.

Publications 2012

  1. Capturing reaction paths and intermediates in Cre-loxP recombination using single-molecule fluorescence
    Pinkney JN, Zawadzki P, Mazuryk J, Arciszewska LK, Sherratt DJ, Kapanidis AN.
    Proc Natl Acad Sci U S A. 2012 Dec 18;109(51):20871-6.
  2. DNA catenation maintains structure of human metaphase chromosomes
    Bauer DL, Marie R, Rasmussen KH, Kristensen A, Mir KU.
    Nucleic Acids Res. 2012 Dec;40(22):11428-34.
  3. The GEM mapper: fast, accurate and versatile alignment by filtration
    Marco-Sola S, Sammeth M, Guigó R, Ribeca P.
    Nat Methods. 2012 Dec;9(12):1185-8.
  4. Fast and efficient DNA crosslinking and multiple orthogonal labelling by copper-free click chemistry
    Shelbourne M, Brown T Jr, El-Sagheer AH, Brown T.
    Chem Commun (Camb). 2012 Nov 25;48(91):11184-6.
  5. DNA sequencing - spanning the generations
    McGinn S, Gut IG.
    N Biotechnol. 2012 Nov 16. doi:pii: S1871-6784(12)00869-2. 10.1016/j.nbt.2012.11.012.
  6. Lipid-coated hydrogel shapes as components of electrical circuits and mechanical devices
    Sapra KT, Bayley H.
    Sci Rep. 2012;2:848. doi: 10.1038/srep00848. Epub 2012 Nov 14.
  7. Orientational correlations in confined DNA
    Werner E, Persson F, Westerlund F, Tegenfeldt JO, Mehlig B.
    Phys Rev E Stat Nonlin Soft Matter Phys. 2012 Oct;86(4 Pt 1):041802.
  8. Molecular tools for companion diagnostics
    Zieba A, Grannas K, Söderberg O, Gullberg M, Nilsson M, Landegren U.
    N Biotechnol. 2012 Sep 15;29(6):634-40.
  9. Accurate variant detection across non-amplified and whole genome amplified DNA using targeted next generation sequencing
    Elsharawy A, Warner J, Olson J, Forster M, Schilhabel MB, Link D, Rose-John S, Schreiber S, Rosenstiel P, Brayer J, Franke A.
    BMC Genomics. 2012 Sep 20;13(1):500.
  10. A mechanistic basis for amplification differences between samples and between genome regions
    Veal CD, Freeman PJ, Jacobs K, Lancaster O, Jamain S, Leboyer M, Albanes D, Vaghela RR, Gut I, Chanock SJ, Brookes AJ.
    BMC Genomics. 2012 Sep 5;13:455.
  11. Improving mapping and SNP-calling performance in multiplexed targeted next-generation sequencing
    Elsharawy A, Forster M, Schracke N, Keller A, Thomsen I, Petersen BS, Stade B, Stähler P, Schreiber S, Rosenstiel P, Franke A.
    BMC Genomics. 2012 Aug 22;13(1):417.
  12. Measurement of the docking time of a DNA molecule onto a solid-state nanopore
    Kowalczyk SW, Dekker C.
    Nano Lett. 2012 Aug 8;12(8):4159-63.
  13. Nanofluidic devices towards single DNA molecule sequence mapping
    Marie R, Kristensen A.
    J Biophotonics. 2012 Jul 20.
  14. T7 RNA polymerase functions in vitro without clustering
    Finan K, Torella JP, Kapanidis AN, Cook PR.
    PLoS One. 2012;7(7):e40207.
  15. Creation and application of immortalized bait libraries for targeted enrichment and next-generation sequencing
    Querfurth R, Fischer A, Schweiger MR, Lehrach H, Mertes F.
    Biotechniques. 2012 Jun;52(6):375-80.
  16. Characterization of dark quencher chromophores as nonfluorescent acceptors for single-molecule FRET
    Le Reste L, Hohlbein J, Gryte K, Kapanidis AN.
