van Oijen, Antoine M. Office Address

Name:
van Oijen, Antoine M.
Office Address:
Zernike Institute for Advanced Materials
Centre for Synthetic Biology
University of Groningen
Nijenborgh 4, room 5115.0108
9747 AG Groningen
Work Phone:
Work E-Mail:
+31-50-363-9883
[email protected]
(updated June 2014)
Education
1996
2001
MSc
PhD
(Cum laude; top 5%)
Physics
Leiden University, the Netherlands
Physics
Leiden University, the Netherlands
(Adv.: Prof. Jan Schmidt)
Postdoctoral Training
2001-2004
Postdoctoral Research Fellow
Chemistry and Chemical Biology
(Adv.: Prof. X. Sunney Xie)
Harvard University
Faculty Academic Appointments
2004-2010
Assistant Professor
2010-present
Full Professor
2014-present
Full Professor
Biological Chemistry and
Harvard Medical
Molecular Pharmacology
School
Zernike Institute for Advanced
Groningen University
Materials & Centre for Synthetic Biology
School of Chemistry
University of Wollongong,
Australia
Other Professional Positions
2008-2010
2012-present
2013-2014
Scientific Advisory Board
Council member (elected)
Chairman of the Board
Ion Torrent Systems (subsidiary of Life Technologies)
Biophysical Society
Zernike Institute for Advanced Materials, Groningen Univ.
Honors and Prizes
2001
2002
2002
2005
2005
2006
2007
2011
2011
2011
2013
Postdoctoral fellowship
Long-term postdoctoral fellowship
C.J. Kok award for best doctoral thesis in sciences
Armenise-Harvard Junior Faculty Award
Searle Scholar
CAREER Award
Research Scholar Award
Vici Award
Young Researcher Award
Starting grant
Physics Instructor of the Year Award
Niels Stensen Foundation, the Netherlands
Human Frontier Science Program
Leiden University, the Netherlands
Giovanni Armenise-Harvard Foundation
Kinship Foundation
National Science Foundation
American Cancer Society
Dutch Science Foundation
Dutch Society for Biochemistry and Mol. Biology
European Research Council
University of Groningen, Physics
Editorial Boards
2008-present
2010-present
2011-present
2013-present
2013-present
Advisory Board
Editorial Board
Editorial Board
Editorial Board
Faculty member
Molecular BioSystems
BMC Biophysics
Cell Reports
Biophysical Journal
Faculty of 1000
1
Research statement
Antoine van Oijen’s research centers on the development and use of single-molecule biophysical tools to study complex
biochemical systems, an area in which he has made pioneering contributions. As a PhD student, he provided the first
experimental demonstration of the ability to use the fluorescence of individual molecules to beat the classical diffraction limit
(Chem. Phys. Lett. 1998). More than a decade later, this approach has become a key ingredient of single-molecule based
PALM and STORM super-resolution techniques. Further, he performed the first high-resolution spectroscopic study of an
individual protein (Science 1999). Since then, his research has focused on the development of single-molecule methods and
their application to unravel biological mechanisms. He has developed tools to massively parallelize mechanical experiments
on DNA (Science 2003), to combine mechanical experiments on DNA with the fluorescence imaging of single, DNA-bound
proteins (PNAS 2011, PNAS 2014), and to visualize single molecules under conditions of high fluorophore concentration
(Nature Meth. 2012).
Van Oijen has successfully utilized these techniques to address a large number of mechanistic questions related to DNA
replication. Using viral and bacterial model replication systems, he studied how priming of DNA synthesis on one of the two
product strands influences the progression of the synthesis on the other (Nature 2006; Nature Struct. Mol. Biol. 2008) and
investigated the molecular mechanisms controlling the dynamics of so-called “replication loops” during the duplication of
DNA (Nature 2009). Further, he used single-molecule fluorescence imaging methods to visualize DNA replication in
eukaryotic cellular extracts (Mol. Cell 2010) and used this approach to end a longstanding controversy on how eukaryotic
replicative helicases work (Cell 2011, Nature 2012). Currently, he is developing the tools to visualize the behavior of
individual, fluorescently labeled molecules inside living cells. Using these approaches, he aims to understand the
spatiotemporal relationships between DNA replication and repair.
