Publications 2011

  1. Biomimetic nanopores: learning from and about nature
    Kowalczyk SW, Blosser TR, Dekker C.
    Trends Biotechnol. 2011 Dec;29(12):607-14.
  2. Structure and dynamics of triazole-linked DNA: biocompatibility explained
    Dallmann A, El-Sagheer AH, Dehmel L, Mügge C, Griesinger C, Ernsting NP, Brown T.
    Chemistry. 2011 Dec 23;17(52):14714-7.
  3. Combining M-FISH and Quantum Dot technology for fast chromosomal assignment of transgenic insertions
    Yusuf M, Bauer DL, Lipinski DM, MacLaren RE, Wade-Martins R, Mir KU, Volpi EV.
    BMC Biotechnol. 2011 Dec 13;11:121.
  4. Efficient RNA synthesis by in vitro transcription of a triazole-modified DNA template
    El-Sagheer AH, Brown T.
    Chem Commun (Camb). 2011 Nov 28;47(44):12057-8.
  5. Targeted enrichment of genomic DNA regions for next-generation sequencing
    Mertes F, Elsharawy A, Sauer S, van Helvoort JM, van der Zaag PJ, Franke A, Nilsson M, Lehrach H, Brookes AJ.
    Brief Funct Genomics. 2011 Nov;10(6):374-86.
  6. Formation of droplet networks that function in aqueous environments
    Villar G, Heron AJ, Bayley H.
    Nat Nanotechnol. 2011 Nov 6;6(12):803-8.
  7. Fluorescence microscopy of nanochannel-confined DNA
    Persson F, Westerlund F, Tegenfeldt JO.
    Methods Mol Biol. 2011;783:159-79.
  8. Modeling the conductance and DNA blockade of solid-state nanopores
    Kowalczyk SW, Grosberg AY, Rabin Y, Dekker C.
    Nanotechnology. 2011 Aug 5;22(31):315101.
  9. ProteinSeq: high-performance proteomic analyses by proximity ligation and next generation sequencing
    Darmanis S, Nong RY, Vänelid J, Siegbahn A, Ericsson O, Fredriksson S, Bäcklin C, Gut M, Heath S, Gut IG, Wallentin L, Gustafsson MG, Kamali-Moghaddam M, Landegren U.
    PLoS One. 2011;6(9):e25583.
  10. Dynamic in situ chromosome immobilisation and DNA extraction using localized poly(N-isopropylacrylamide) phase transition
    Johan Eriksen, Anil Haraksingh Thilsted, Rodolphe Marie, Christopher James Lüscher, Lars Bue Nielsen, Winnie Edith Svendsen, Peter Szabo, and Anders Kristensen
    Biomicrofluidics. 2011 Sep;5(3):31101-311014
  11. A device for extraction, manipulation and stretching of DNA from single human chromosomes
    Rasmussen KH, Marie R, Lange JM, Svendsen WE, Kristensen A, Mir KU.
    Lab Chip. 2011 Apr 21;11(8):1431-3.
  12. Biocompatible artificial DNA linker that is read through by DNA polymerases and is functional in Escherichia coli
    El-Sagheer AH, Sanzone AP, Gao R, Tavassoli A, Brown T.
    Proc Natl Acad Sci U S A. 2011 Jul 12;108(28):11338-43.
  13. Single-molecule transport across an individual biomimetic nuclear pore complex
    Kowalczyk SW, Kapinos L, Blosser TR, Magalhães T, van Nies P, Lim RY, Dekker C.
    Nat Nanotechnol. 2011 Jun 19;6(7):433-8.
  14. Fast copper-free click DNA ligation by the ring-strain promoted alkyne-azide cycloaddition reaction
    Shelbourne M, Chen X, Brown T, El-Sagheer AH.
    Chem Commun (Camb). 2011 Jun 14;47(22):6257-9.
  15. Atomic-scale electron-beam sculpting of near-defect-free graphene nanostructures
    Song B, Schneider GF, Xu Q, Pandraud G, Dekker C, Zandbergen H.