    Biophys J. 2012 Jun 6;102(11):2658-68.
  17. Ribo-polymerase chain reaction-A facile method for the preparation of chimeric RNA/DNA applied to DNA sequencing
    Mauger F, Bauer K, Semhoun J, Myers TW, Gelfand DH, Gut IG.
    Hum Mutat. 2012 Jun;33(6):1010-5.
  18. Lipid-based passivation in nanofluidics
    Persson F, Fritzsche J, Mir KU, Modesti M, Westerlund F, Tegenfeldt JO.
    Nano Lett. 2012 May 9;12(5):2260-5.
  19. Amorfrutins are potent antidiabetic dietary natural products
    Weidner C, de Groot JC, Prasad A, Freiwald A, Quedenau C, Kliem M, Witzke A, Kodelja V, Han CT, Giegold S, Baumann M, Klebl B, Siems K, Müller-Kuhrt L, Schürmann A, Schüler R, Pfeiffer AF, Schroeder FC, Büssow K, Sauer S.
    Proc Natl Acad Sci U S A. 2012 May 8;109(19):7257-62.
  20. DNA sequencing with nanopores
    Schneider GF, Dekker C.
    Nat Biotechnol. 2012 Apr 10;30(4):326-8.
  21. A protein biosensor that relies on bending of single DNA molecules
    El-Sagheer AH, Brown T.
    Chemphyschem. 2012 Mar;13(4):918-22
  22. Click Nucleic Acid Ligation: Applications in Biology and Nanotechnology
    Crawford R, Kelly DJ, Kapanidis AN.
    Chemphyschem. 2012 Mar;13(4):918-22.
  23. The essence on mass spectrometry based microbial diagnostics
    Kliem M, Sauer S.
    Curr Opin Microbiol. 2012 Jun;15(3):397-402
  24. An N-ethyl-N-nitrosourea (ENU)-induced dominant negative mutation in the JAK3 kinase protects against cerebral malaria
    Bongfen SE, Rodrigue-Gervais IG, Berghout J, Torre S, Cingolani P, Wiltshire SA, Leiva-Torres GA, Letourneau L, Sladek R, Blanchette M, Lathrop M, Behr MA, Gruenheid S, Vidal SM, Saleh M, Gros P.
    PLoS One. 2012;7(2):e31012
  25. DNA-assisted protein detection technologies
    Nong RY, Gu J, Darmanis S, Kamali-Moghaddam M, Landegren U.
    Expert Rev Proteomics. 2012;9(1):21-32.
  26. Rapid identification of bio-molecules applied for detection of biosecurity agents using rolling circle amplification
    Göransson J, Ke R, Nong RY, Howell WM, Karman A, Grawé J, Stenberg J, Granberg M, Elgh M, Herthnek D, Wikström P, Jarvius J, Nilsson M.
    PLoS One. 2012;7(2):e31068. Epub 2012 Feb 22.
  27. MeQA: a pipeline for MeDIP-seq data quality assessment and analysis
    Huang J, Renault V, Sengenès J, Touleimat N, Michel S, Lathrop M, Tost J.
    Bioinformatics. 2012 Feb 15;28(4):587-8.
  28. Protein detection by nanopores equipped with aptamers
    Rotem D, Jayasinghe L, Salichou M, Bayley H.
    J Am Chem Soc. 2012 Feb 8;134(5):2781-7.
  29. Slowing down DNA translocation through a nanopore in lithium chloride
    Kowalczyk SW, Wells DB, Aksimentiev A, Dekker C.
    Nano Lett. 2012 Feb 8;12(2):1038-44
  30. A single-step competitive binding assay for mapping of single DNA molecules
    Nyberg LK, Persson F, Berg J, Bergström J, Fransson E, Olsson L, Persson M, Stålnacke A, Wigenius J, Tegenfeldt JO, Westerlund F.
    Biochem Biophys Res Commun. 2012 Jan 6;417(1):404-8.