Besides DNA replication, van Oijen is interested in a number of other biological problems and has developed singlemolecule approaches towards the study of viral fusion (PNAS 2008, eLife 2013) and membrane transporters (Nature 2013).
Finally, he has been closely involved in the development of next-generation DNA sequencing technology. He is co-inventor
on the key patents underlying highly scalable semiconductor sequencing technology that is commercialized by Ion Torrent, a
Life Technologies subsidiary (now Thermo Fisher). He made essential contributions to the concepts underlying the detection
of the chemical signatures of nucleotide incorporation and their conversion into digital signals. This platform has been a
remarkable success; it currently provides a significant portion of the volume of bases sequenced worldwide.
Research support
External funding raised: €5.1 million from 2010-present and US$2.8 million from 2004-2009
Ongoing research support
FOM Program (VP140)
van Oijen (Program leader)
Sep 2013-Aug 2018
€2.4 million
Crowd Management: The physics of genome processing in complex environments
(€0.5 million for van Oijen)
Eight-group consortium to study the effects of intracellular crowding on genomic processes
Role: Program leader
ERC Starting Grant (281098)
van Oijen (PI)
Feb 2012-Jan 2017
€2.0 million
Under the hood: single-molecule studies of the DNA replication machinery
Development and use of single-molecule fluorescence tools to study prokaryotic and eukaryotic DNA replication.
Role: PI
NWO Vici (680-47-607)
van Oijen (PI)
June 2011-May 2016 €1.5 million
Single-molecule studies of DNA replication
Development and use of single-molecule fluorescence tools to study prokaryotic and eukaryotic DNA replication.
Role: PI
2
NWO FOM Projectruimte (11PR2487) van Oijen (PI)
Sep 2011-Aug 2015
A single-molecule view of protein translocation
Single-molecule fluorescence studies of the molecular mechanisms of SecYEG protein translocation.
Role: PI
€0.6 million
NWO TOP-GO (TOPGO.L.10.060)
Poolman (PI)
Dec 2010-Nov 2014
€0.8 million
Understanding the bottlenecks in membrane protein biogenesis
(€0.3 million for van Oijen)
Live-cell, single-molecule fluorescence imaging studies on L. lactis to unravel the transcriptional, translational, and
membrane-insertion steps of membrane-protein biogenesis.
Role: co-PI
Completed research support
National Institutes of Health R01 (GM077248) van Oijen (PI)
2007-2012
US$0.9 million
Single-molecule enzymology of the replisome
The major goals of this project are to define the mechanisms that coordinate various activities at the DNA replication fork
using single-molecule methods.
Role: PI
(This grant moved with me from the U.S. to the Netherlands)
Sponsored Rsrch Agreement Crucell
van Oijen (PI)
2011-2012
€0.15 million/yr
Single-particle studies of influenza fusion and broadly neutralizing antibodies
We work with vaccine developer Crucell (subsidiary of Johnson & Johnson) on the development and use of single-particle
tools to characterize how newly developed broadly neutralizing antibodies inhibit fusion.
NSF CAREER Award (MCB-0543784)
van Oijen (PI)
2006-2010
US$0.6 million
Under the hood of the replisome: Single-molecule mechanics of DNA replication
Supports the study of the enzymatic mechanisms of bacteriophage T7 replication proteins at the single-molecule level.
Role: PI
American Cancer Society (GMC-116053)
van Oijen (PI)
2008-2010
US$0.8 million
A single-molecule view of eukaryotic DNA replication
Single-molecule fluorescence imaging tools are developed and used to study the kinetics of replication initiation and fork
elongation in Xenopus cell-free extracts.
Role: PI
NIH R21 (5R21AI072346-02)
van Oijen (PI)
2007-2008
US$0.2 million
Single-particle fluorescence studies of viral fusion
Using single-particle fluorescence imaging, we aim to characterize the molecular mechanisms underlying membrane fusion
catalyzed by the influenza hemagglutinin fusion protein.
