메뉴 건너뛰기




Volumn 9, Issue 6, 2014, Pages

Single-step selection of bivalent aptamers validated by comparison with SELEX using high-throughput sequencing

Author keywords

[No Author keywords available]

Indexed keywords

APTAMER; THROMBIN;

EID: 84903532430     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0100572     Document Type: Article
Times cited : (28)

References (32)
  • 1
    • 34548551398 scopus 로고    scopus 로고
    • SELEX-A (r)evolutionary method to generate high-affinity nucleic acid ligands
    • DOI 10.1016/j.bioeng.2007.06.001, PII S1389034407000664
    • Stoltenburg R, Reinemann C, Strehlitz B (2007) SELEX - A (r)evolutionary method to generate high-affinity nucleic acid ligands. Biomol. Eng. 24: 381-403. (Pubitemid 47391579)
    • (2007) Biomolecular Engineering , vol.24 , Issue.4 , pp. 381-403
    • Stoltenburg, R.1    Reinemann, C.2    Strehlitz, B.3
  • 2
    • 35148840942 scopus 로고    scopus 로고
    • Functional aptamers and aptazymes in biotechnology, diagnostics, and therapy
    • DOI 10.1021/cr0306743
    • Famulok M, Hartig JS, Mayer G (2007) Functional aptamers and aptazymes in biotechnology, diagnostics, and therapy. Chem. Revs. 107: 3715-3743. (Pubitemid 47534316)
    • (2007) Chemical Reviews , vol.107 , Issue.9 , pp. 3715-3743
    • Famulok, M.1    Hartig, J.S.2    Mayer, G.3
  • 3
    • 70349786346 scopus 로고    scopus 로고
    • The Chemical Biology of Aptamers
    • G.
    • G. Mayer G (2009) The Chemical Biology of Aptamers. Angew. Chem. Int. Ed. 48: 2672-2689.
    • (2009) Angew. Chem. Int. Ed. , vol.48 , pp. 2672-2689
    • Mayer, G.1
  • 5
    • 78650149915 scopus 로고    scopus 로고
    • Aptamer-based multiplexed proteomic technology for biomarker discovery
    • Gold L, Ayers D, Bertino J, Bock C, Bock A, et al. (2010) Aptamer-based multiplexed proteomic technology for biomarker discovery. PLos ONE 5: art no. e15004.
    • (2010) PLos ONE , vol.5
    • Gold, L.1    Ayers, D.2    Bertino, J.3    Bock, C.4    Bock, A.5
  • 6
    • 84870579370 scopus 로고    scopus 로고
    • Unique motifs and hydrophobic interactions shape the binding of modified DNA ligands to protein targets
    • Davies DR, Gelinas AD, Zhang C, Rohloff JC, Carter JD, et al. (2012) Unique motifs and hydrophobic interactions shape the binding of modified DNA ligands to protein targets. P. Natl. Acad. Sci. USA 109: 19971-19976.
    • (2012) P. Natl. Acad. Sci. USA , vol.109 , pp. 19971-19976
    • Davies, D.R.1    Gelinas, A.D.2    Zhang, C.3    Rohloff, J.C.4    Carter, J.D.5
  • 7
    • 84855179052 scopus 로고    scopus 로고
    • High-content aptamer-based proteomics
    • Wilson R (2011) High-content aptamer-based proteomics. J. Proteomics. 74: 1852-1854.
    • (2011) J. Proteomics , vol.74 , pp. 1852-1854
    • Wilson, R.1
  • 9
    • 34848813621 scopus 로고    scopus 로고
    • One-step selection of Vaccinia virus-binding DNA aptamers by MonoLEX
    • Nitsche A, Kurth A, Dunkhorst A, Pänke O, Sielaff H, et al. (2007) One-step selection of Vaccinia virus-binding DNA aptamers by MonoLEX. BMC Biotechnol. 7: art. no. 48.
    • (2007) BMC Biotechnol. , vol.7 , pp. 48
    • Nitsche, A.1    Kurth, A.2    Dunkhorst, A.3    Pänke, O.4    Sielaff, H.5
  • 10
    • 84859830120 scopus 로고    scopus 로고
    • One round of SELEX for the generation of DNA aptamers directed against KLK6
    • Arnold S, Pampalakis G, Kantiotou K, Silva D, Cortez C, et al. (2012) One round of SELEX for the generation of DNA aptamers directed against KLK6. Biol. Chem. 393: 243-353.
    • (2012) Biol. Chem. , vol.393 , pp. 243-353
    • Arnold, S.1    Pampalakis, G.2    Kantiotou, K.3    Silva, D.4    Cortez, C.5
  • 11
    • 84864478294 scopus 로고    scopus 로고
    • Rapid one-step selection method for generating nucleic acid aptamers: Development of a DNA aptamer against a-bungarotoxin