    Nano Lett. 2011 Jun 8;11(6):2247-50.
  16. Translocation of single-wall carbon nanotubes through solid-state nanopores
    Hall AR, Keegstra JM, Duch MC, Hersam MC, Dekker C.
    Nano Lett. 2011 Jun 8;11(6):2446-50.
  17. Fluorescence nanoscopy of single DNA molecules by using stimulated emission depletion (STED)
    Persson F, Bingen P, Staudt T, Engelhardt J, Tegenfeldt JO, Hell SW.
    Angew Chem Int Ed Engl. 2011 Jun 6;50(24):5581-3.
  18. Hydroxylation of methylated CpG dinucleotides reverses stabilisation of DNA duplexes by cytosine 5-methylation
    Thalhammer A, Hansen AS, El-Sagheer AH, Brown T, Schofield CJ.
    Chem Commun (Camb). 2011 May 14;47(18):5325-7.
  19. Differential analysis of Crohn's disease and ulcerative colitis by mass spectrometry
    Freiwald A, Mao L, Kodelja V, Kliem M, Schuldt D, Schreiber S, Franke A, Sauer S.
    Inflamm Bowel Dis. 2011 Apr;17(4):1051-2.
  20. Pressure-driven DNA in nanogroove arrays: complex dynamics leads to length- and topology-dependent separation
    Mikkelsen MB, Reisner W, Flyvbjerg H, Kristensen A.
    Nano Lett. 2011 Apr 13;11(4):1598-602.
  21. Ultrasensitive fluorescence-based methods for nucleic acid detection: towards amplification-free genetic analysis
    Ranasinghe RT, Brown T.
    Chem Commun (Camb). 2011 Apr 7;47(13):3717-35.
  22. DAOSTORM: an algorithm for high- density super-resolution microscopy
    Holden SJ, Uphoff S, Kapanidis AN.
    Nat Methods. 2011 Apr;8(4):279-80.
  23. Identifying molecular dynamics in single-molecule FRET experiments with burst variance analysis
    Torella JP, Holden SJ, Santoso Y, Hohlbein J, Kapanidis AN.
    Biophys J. 2011 Mar 16;100(6):1568-77.
  24. Improved temporal resolution and linked hidden Markov modeling for switchable single-molecule FRET
    Uphoff S, Gryte K, Evans G, Kapanidis AN.
    Chemphyschem. 2011 Feb 25;12(3):571-9. doi: 10.1002/cphc.201000834.
  25. Improved synthesis of 5-hydroxymethyl-2'-deoxycytidine phosphoramidite using a 2'-deoxyuridine to 2'-deoxycytidine conversion without temporary protecting groups
    Hansen AS, Thalhammer A, El-Sagheer AH, Brown T, Schofield CJ.
    Bioorg Med Chem Lett. 2011 Feb 15;21(4):1181-4.
  26. Characterization of photophysical and base-mimicking properties of a novel fluorescent adenine analogue in DNA
    Dierckx A, Dinér P, El-Sagheer AH, Kumar JD, Brown T, Grøtli M, Wilhelmsson LM.
    Nucleic Acids Res. 2011 May;39(10):4513-24.
  27. In Vitro Measurements of Single-Molecule Transport Across an Individual Biomimetic Nuclear Pore Complex
    Dekker C, Kowalczyk S, Kapinos L, Roderick Y.M. Lim
    Biophys J. 2011 Feb 2;100(3):521a.
  28. Rapid chemical ligation of oligonucleotides by the Diels-Alder reaction
    El-Sagheer AH, Cheong VV, Brown T.
    Org Biomol Chem. 2011 Jan 7;9(1):232-5.
  29. Targeted resequencing of candidate genes using selector probes
    Johansson H, Isaksson M, Sörqvist EF, Roos F, Stenberg J, Sjöblom T, Botling J, Micke P, Edlund K, Fredriksson S, Kultima HG, Ericsson O, Nilsson M..
    Nucleic Acids Res. 2011 Jan;39(2):e8.