Role: PI
Searle Scholarship (Kinship Foundation)
van Oijen (PI)
2005-2008
US$0.3 million
Eukaryotic DNA replication studied at the single-molecule level
The major goal of this project is to develop single-molecule fluorescence microscopic techniques to study the spatial and
temporal behavior of eukaryotic replication forks on DNA during replication in cell-free extracts.
Role: PI
3
Granted patents and patent applications
1.
2.
3.
4.
5.
6.
‘Triggered microdroplet-based reactions’; European filing nr. 13170606.1; 2013
‘Molecular sleds and used thereof’; United States filing nr. PCT/US13/50451; 2012
‘Methods and apparatus for rapid nucleic-acid sequencing’; United States publication nr. 20110275522; 2011
‘Methods and apparatus for measuring analytes’; United States publication nr. 20100137143; 2010
‘Methods for sequencing individual nucleic acids under tension’; United States publication nr. 20100035252; 2009
‘Compounds and methods for assaying fusion of an individual, enveloped virus with target membrane’; Unites States
publication nr. 20090017449; 2008
Patents 3 and 4 form the basis of semiconductor sequencing, developed and marketed by Ion Torrent Systems (A Life
Technologies subsidiary).
Publications
Peer Reviewed Publications
67 articles, average impact factor 10.1
Including 4 articles in Nature, 2 in Science, 2 in Cell, 9 in PNAS, and 4 in Nature sister journals
Total citations: 4415, h-index: 31 (June 2014)
T.G. Graham, X. Wang, D. Song, C.M. Etson, A.M. van Oijen, D.Z. Rudner, J.J. Loparo
ParB spreading requires DNA bridging.
Genes Dev. (2014) 28: 1228-38
S. Mashaghi, A.M. van Oijen
A versatile approach to the generation of fluid supported lipid bilayers and its applications.
Biotechnol. Bioeng. (2014) [Epub ahead of print]
I. Kusters, A.M. van Oijen AM, A.J. Driessen
Membrane-on-a-chip: microstructured silicon/silicon-dioxide chips for high-throughput screening of membrane transport
and viral membrane fusion.
ACS Nano (2014) 8: 3380-92
H.J. Geertsema, A.W. Kulczyk, C.C. Richardson, A.M. van Oijen
Single-molecule studies of polymerase dynamics and stoichiometry at the bacteriophage T7 replication machinery
Proc. Natl. Acad. Sci. USA (2014) 111: 4073-80
S.A. Stratmann, A.M. van Oijen
DNA replication at the single-molecule level
Chem. Soc. Rev. (2014) 43: 1201-20
K.E. Duderstadt, R. Reyes-Lamothe, A.M. van Oijen, D.J. Sherratt
Replication-Fork Dynamics
Cold Spring Harb Perspect Biol. (2014) 6: pii:a010157
B. Brandenburg, W. Koudstaal, J. Goudsmit, V. Klaren, C. Tang, M.V. Bujny, H.J. Korse, T. Kwaks, J.J. Otterstrom, J.
Juraszek, A.M. van Oijen, R. Vogels, R.H. Friesen
Mechanisms of hemagglutinin targeted influenza virus neutralization
PLoS One (2013) 8: e80034
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G.B. Erkens, I. Hänelt, J.M.H. Goudsmits, D.J. Slotboom, A.M. van Oijen
Unsynchronised subunit motion in single trimeric sodium-coupled aspartate transporters
Nature (2013) 502: 119-23
T. Ivanovic, J.L. Choi, S.P. Whelan, A.M. van Oijen, S.C. Harrison
Influenza-virus membrane fusion by cooperative fold-back of stochastically induced hemagglutinin intermediates
Elife (2013) 2:e00333; doi: 10.7554/eLife.00333
A. Robinson, A.M. van Oijen
Bacterial replication, transcription and translation: mechanistic insights from single-molecule biochemical studies
Nature Rev Microbiol. (2013) 11:303-15
H.J. Geertsema, A.M. van Oijen
A single-molecule view of DNA replication: the dynamic nature of multi-protein complexes revealed
Curr Opin Struct Biol. (2013) 23:788-93
S. Jergic, N.P. Horan, M.M. Elshenawy, C.E. Mason, T. Urathamakul, K. Ozawa, A. Robinson, J.M. Goudsmits, Y. Wang,
X. Pan, J.L. Beck, A.M. van Oijen, T. Huber, S.M. Hamdan, N.E. Dixon
A direct proofreader-clamp interaction stabilizes the Pol III replicase in the polymerization mode.
