Björn Högberg - Publications

Publications 

Contents 

About me and my research

Publications

Presentations and animations

Popular Science in English

Popular Science in Swedish

 

Bjorn Hogberg
Shihlab
Dana-Farber Cancer Institute
44, Binney Street
Boston, MA 02115


e-mail: bjorn_hogberg@dfci.harvard.edu


 

 


 

 

Complete (well, should be) publication list is here

Folding DNA Origami from a Double-Stranded Source of Scaffold

B. Hogberg, T. Liedl and W. M. Shih [pdf 4Mb]
- JACS (2009)
For DNA origami we need scaffolds, long single stranded DNA that can be folded with the help of short, synthetic DNA oligonucleotides. These long scaffold strands had up until now been limited to the genome of a single stranded DNA virus, the M13 virus. In this paper we show that using a few tricks you can actually use double stranded DNA and fold each of the two strands into separate structures! This will open the door to using a much broader variety of DNA samples for DNA origami.

 

Self-assembly of DNA into nanoscale three-dimensional shapes

S.M. Douglas, H. Dietz, T. Liedl, B. Högberg, F. Graf and W. M. Shih [pdf 4Mb]
- Nature, vol. 459, p. 414 (2009)
DNA origami, now in 3D! It turns out that Paul Rothemunds DNA origamis can be folded like real origamis into thick multi-layered object. We show off some pretty complex structures and try to explain the design process and experimental tricks in depth.  Each of us contributed with a design that exemplifies different aspects of the technology. We had to do the design the hard way: writing scripts in python to generate the staple sequences. Fortunately for future users of this technology, Shawn's software caDNAno, nowdays makes the process a little less tedious.

Read more about the technology [here in english][here in swedish].


DNA-Mediated Self-Assembly of Nanostructures - Theory and Experiments

B. Högberg (Entire thesis [28 Mb])
- Doctoral Thesis, Mid Sweden University, Sundsvall 2007
This thesis summarizes the work that I have performed during the last 3 years at Mid Sweden University. I have tried to write an easy-to-read text. Should be simple to follow even for those of you that are not familiar with nano self-assembly. The thesis contains many of the papers that are posted on this page. Chapter 6 also includes some new ideas not published before.


Anisotropically Functionalized Nanoparticle Dimers

B. Högberg and H. Olin [pdf]
- Eur. Phys. J. D, 43 (1-3) (2007)
The idea that we came up with to make programmable self-assembly building blocks out of nanoparticles and DNA is working! In this paper we look at how our dimer builiding blocks behave when they self-assemble. And they behave just as you would expect, proving that our dimer building-blocks are indeed anisotropically functionalized.



DNA Scaffolded Nanoparticle Structures

B. Högberg and H. Olin [pdf]
- Journal of Physics conf. ser. (2007)
This paper describes some of our efforts to attach nanoparticles on DNA-origami. We reproduce Rothemunds original experiment and try to extend the concept by attaching proteins and metals to the origamis. Proteins are OK, attaching metal nanoparticles seems harder...

Programmable Self-Assembly - Unique Structures and Bond Uniqueness

B. Högberg and H. Olin [pdf]
- J. Comput. Theor. Nanosci. 3(3) p. 391 (2006)
If one wants to self-assemble a complex nanostructure, what are the basic requirements for the constituing building blocks? In this paper we try to look at the design level tradeoffs between making a few quite simple building blocks or a lot of advanced building blocks. Surely the first alternative must be better? It turns out that this might not always be the case. Not if one is concerned about keeping the unique structures of the generated assembly as small as possible. This paper tries to quantitatively probe these ideas. In a poster, shown at the FNANO 06, I expand the methods used in this paper to automatically generate tile systems.

DNA Coated Nanoparticle Eight-mers as Programmable Self-Assembly Building Blocks

B. Högberg, J. Helmersson, S. Holm and H. Olin [pdf]
- Proc. Foundations of Nanoscience 2, p. 219-226, ScienceTechnica, (2005)
This paper (a preliminary version the Applied Surface Science publication below) describes our idea of how to make PSA building blocks from DNA-coated gold particles. It is the only method presented to this date of how to make particles with anisotropic functionalization. This poster shows some of the more recent results.

Study of DNA coated nanoparticles as possible self-assembly building blocks

B. Högberg, J. Helmersson, S. Holm and H. Olin [pdf]
- Applied Surface Science 252, 5538-5541, 2006

High-Tc Superconducting Junctions for Integrated Circuits

B. Högberg (abstract)
- Licenciate Thesis, Chalmers University of Technology, Göteborg 2002
This volume describe the work i made in the Quantum Devices and Oxide Heterostructures-group at Chalmers University of Technology during my first two years as a PhD student. This work is the summary of the first three papers plus some extra considerations not published elswhere. My excellent supervisor was prof. Zdravko Ivanov who unfortunately passed away in the spring of 2003. I have quite a few copies of this book left on my shelf, send me an e-mail with your addres and I will happily send you one.


Novel in-situ Fabricated Josephson Junctions: Trilayer on a Substrate Slope

B. Högberg and Z. Ivanov [pdf]
- IEEE Trans. Appl. Supercond., 13 (2), 2003
A great idea I had together with Zdravko, of how to make Josephson Junctions in high-temp. superconductors where the crucial interfaces are fabricated in-situ without beeing exposed to air.


Submicron YBa2Cu3Ox ramp Josephson Junctions

P. V. Komissinski, B. Högberg, A. Y. Tzalenchuk and Z. Ivanov [pdf]
- Appl. Phys. Lett. 80 (6), 2002
Using electron beam lithography and state of the art technology for fabricating high temperature superconductors we managed to make fuctional Josephson junctions that were really small. Some interesting voltage - current characteristics were observed, commented more thouroughly in my lic. thesis.


Small Scale Integrated Technology for HTS RSFQ Circuits

M.Q. Huang, P. V. Kommissinski, A. Y. Kidiyarova-Shevchenko, M. Gustavsson, E. Olsson, B. Högberg, Z. Ivanov and T. Claeson [pdf]
- IEEE Trans. Appl. Supercond., 11 (1), 2001
A summary of our technology development at Chalmers to make Josephson junctions in high temperature superconductors. This work was aimed at producing circuits for Rapid Single-Flux Quantum (RSFQ) - digital logic.