34
    • Kieleczawa, J.1
  • 8
    • 0001725994 scopus 로고    scopus 로고
    • Sequencing telomeric DNA templates with short tandem repeats using dye terminator cycle sequencing
    • Zhao X, Haqqi T, Yadav SP. Sequencing telomeric DNA templates with short tandem repeats using dye terminator cycle sequencing. J Biomol Tech 2000;11:111-121.
    • (2000) J Biomol Tech , vol.11 , pp. 111-121
    • Zhao, X.1    Haqqi, T.2    Yadav, S.P.3
  • 9
    • 0033555703 scopus 로고    scopus 로고
    • RNAi and double-strand RNA
    • Sharp PA. RNAi and double-strand RNA. Genes and Dev. 1999:13:139-141.
    • (1999) Genes and Dev , vol.13 , pp. 139-141
    • Sharp, P.A.1
  • 10
    • 0035261255 scopus 로고    scopus 로고
    • Posttranslational gene silencing by double-stranded RNA
    • Hammond SM, Caudy AA, Hannon GJ. Posttranslational gene silencing by double-stranded RNA. Nat Rev Genet 2001:2:110-119.
    • (2001) Nat Rev Genet , vol.2 , pp. 110-119
    • Hammond, S.M.1    Caudy, A.A.2    Hannon, G.J.3
  • 11
    • 0037134020 scopus 로고    scopus 로고
    • A system for stable expression of short interfering RNAs in mammalian cells
    • Brummelkamp TR, Bernards R, Agami R. A system for stable expression of short interfering RNAs in mammalian cells. Science 2002:296:550-553.
    • (2002) Science , vol.296 , pp. 550-553
    • Brummelkamp, T.R.1    Bernards, R.2    Agami, R.3
  • 12
    • 0036351317 scopus 로고    scopus 로고
    • Analysis of gene function in somatic mammalian cells using small interfering RNAs
    • Elbashir SM, Harborth J, Weber K, Tuschl T. Analysis of gene function in somatic mammalian cells using small interfering RNAs. Methods 2002;26:199-213.
    • (2002) Methods , vol.26 , pp. 199-213
    • Elbashir, S.M.1    Harborth, J.2    Weber, K.3    Tuschl, T.4
  • 13
    • 33644866775 scopus 로고    scopus 로고
    • Simple modifications of the standard DNA sequencing protocol allow for sequencing through siRNA hairpins and other repeats
    • Kieleczawa J. Simple modifications of the standard DNA sequencing protocol allow for sequencing through siRNA hairpins and other repeats. J Biomol Tech 2005;16:220-223.
    • (2005) J Biomol Tech , vol.16 , pp. 220-223
    • Kieleczawa, J.1
  • 14
    • 0030606510 scopus 로고    scopus 로고
    • Identification of sequence motifs causing band compressions on human cDNA sequencing
    • Yamakawa H, Nakajima D, Ohara O. Identification of sequence motifs causing band compressions on human cDNA sequencing. DNA Res 1996;3:81-86.
    • (1996) DNA Res , vol.3 , pp. 81-86
    • Yamakawa, H.1    Nakajima, D.2    Ohara, O.3
  • 15
    • 0037502226 scopus 로고    scopus 로고
    • Overcoming obstacles in DNA sequencing of expression plasmids for short interfering RNAs
    • Ducat DC, Herrera FJ, Triezenberg SJ. Overcoming obstacles in DNA sequencing of expression plasmids for short interfering RNAs. BioTechniques 2003;34:1140-1144.
    • (2003) BioTechniques , vol.34 , pp. 1140-1144
    • Ducat, D.C.1    Herrera, F.J.2    Triezenberg, S.J.3
  • 16
    • 0242695049 scopus 로고    scopus 로고
    • Blocking oligonucleotides improve sequencing through inverted repeats
    • Esposito D, Gillette W, Hartley JL. Blocking oligonucleotides improve sequencing through inverted repeats. BioTechniques 2003;35:914-920.
    • (2003) BioTechniques , vol.35 , pp. 914-920
    • Esposito, D.1    Gillette, W.2    Hartley, J.L.3
  • 17
    • 0034081243 scopus 로고    scopus 로고
    • Sequencing difficult templates using membrane-mediated loading with hot sample application
    • Gerstner A, Sasvari-Szekely M, Kalasz H, Guttman A. Sequencing difficult templates using membrane-mediated loading with hot sample application. BioTechniques 2000;28:628-630.