EMBO Journal (2013) 32:1322-33
J. Otterstrom, A.M. van Oijen
Visualization of Membrane Fusion, One Particle at a Time.
Biochemistry (2013) 52: 1654-68
H. Yardimci, X. Wang, A.B. Loveland, I. Tappin, D.Z. Rudner, J. Hurwitz, A.M. van Oijen, J.C. Walter
Bypass of a protein barrier by a replicative helicase
Nature (2012) 492: 205-9
A.B. Loveland, S. Habuchi, J.C. Walter, A.M. van Oijen
A general approach to break the concentration barrier in single-molecule imaging
Nature Methods (2012) 9: 987-92
J.S. Leith, A. Tafvizi, F. Huang, W.E. Uspal, P.S. Doyle, A.R. Fersht, L.A. Mirny, A.M. van Oijen
Sequence-dependent sliding kinetics of p53
Proc. Natl. Acad. Sci. USA (2012) 109: 16552-7
H. Yardimci, A.B. Loveland, A.M. van Oijen, J.C. Walter
Single-molecule analysis of DNA replication in Xenopus egg extracts
Methods (2012) 57: 179-86
T. Ivanovic, R. Rozendaal, D.L. Floyd, M. Popovic, A.M. van Oijen, S.C. Harrison
Kinetics of proton transport into influenza virions by the viral M2 channel
PLoS One (2012) 7: e31566
A.K. Satapathy, A.W. Kulczyk, S. Ghosh , A.M. van Oijen, C.C. Richardson
Coupling dTTP hydrolysis with DNA unwinding by the DNA helicase of bacteriophage T7
J Biol. Chem. (2011) 286: 34468-78
B. Akabayov, A.W. Kulczyk, S.R. Akabayov, C. Theile, L.W. McLaughlin, B. Beauchamp, A.M. van Oijen, C.C.
Richardson
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Pyrovanadolysis, a pyrophosphorolysis-like reaction mediated by pyrovanadate, Mn2+, and DNA polymerase of
bacteriophage T7
J Biol Chem (2011) 286: 29146-57
A. Tafvizi, L.A. Mirny, A.M. van Oijen
Dancing on DNA: kinetic aspects of search processes on DNA
ChemPhysChem (2011) 12:1481-9
N.A. Tanner, G. Tolun, J.J. Loparo, S. Jergic, J.D. Griffith, N.E. Dixon, A.M. van Oijen
E. coli DNA replication in the absence of free beta clamps
EMBO J. (2011) 30: 1830-40
Y.V. Fu, H. Yardimci, D.T. Long, T.V. Ho, A. Guainazzi, V.P. Bermudez, J. Hurwitz, A.M. van Oijen, O.D. Schaerer, J.C.