    • Laurisden LH, Shamaileh HA, Edwards SL, Taran E, Veedu RN (2012) Rapid one-step selection method for generating nucleic acid aptamers: development of a DNA aptamer against a-bungarotoxin. Plos One 7: art. no. e41702.
    • (2012) Plos One , vol.7
    • Laurisden, L.H.1    Shamaileh, H.A.2    Edwards, S.L.3    Taran, E.4    Veedu, R.N.5
  • 12
    • 33645353328 scopus 로고    scopus 로고
    • Structure and interaction modes of thrombin
    • Bode W (2006) Structure and interaction modes of thrombin. Blood Cell. Mol. Dis. 36: 122-130.
    • (2006) Blood Cell. Mol. Dis. , vol.36 , pp. 122-130
    • Bode, W.1
  • 13
    • 0027409404 scopus 로고
    • A player of many parts: The spotlight falls on thrombin's structure
    • DOI 10.1016/0049-3848(93)90002-6
    • Stubbs MT, Bode W (1993) A player of many parts - the spotlight falls on thrombin's structure. Thromb. Res. 69: 1-58. (Pubitemid 23068230)
    • (1993) Thrombosis Research , vol.69 , Issue.1 , pp. 1-58
    • Stubbs, M.T.1    Bode, W.2
  • 14
    • 84873683979 scopus 로고    scopus 로고
    • The selection of DNA aptamers for two different epitopes of thrombin was not due to different partitioning methods
    • Wilson R, Cossins A, Nicolau DV, Missailidis S (2013) The selection of DNA aptamers for two different epitopes of thrombin was not due to different partitioning methods. Nucleic Acid. Ther. 23: 88-92.
    • (2013) Nucleic Acid. Ther. , vol.23 , pp. 88-92
    • Wilson, R.1    Cossins, A.2    Nicolau, D.V.3    Missailidis, S.4
  • 15
    • 0026575221 scopus 로고
    • Selection of single-stranded DNA molecules that bind and inhibit human thrombin
    • Bock LC, Griffin LC, Latham JA, Vermaas EH, Toole JJ (1992) Selection of single-stranded DNA molecules that bind and inhibit human thrombin. Nature 355: 564-566.
    • (1992) Nature , vol.355 , pp. 564-566
    • Bock, L.C.1    Griffin, L.C.2    Latham, J.A.3    Vermaas, E.H.4    Toole, J.J.5
  • 16
    • 0031563773 scopus 로고    scopus 로고
    • Oligonucleotide inhibitors of human thrombin that bind distinct epitopes
    • DOI 10.1006/jmbi.1997.1275
    • Tasset DM, Kubik MF, Steiner W (1997) Oligonucleotide inhibitors of human thrombin that bind distinct epitopes. J. Mol. Biol. 272: 688-698. (Pubitemid 27448187)
    • (1997) Journal of Molecular Biology , vol.272 , Issue.5 , pp. 688-698
    • Tasset, D.M.1    Kubik, M.F.2    Steiner, W.3
  • 17
    • 38849122813 scopus 로고    scopus 로고
    • Multidomain targeting generates a high-affinity thrombin-inhibiting bivalent aptamer
    • Müller J, Wulffen B, Pötzsch B, Mayer G (2007) Multidomain targeting generates a high-affinity thrombin-inhibiting bivalent aptamer. Chembiochem 8: 2223-2226.
    • (2007) Chembiochem , vol.8 , pp. 2223-2226
    • Müller, J.1    Wulffen, B.2    Pötzsch, B.3    Mayer, G.4
  • 18
    • 84871246567 scopus 로고    scopus 로고
    • Selection is more intelligent than design: Improving the affinity of a bivalent ligand through directed evolution
    • Ahmad KM, Xiao Y, Soh HT (2012) Selection is more intelligent than design: improving the affinity of a bivalent ligand through directed evolution. Nucleic Acid. Res. 40: 11777-11783.
    • (2012) Nucleic Acid. Res. , vol.40 , pp. 11777-11783
    • Ahmad, K.M.1    Xiao, Y.2    Soh, H.T.3
  • 19
    • 84555178994 scopus 로고    scopus 로고
    • Preparation of single-stranded DNA from PCR products with streptavidin magnetic beads
    • Wilson R (2011) Preparation of single-stranded DNA from PCR products with streptavidin magnetic beads. Nucleic Acid Ther. 21: 437-440.
    • (2011) Nucleic Acid Ther. , vol.21 , pp. 437-440
    • Wilson, R.1
  • 20
    • 40849142659 scopus 로고    scopus 로고
    • Improvement of aptamer affinity by dimerization
    • Hasegawa H, Taira KI, Sode K, Ikebukero K (2008) Improvement of aptamer affinity by dimerization. Sensors 8: 1090-1098.
    • (2008) Sensors , vol.8 , pp. 1090-1098
    • Hasegawa, H.1    Taira, K.I.2    Sode, K.3    Ikebukero, K.4
  • 21
    • 56749092148 scopus 로고    scopus 로고