    • (2000) BioTechniques , vol.28 , pp. 628-630
    • Gerstner, A.1    Sasvari-Szekely, M.2    Kalasz, H.3    Guttman, A.4
  • 18
    • 0036338149 scopus 로고    scopus 로고
    • Sequencing of difficult templates containing poly (A/T) tracts: Closure of sequencing gaps
    • Langan JE, Rowbottom L, Liloglou T, Field JK, Risk JM. Sequencing of difficult templates containing poly (A/T) tracts: Closure of sequencing gaps. BioTechniques 2002;33:276-280.
    • (2002) BioTechniques , vol.33 , pp. 276-280
    • Langan, J.E.1    Rowbottom, L.2    Liloglou, T.3    Field, J.K.4    Risk, J.M.5
  • 20
    • 77955595931 scopus 로고    scopus 로고
    • Controlled heat-denaturation of DNA plasmids
    • In Kieleczawa J (ed), Jones and Bartlett Publishers, Sudbury MA
    • Kieleczawa J. Controlled heat-denaturation of DNA plasmids. In Kieleczawa J (ed), DNA Sequencing: Optimizing the Process and Analysis. Jones and Bartlett Publishers, Sudbury MA, 2005, pp. 1-10.
    • (2005) DNA Sequencing: Optimizing the Process and Analysis , pp. 1-10
    • Kieleczawa, J.1
  • 21
    • 0023371227 scopus 로고
    • DNA sequence analysis with a modified bacteriophage T7 DNA polymerase
    • Tabor S, Richardson CC. DNA sequence analysis with a modified bacteriophage T7 DNA polymerase. Proc Natl Acad Sci USA 1987;84:4767-4771.
    • (1987) Proc Natl Acad Sci USA , vol.84 , pp. 4767-4771
    • Tabor, S.1    Richardson, C.C.2
  • 22
    • 0025317061 scopus 로고
    • DNA sequence analysis with a modified bacteriophage T7 DNA polymerase: Effect of pyrophosphorolysis and metal ions
    • Tabor S, Richardson CC. DNA sequence analysis with a modified bacteriophage T7 DNA polymerase: Effect of pyrophosphorolysis and metal ions. J Biol Chem 1990;265:8322-8328.
    • (1990) J Biol Chem , vol.265 , pp. 8322-8328
    • Tabor, S.1    Richardson, C.C.2
  • 23
    • 0029023051 scopus 로고
    • A single residue in DNA polymerases of the Escherichia coli DNA polymerases I family is critical for distinguishing between deoxy and dideoxyribonucleotides
    • Tabor S, Richardson CC. A single residue in DNA polymerases of the Escherichia coli DNA polymerases I family is critical for distinguishing between deoxy and dideoxyribonucleotides. Proc Natl Acad Sci USA 1995;92:6339-6343.
    • (1995) Proc Natl Acad Sci USA , vol.92 , pp. 6339-6343
    • Tabor, S.1    Richardson, C.C.2
  • 24
    • 0022423125 scopus 로고
    • A novel strategy for constructing point mutations
    • Haltiner M, Kempe T, Tjian R. A novel strategy for constructing point mutations. Nucleic Acid Res 1985;13:1015-1025.
    • (1985) Nucleic Acid Res , vol.13 , pp. 1015-1025
    • Haltiner, M.1    Kempe, T.2    Tjian, R.3
  • 25
    • 0022633609 scopus 로고
    • Dideoxy sequencing method using denatured plasmid templates
    • Hattori M, Sasaki Y. Dideoxy sequencing method using denatured plasmid templates. Anal Biochem 1986;152:232-238.
    • (1986) Anal Biochem , vol.152 , pp. 232-238
    • Hattori, M.1    Sasaki, Y.2
  • 26
    • 0024002776 scopus 로고
    • Use of chemically modified T7 DNA polymerase for manual and automated sequencing of supercoiled DNA
    • Toneguzzo F, Glynn S, Levi E, Mjolsness S, Hayday A. Use of chemically modified T7 DNA polymerase for manual and automated sequencing of supercoiled DNA. BioTechniques 1988;6:460-469.