Walter Selective bypass of a lagging strand roadblock by the eukaryotic replicative DNA helicase
Cell (2011) 146: 931-41
J.J. Loparo, A.W. Kulczyk, C.C. Richardson, A.M. van Oijen
Simultaneous single-molecule measurements of phage T7 replisome composition and function reveal the mechanism of
polymerase exchange
Proc. Natl. Acad. Sci. USA (2011) 108: 3584-9
A. Tafvizi, F. Huang, A.R. Fersht, L.A. Mirny, A.M. van Oijen
A single-molecule characterization of p53 search on DNA
Proc. Natl. Acad. Sci. USA (2011) 108: 563-8
H. Yardimci, A.B. Loveland, S. Habuchi, A.M. van Oijen, J.C. Walter
Uncoupling of sister replisomes during eukaryotic DNA replication
Mol. Cell (2010) 40: 834-40
R. Lebofsky, A.M. van Oijen, J.C. Walter
DNA is a co-factor for its own replication in Xenopus egg extracts
Nucleic Acids Res. (2011) 39: 545-55
A.M. van Oijen
Single-molecule approaches to characterizing kinetics of biomolecular interactions
Curr. Opin. Biotechnol. (2011) 22: 75-80
M.P. Elenko, J.W. Szostak, A.M. van Oijen
Single-molecule binding experiments on long time scales
Rev. Sci. Instrum. (2010) 81: 083705
A.M. van Oijen, J.J. Loparo
Single-molecule studies of the replisome
Annu. Rev. Biophys. (2010) 39: 429-48
A.K. Satapathy, A.B. Kochaniak, S. Mukherjee, D.J. Crampton, A. van Oijen, C.C. Richardson
Residues in the central beta-hairpin of the DNA helicase of bacteriophage T7 are important in DNA unwinding
Proc. Natl. Acad. Sci. USA (2010) 107: 6782-7
N.A. Tanner, A.M. van Oijen
Visualizing DNA replication at the single-molecule level
Methods Enzymology (2010) 475: 259-78
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D.L. Floyd, S.C. Harrison, A.M. van Oijen
Analysis of kinetic intermediates in single-particle dwell-time distributions
Biophys. Jrnl. (2010) 99: 360-6
J. Al-Bassam, H. Kim, G. Brouhard, A. van Oijen, S.C. Harrison, F. Chang
CLASP promotes microtubule rescue by recruiting tubulin dimmers to the microtubule
Dev. Cell (2010) 19: 245-58
S.M. Hamdan, A.M. van Oijen
Timing, coordination, and rhythm: acrobatics at the DNA replication fork
J. Biol. Chem. (2010) 285:18979-83
C.M. Etson, S.M. Hamdan, C.C. Richardson, A.M. van Oijen
Thioredoxin suppresses microscopic hopping of T7 DNA polymerase on duplex DNA
Proc. Natl. Acad. Sci. USA (2010) 107: 1900-5
M.P. Elenko, J.W. Szostak, A.M. van Oijen
Single-molecule imaging of an in vitro-evolved RNA aptamer reveals homogeneous ligand binding kinetics
J. Am. Chem. Soc. (2009) 131: 9866-7
N.A. Tanner, A.M. van Oijen
Single-molecule observation of prokaryotic DNA replication
Methods Mol. Biol. (2009) 521:397-410
N.A. Tanner, J.J. Loparo, S.M. Hamdan, S. Jergic, N.E. Dixon, A.M. van Oijen
Real-time single-molecule observation of rolling-circle DNA replication.
Nucleic Acids Res. (2009) 37(4):e27
S.M. Hamdan, J.J. Loparo, M. Takahashi, C.C. Richardson, A.M. van Oijen
Dynamics of individual DNA replication loops reveal temporal control of lagging-strand synthesis
Nature (2009) 457: 336-9
D.L. Floyd, J. Ragains, J.J. Skehel, S.C. Harrison, A.M. van Oijen
Single-particle kinetics of influenza membrane fusion
Proc. Natl. Acad. Sci. USA (2008) 105: 15382-7
G. Komazin-Meredith, R. Mirchev, P.W. Yacono, D.E. Golan, A.M. van Oijen, D.M. Coen
Hopping of a processivity factor on DNA revealed by single-molecule assays of diffusion
Proc. Natl. Acad. Sci. USA (2008) 105:10721-6
