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Yan H., Park S.H., Finkelstein G., Reif J.H., LaBean T.H. DNA-templated self-assembly of protein arrays and highly conductive nanowires. Science. 301:2003;1882-1884
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Yan H., LaBean T.H., Feng L., Reif J.H. Directed nucleation assembly of DNA tile complexes for barcode-patterned lattices. Proc Natl Acad Sci USA. 100:2003;8103-8108
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TectoRNA and 'kissing-loop' RNA: Atomic force microscopy of self-assembling RNA structures
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This paper includes a tutorial that presents approaches to measuring molecular volumes from AFM images.
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Hansma H.G., Oroudjev E., Baudrey S., Jaeger L. TectoRNA and 'kissing-loop' RNA: atomic force microscopy of self-assembling RNA structures. J Microsc. 212:2003;273-279 This paper includes a tutorial that presents approaches to measuring molecular volumes from AFM images.
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Hansma, H.G.1
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Sequence-specific molecular lithography on single DNA molecules
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3 solution, silver aggregates form on the aldehydes of the unprotected dsDNA. The silver aggregates serve as catalysts for gold deposition, creating linear devices consisting of discontinuous gold nanowires.
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3 solution, silver aggregates form on the aldehydes of the unprotected dsDNA. The silver aggregates serve as catalysts for gold deposition, creating linear devices consisting of discontinuous gold nanowires.
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Science
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Keren, K.1
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Gomez-Navarro C., Moreno-Herrero F., de Pablo P.J., Colchero J., Gomez-Herrero J., Baro A.M. Contactless experiments on individual DNA molecules show no evidence for molecular wire behavior. Proc Natl Acad Sci USA. 99:2002;8484-8487
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The in vitro reconstitution of nucleosome and its binding patterns with HMG1/2 and HMG14/17 proteins
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Zhang S.B., Huang J., Zhao H., Zhang Y., Hou C.H., Cheng X.D., Jiang C., Li M.Q., Hu J., Qian R.L. The in vitro reconstitution of nucleosome and its binding patterns with HMG1/2 and HMG14/17 proteins. Cell Res. 13:2003;351-359
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Zhang, S.B.1
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Mapping nucleosome locations on the 208-12 by AFM provides clear evidence for cooperativity in array occupation
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Yodh J.G., Woodbury N., Shlyakhtenko L.S., Lyubchenko Y.L., Lohr D. Mapping nucleosome locations on the 208-12 by AFM provides clear evidence for cooperativity in array occupation. Biochemistry. 41:2002;3565-3574
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Yodh, J.G.1
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Nucleosomal arrays can be salt-reconstituted on a single-copy MMTV promoter DNA template: Their properties differ in several ways from those of comparable 5S concatameric arrays
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Bash R., Wang H., Yodh J., Hager G., Lindsay S.M., Lohr D. Nucleosomal arrays can be salt-reconstituted on a single-copy MMTV promoter DNA template: their properties differ in several ways from those of comparable 5S concatameric arrays. Biochemistry. 42:2003;4681-4690
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Bash, R.1
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Hizume K., Yoshimura S.H., Maruyama H., Kim J., Wada H., Takeyasu K. Chromatin reconstitution: development of a salt-dialysis method monitored by nano-technology. Arch Histol Cytol. 65:2002;405-413
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Arch Histol Cytol
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Hizume, K.1
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Artificial human telomeres from DNA nanocircle templates
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Lindstrom U.M., Chandrasekaran R.A., Orbai L., Helquist S.A., Miller G.P., Oroudjev E., Hansma H.G., Kool E.T. Artificial human telomeres from DNA nanocircle templates. Proc Natl Acad Sci USA. 99:2002;15953-15958
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Lindstrom, U.M.1
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Route of steroid-activated macromolecules through nuclear pores imaged with atomic force microscopy
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Oberleithner H., Schafer C., Shahin V., Albermann L. Route of steroid-activated macromolecules through nuclear pores imaged with atomic force microscopy. Biochem Soc Trans. 31:2003;71-75
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Oberleithner, H.1
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Recognition of the DNA sequence by an inorganic crystal surface
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Sampaolese B., Bergia A., Scipioni A., Zuccheri G., Savino M., Samori B., De Santis P. Recognition of the DNA sequence by an inorganic crystal surface. Proc Natl Acad Sci USA. 99:2002;13566-13570
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Sampaolese, B.1
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Electrostatic zipper motif for DNA aggregation
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•], Leikin was so excited by the results that he actually prepared samples and analyzed them by circular dichroism, revealing that GC-DNA had converted to Z-DNA in Ni(II), while AT-DNA was still B-DNA.