    • (1988) BioTechniques , vol.6 , pp. 460-469
    • Toneguzzo, F.1    Glynn, S.2    Levi, E.3    Mjolsness, S.4    Hayday, A.5
  • 27
    • 0027319489 scopus 로고
    • A simplified and reliable protocol for plasmid DNA sequencing: Fast miniprep and denaturation
    • Yie Y, Wei Z, Tien P. A simplified and reliable protocol for plasmid DNA sequencing: Fast miniprep and denaturation. Nucleic Acid Res 1993;21:361.
    • (1993) Nucleic Acid Res , vol.21 , pp. 361
    • Yie, Y.1    Wei, Z.2    Tien, P.3
  • 28
    • 84867601784 scopus 로고    scopus 로고
    • Evaluation of methods for cleanup of DNA sequencing reactions
    • In Kieleczawa J (ed), Jones and Bartlett Publishers, Sudbury MA
    • Kieleczawa J, Bajson K. Evaluation of methods for cleanup of DNA sequencing reactions. In Kieleczawa J (ed), DNA Sequencing II: Optimizing the Preparation and Clean Up, Jones and Bartlett Publishers, Sudbury MA, 2006, pp. 219-240.
    • (2006) DNA Sequencing II: Optimizing the Preparation and Clean Up , pp. 219-240
    • Kieleczawa, J.1    Bajson, K.2
  • 29
    • 84867621837 scopus 로고    scopus 로고
    • Prolonged storage of plasmid DNAs under different conditions: Effects on plasmid integrity, spectral characteristics, and DNA sequence quality
    • In Kieleczawa J (ed), Jones and Bartlett Publishers, Sudbury MA
    • Kieleczawa J, Wu P. Prolonged storage of plasmid DNAs under different conditions: Effects on plasmid integrity, spectral characteristics, and DNA sequence quality. In Kieleczawa J (ed), DNA Sequencing II: Optimizing the Preparation and Clean Up. Jones and Bartlett Publishers, Sudbury MA, 2006, pp. 259-274.
    • (2006) DNA Sequencing II: Optimizing the Preparation and Clean Up , pp. 259-274
    • Kieleczawa, J.1    Wu, P.2
  • 30
    • 84857554018 scopus 로고    scopus 로고
    • Plasmid preparation methods for DNA sequencing
    • In Kieleczawa J (ed), Jones and Bartlett Publishers, Sudbury MA
    • Flick PK. Plasmid preparation methods for DNA sequencing. In Kieleczawa J (ed), DNA Sequencing: Optimizing the Process and Analysis. Jones and Bartlett Publishers, Sudbury MA, 2005, pp. 99-115
    • (2005) DNA Sequencing: Optimizing the Process and Analysis , pp. 99-115
    • Flick, P.K.1
  • 31
    • 77955647220 scopus 로고    scopus 로고
    • Preparation of difficult DNA templates using seven different commercial methods
    • In Kieleczawa J (ed), Jones and Bartlett Publishers, Sudbury MA
    • Kieleczawa J, Li T, Wu P. Preparation of difficult DNA templates using seven different commercial methods. In Kieleczawa J (ed), DNA Sequencing II: Optimizing the Preparation and Clean Up. Jones and Bartlett Publishers, Sudbury MA, 2006, pp. 1-14.
    • (2006) DNA Sequencing II: Optimizing the Preparation and Clean Up , pp. 1-14
    • Kieleczawa, J.1    Li, T.2    Wu, P.3
  • 32
    • 0034830935 scopus 로고    scopus 로고
    • Rapid amplification of plasmid and phage DNA using phi29 DNA polymerase and multiply-primed rolling circle amplification
    • Dean RB, Nelson JR, Giesler TL, Lasken RS. Rapid amplification of plasmid and phage DNA using phi29 DNA polymerase and multiply-primed rolling circle amplification. Genome Res 2001;11:1095-1099.
    • (2001) Genome Res , vol.11 , pp. 1095-1099
    • Dean, R.B.1    Nelson, J.R.2    Giesler, T.L.3    Lasken, R.S.4
  • 34
    • 84867599907 scopus 로고    scopus 로고
    • New tool for resolving difficult templates, Piscataway, N.J
    • New tool for resolving difficult templates. 2004. GE Healthcare. Piscataway, N.J.
    • (2004) GE Healthcare


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