A. Tafvizi, F. Huang, J.S. Leith, A.R. Fersht, L.A. Mirny, A.M. van Oijen
Tumor suppressor p53 slides on DNA with low friction and high stability
Biophys. Jrnl. (2008) 95:L01-L03
N.A. Tanner, S.M. Hamdan, J. Slobodan, K.V. Loscha, P.M. Schaeffer, N.E. Dixon, A.M. van Oijen
Single-molecule studies of fork dynamics in Escherichia coli DNA replication
Nature Structure & Molecular Biology (2008) 15:170-5
S. Habuchi, H. Tsutui, A.B. Kochaniak, A. Miyawaki, A.M. van Oijen
mKikGR, a monomeric photoswitchable protein
PLoS One (2008) 3: e3944
A.M. van Oijen
7
Honey, I shrunk the DNA: DNA length as a probe for nucleic-acid enzyme activity
Biopolymers (2007) 144-53
S.M. Hamdan, D.E. Johnson, N.A. Tanner, J.-B. Lee, U. Qimron, S. Tabor, A.M. van Oijen, C.C. Richardson
DNA helicase-DNA polymerase interactions assure processive replication fork movement
Molecular Cell (2007) 27:539-49
A.M. van Oijen
Single-molecule studies of complex systems: The replisome
Mol. Biosystems (2007) 3:117-25
S. Fujiyoshi, M. Fujiwara, C. Kim, M. Matsushita, A.M. van Oijen, J. Schmidt
Single-component reflective objective for low-temperature spectroscopy in the entire visible region
Appl. Phys. Lett. (2007) 051125
P.C. Blainey, A.M. van Oijen, A. Banerjee, G.L. Verdine, X.S. Xie
A base-excision DNA-repair protein searches for intrahelical lesions by fast sliding along DNA
Proc. Natl. Acad. Sci. USA (2006), 103:5752-7
J.B. Lee, R.K. Hite, S.M. Hamdan, X.S. Xie, C.C. Richardson, A.M. van Oijen
DNA primase acts as a molecular brake in DNA replication
Nature (2006) 439:621-4
Brian P. English, Wei Min, Antoine M. van Oijen, Kang Taek Lee, Guobin Luo, Hongye Sun, Binny J Cherayil, S.C. Kou,
X. Sunney Xie
Ever-fluctuating single enzyme molecules: Michaelis-Menten equation revisited
Nature Chemical Biology (2006) 2:87-94
Marcelo Ehrlich, Werner Boll, Antoine van Oijen, Ramesh Hariharan, Kartik Chandran, Max L. Nibert, Tomas Kirchhausen
Endocytosis by Random Initiation and Stabilization of Clathrin-Coated Pits
Cell (2004) 118:591-605
A.M. van Oijen, P.C. Blainey, D.J. Crampton, C.C. Richardson, T. Ellenberger, X.S. Xie
Single-molecule kinetics reveal base dependence and dynamic disorder of lambda exonuclease
Science (2003) 301:1235-1238
R. Verberk, A.M.van Oijen, M. Orrit
A simple model for the power-law blinking of single semiconductor nanocrystals
Phys. Rev. B (2002) 66 (233202):1-4
A.M. van Oijen, R. Verberk, Y. Durand, J. Schmidt, J.N.J. van Lingen, A.A. Bol, A. Meijerink
Continuous-wave two-photon excitation of individual CdS nanocrystallites
Appl. Phys. Lett. (2001) 79:830-832
M. Matsushita, M. Ketelaars, A.M. van Oijen, J. Köhler, T.J. Aartsma, J.Schmidt
Spectroscopy on the B850 band of individual light-harvesting 2 complexes of Rhodopseudomonas acidophila; II. Exciton
states of an elliptically deformed ring aggregate
Biophys. Jrnl. (2001) 80:1604-1614
M. Ketelaars, A.M. van Oijen, M. Matsushita, J. Köhler, J. Schmidt, T.J. Aartsma
Spectroscopy on the B850 band of individual light-harvesting 2 complexes of Rhodopseudomonas acidophila; I. Experiments
and Monte-Carlo simulations
Biophys. Jrnl. (2001) 80:1591-1603
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Y. Durand, A. Bloeß, A.M. van Oijen, E.J.J. Groenen, J. Schmidt
Pentacene: a suitable molecule to investigate the Sphol’skii effect at a molecular level?