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•], Leikin was so excited by the results that he actually prepared samples and analyzed them by circular dichroism, revealing that GC-DNA had converted to Z-DNA in Ni(II), while AT-DNA was still B-DNA.
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Kornyshev, A.A.1
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Sequence-dependent DNA condensation and the electrostatic zipper
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When the Hansma laboratory wanted to look at the unzipping of DNA hairpins, as pioneered by the Gaub laboratory, they used a solution containing Ni(II) to bind the DNA to mica; that was the origin of this research.
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Sitko J.C., Mateescu E.M., Hansma H.G. Sequence-dependent DNA condensation and the electrostatic zipper. Biophys J. 84:2003;419-431 When the Hansma laboratory wanted to look at the unzipping of DNA hairpins, as pioneered by the Gaub laboratory, they used a solution containing Ni(II) to bind the DNA to mica; that was the origin of this research.
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Biophys J
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Sitko, J.C.1
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Structural heterogeneity of pyrimidine/purine-biased DNA sequence analyzed by atomic force microscopy
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Kato M., McAllister C.J., Hokabe S., Shimizu N., Lyubchenko Y.L. Structural heterogeneity of pyrimidine/purine-biased DNA sequence analyzed by atomic force microscopy. Eur J Biochem. 269:2002;3632-3636
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Eur J Biochem
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Kato, M.1
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20
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Unpaired structures in SCA10 (ATTCT)n.(AGAAT)n repeats
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Potaman V.N., Bissler J.J., Hashem V.I., Oussatcheva E.A., Lu L., Shlyakhtenko L.S., Lyubchenko Y.L., Matsuura T., Ashizawa T., Leffak M., et al. Unpaired structures in SCA10 (ATTCT)n.(AGAAT)n repeats. J Mol Biol. 326:2003;1095-1111
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Potaman, V.N.1
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21
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0037167583
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Atomic force microscopy study of the effects of Mg(2+) and other divalent cations on the end-to-end DNA interactions
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This paper has considerable data and lovely images of DNA molecules that have joined end-to-end or circularized.
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Dahlgren P.R., Lyubchenko Y.L. Atomic force microscopy study of the effects of Mg(2+) and other divalent cations on the end-to-end DNA interactions. Biochemistry. 41:2002;11372-11378 This paper has considerable data and lovely images of DNA molecules that have joined end-to-end or circularized.
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Biochemistry
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Dahlgren, P.R.1
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Shlyakhtenko L.S., Miloseska L., Potaman V.N., Sinden R.R., Lyubchenko Y.L. Intersegmental interactions in supercoiled DNA: atomic force microscope study. Ultramicroscopy. 97:2003;263-270
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Shlyakhtenko, L.S.1
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Intramolecular DNA coiling mediated by metallo-supramolecular cylinders: Differential binding of P and M helical enantiomers
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Meistermann I., Moreno V., Prieto M.J., Moldrheim E., Sletten E., Khalid S., Rodger P.M., Peberdy J.C., Isaac C.J., Rodger A., et al. Intramolecular DNA coiling mediated by metallo-supramolecular cylinders: differential binding of P and M helical enantiomers. Proc Natl Acad Sci USA. 99:2002;5069-5074
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Meistermann, I.1
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24
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0037424628
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Visualizing RNA extrusion and DNA wrapping in transcription elongation complexes of bacterial and eukaryotic RNA polymerases
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Rivetti C., Codeluppi S., Dieci G., Bustamante C. Visualizing RNA extrusion and DNA wrapping in transcription elongation complexes of bacterial and eukaryotic RNA polymerases. J Mol Biol. 326:2003;1413-1426
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Rivetti, C.1
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The molecular machines of DNA repair: Scanning force microscopy analysis of their architecture
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Janicijevic A., Ristic D., Wyman C. The molecular machines of DNA repair: scanning force microscopy analysis of their architecture. J Microsc. 212:2003;264-272
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J Microsc
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Janicijevic, A.1
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0348141036
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Insights into the regulation of transcription by scanning force microscopy
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Dame R.T., Wyman C., Goosen N. Insights into the regulation of transcription by scanning force microscopy. J Microsc. 212:2003;244-253