    • Anticoagulant characteristics of HD1-22, a bivalent aptamer that specifically inhibits thrombin and prothrombinase
    • Müller J, Freitag D, Mayer G, Pötzsch B (2008) Anticoagulant characteristics of HD1-22, a bivalent aptamer that specifically inhibits thrombin and prothrombinase. J. Thromb. Haemeostasis 6: 2105-2112.
    • (2008) J. Thromb. Haemeostasis , vol.6 , pp. 2105-2112
    • Müller, J.1    Freitag, D.2    Mayer, G.3    Pötzsch, B.4
  • 22
    • 84903528446 scopus 로고    scopus 로고
    • PhD Thesis - Universitat Rovira i Virgili
    • Pinto A (2012) PhD Thesis - Universitat Rovira i Virgili p44.
    • (2012) , pp. 44
    • Pinto, A.1
  • 24
    • 80054078476 scopus 로고    scopus 로고
    • Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega
    • Sievers F, Wilm A, Dineen D, Gibson TJ, Karplus K, et al. (2011) Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega. Mol. Syst. Biol. 7: art. no. 539.
    • (2011) Mol. Syst. Biol. , vol.7 , pp. 539
    • Sievers, F.1    Wilm, A.2    Dineen, D.3    Gibson, T.J.4    Karplus, K.5
  • 25
    • 26644474798 scopus 로고    scopus 로고
    • Deconvolution of a complex target using DNA aptamers
    • DOI 10.1074/jbc.M504772200
    • Fitter S, James R (2005) Deconvolution of a complex target using DNA aptamers. J. Biol. Chem. 280: 34193-34201. (Pubitemid 41443144)
    • (2005) Journal of Biological Chemistry , vol.280 , Issue.40 , pp. 34193-34201
    • Fitter, S.1    James, R.2
  • 26
    • 0042121256 scopus 로고    scopus 로고
    • Mfold web server for nucleic acid folding and hybridization prediction
    • Zuker M (2003) Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acid. Res. 31: 3406-3415.
    • (2003) Nucleic Acid. Res. , vol.31 , pp. 3406-3415
    • Zuker, M.1
  • 27
    • 77957259441 scopus 로고    scopus 로고
    • Quantitative selection of DNA aptamers through microfluidic selection and high-throughput sequencing
    • Cho M, Xiao Y, Nie J, Stewart R, Csordas AT, et al. (2010) Quantitative selection of DNA aptamers through microfluidic selection and high-throughput sequencing. P. Natl. Acad. Sci. USA 107: 15373-15378.
    • (2010) P. Natl. Acad. Sci. USA , vol.107 , pp. 15373-15378
    • Cho, M.1    Xiao, Y.2    Nie, J.3    Stewart, R.4    Csordas, A.T.5
  • 28
    • 84881529870 scopus 로고    scopus 로고
    • Development of an efficient targeted cell-SELEX procedure for DNA aptamer reagents
    • Meyer S, Maufort JP, Nie J, Stewart R, McIntosh BE, et al. (2013) Development of an efficient targeted cell-SELEX procedure for DNA aptamer reagents. PloS ONE 8: e71798.
    • (2013) PloS ONE , vol.8
    • Meyer, S.1    Maufort, J.P.2    Nie, J.3    Stewart, R.4    McIntosh, B.E.5
  • 31
    • 33750993500 scopus 로고    scopus 로고
    • Systematic characterization of 2′-deoxynucleoside- 5′-triphosphate analogs as substrates for DNA polymerases by polymerase chain reaction and kinetic studies on enzymatic production of modified DNA
    • DOI 10.1093/nar/gkl637
    • Kuwahara M, Nagashima J, Hasegawa M, Tamura T, Kitagata R, et al. (2006) Systematic characterization of 29-deoxynucleoside-59-triphosphate analogs as substrates for DNA polymerases by polymerase chain reaction and kinetic studies on enzymatic production of modified DNA. Nucleic Acid. Res. 34: 5383-5394. (Pubitemid 44742428)
    • (2006) Nucleic Acids Research , vol.34 , Issue.19 , pp. 5383-5394
    • Kuwahara, M.1    Nagashima, J.-I.2    Hasegawa, M.3    Tamura, T.4    Kitagata, R.5    Hanawa, K.6    Hososhima, S.-I.7    Kasamatsu, T.8    Ozaki, H.9    Sawai, H.10
  • 32
    • 80255127234 scopus 로고    scopus 로고
    • Cutadapt - A tool that removes adapter sequences from DNA sequencing reads
    • Martin M (2011) Cutadapt - a tool that removes adapter sequences from DNA sequencing reads. EMBnet.journal 17.1: 10-12.
    • (2011) EMBnet.Journal , vol.17 , Issue.1 , pp. 10-12
    • Martin, M.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.