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J Microsc
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Dame, R.T.1
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DNA bending and unbending by MutS govern mismatch recognition and specificity
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Wang H., Yang Y., Schofield M.J., Du C., Fridman Y., Lee S.D., Larson E.D., Drummond J.T., Alani E., Hsieh P., et al. DNA bending and unbending by MutS govern mismatch recognition and specificity. Proc Natl Acad Sci USA. 100:2003;14822-14827
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Proc Natl Acad Sci USA
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Wang, H.1
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Force spectroscopy of single DNA and RNA molecules
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Williams M.C., Rouzina I. Force spectroscopy of single DNA and RNA molecules. Curr Opin Struct Biol. 12:2002;330-336
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Curr Opin Struct Biol
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Williams, M.C.1
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0037102249
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Analysis of RNA flexibility by scanning force spectroscopy
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The 'pulls' in this paper appear to be upside down, relative to the common way of presenting forces and distances in force spectroscopy.
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Bonin M., Zhu R., Klaue Y., Oberstrass J., Oesterschulze E., Nellen W. Analysis of RNA flexibility by scanning force spectroscopy. Nucleic Acids Res. 30:2002;e81 The 'pulls' in this paper appear to be upside down, relative to the common way of presenting forces and distances in force spectroscopy.
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Nucleic Acids Res
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Bonin, M.1
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Discriminating small molecule DNA binding modes by single molecule force spectroscopy
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Figure 1 in this paper has an excellent diagram of a classic DNA pulling curve and the corresponding changes in the DNA molecule.
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Krautbauer R., Pope L.H., Schrader T.E., Allen S., Gaub H.E. Discriminating small molecule DNA binding modes by single molecule force spectroscopy. FEBS Lett. 510:2002;154-158 Figure 1 in this paper has an excellent diagram of a classic DNA pulling curve and the corresponding changes in the DNA molecule.
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FEBS Lett
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Krautbauer, R.1
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31
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DNA: A programmable force sensor
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To quote Phil Szuromi of Science, this paper is "a forceful approach to biological assays".
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Albrecht C., Blank K., Lalic-Multhaler M., Hirler S., Mai T., Gilbert I., Schiffmann S., Bayer T., Clausen-Schaumann H., Gaub H.E. DNA: a programmable force sensor. Science. 301:2003;367-370 To quote Phil Szuromi of Science, this paper is "a forceful approach to biological assays".
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Science
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Albrecht, C.1
Blank, K.2
Lalic-Multhaler, M.3
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in press.
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Curr Opin Struct Biol
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Adamcik J., Viglasky V., Valle F., Antalik M., Podhradsky D., Dietler G. Effect of bacteria growth temperature on the distribution of supercoiled DNA and its thermal stability. Electrophoresis. 23:2002;3300-3309
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Electrophoresis
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Adamcik, J.1
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Oh S.J., Cho S.J., Kim C.O., Park J.W. Characteristics of DNA microarrays fabricated on various aminosilane layers. Langmuir. 18:2002;1764-1769
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Langmuir
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Oh, S.J.1
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0042509893
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AFM study of potato virus X disassembly induced by movement protein
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This is a beautiful example of the use of AFM to answer a biochemical question about the disassembly of a virus.
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Kiselyova O.I., Yaminsky I.V., Karpova O.V., Rodionova N.P., Kozlovsky S.V., Arkhipenko M.V., Atabekov J.G. AFM study of potato virus X disassembly induced by movement protein. J Mol Biol. 332:2003;321-325 This is a beautiful example of the use of AFM to answer a biochemical question about the disassembly of a virus.
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J Mol Biol
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, pp. 321-325
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Kiselyova, O.I.1
Yaminsky, I.V.2
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Arkhipenko, M.V.6
Atabekov, J.G.7
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