Chem. Phys. Lett. (2000) 317:232-237
A.M. van Oijen, M. Ketelaars, C. Hofmann, M. Matsushita, T.J. Aartsma, J. Schmidt
Optical spectroscopy of individual photosynthetic pigment protein complexes
International Journal of Modern Physics B (2001) 15:3633-3636
A.M. van Oijen, M. Ketelaars, J. Köhler, T.J. Aartsma, J. Schmidt
Spectroscopy of individual LH2 complexes of Rhodopseudomonas acidophila: diagonal disorder, sample heterogeneity,
spectral diffusion and energy transfer in the B 800 band
Biophys. Jrnl. (2000) 78:1570-1577
A.M. van Oijen, M. Ketelaars, J. Köhler, T.J. Aartsma, J. Schmidt
Spectroscopy of individual LH2 complexes of Rhodopseudomonas acidophila: Localized excitations in the B800 band
Chem. Phys. (1999) 247:53-60
A.M. van Oijen, M. Ketelaars, J. Köhler, T.J. Aartsma, J. Schmidt
Unraveling the electronic structure of individual photosynthetic pigment-protein complexes
Science (1999) 285:400-402
A.C.J. Brouwer, J. Köhler, A.M. van Oijen, E.J.J. Groenen, J. Schmidt
Single-molecule fluorescence autocorrelation experiments on pentacene. The dependence of intersystem crossing on isotopic
composition
J. Chem. Phys. (1999) 110:9151-9159
A.M. van Oijen, J. Köhler, J. Schmidt, M. Müller, G.J. Brakenhoff
Far-field fluorescence microscopy beyond the diffraction limit
J. Opt. Soc. Am. A (1999) 16:909-915
A.M. van Oijen, M. Ketelaars, J. Köhler, T.J. Aartsma, J. Schmidt
Spectroscopy of Single Light-Harvesting Complexes from Purple Photosynthetic Bacteria at 1.2 K
J. Phys. Chem. B (1998) 102:9363-9366
A.M. van Oijen, J. Köhler, J. Schmidt, M. Müller, G.J. Brakenhoff
3-Dimensional super-resolution by spectrally selective imaging
Chem. Phys. Lett. (1998) 292:183-187
Non-peer-reviewed publications
A. Quessada-Vial, A.M. van Oijen
How DNA-repair proteins find their targets
Proc. Natl. Acad. Sci. USA (2012) 109: 18243-4
A. Quessada-Vial, A.M. van Oijen
Spotting the mistakes, one molecule at a time
Structure (2012) 20: 1130-2
J.J. Otterstrom, A.M. van Oijen
Nudging through a nucleosome
Science (2009) 325: 547-8
9
A.M. van Oijen Cutting down the forest to see a single tree
Nature Chemical Biology (2008) 4:440-3
Books
A.M. van Oijen and P. Hinterdorfer (editors)
Handbook of Single-Molecule Biophysics; Springer-Verlag, 2009
Contributions to books
K.E. Duderstadt, R. Reyes-Lamothe, A.M. van Oijen, D.J. Sherratt
Replication-fork dynamics
In: DNA Replication, 3rd Edition; Cold Spring Harbor Press (editors: M. DePamphilis, M. Méchali, S. Bell), 2013
J.L. Loparo and A.M. van Oijen
Single-molecule enzymology
In: Handbook of Single-Molecule Biophysics; Springer-Verlag (editors: A.M. van Oijen and P. Hinterdorfer), 2009
N.A. Tanner and A.M. van Oijen
Single-molecule observation of prokaryotic DNA replication
In: DNA Replication, Methods and Protocols; Methods in Molecular Biology; Humana Press, 2009
S.M. Hamdan and A.M. van Oijen
Single-molecule studies of nucleic-acid enzymes
In: Single-Molecule Biology; Academic Press (editor: A.E. Knight), 2008
J. Wrachtrup, T.J. Aartsma, J. Köhler, M. Ketelaars, A.M. van Oijen, M. Matsushita, J. Schmidt, C. Tietz, F. Jelezko
Fluorescence-excitation spectroscopy on individual light-harvesting 2 complexes of Rhodopseudomonas acidophila
In: Single-Molecule Detection in Solution; Methods and Applications; John Wiley & Sons (Editors: Ch. Zander, J. Enderlein,
R.A. Keller, R.R. Keller), 2002
A.M. van Oijen, M. Ketelaars, J. Köhler, T.J Aartsma, J. Schmidt
The electronic structure of single photosynthetic pigment-protein complexes
In: Springer Series in Chemical Physics, 2001; 67: 62-81
Popular Science
A.M. van Oijen
A singular focus
The Scientist, 2008; 22: 50-55
A.M. van Oijen, M. Ketelaars
Een nieuwe kijk op fotosynthese
Nederlands Tijdschrift voor Natuurkunde, 2000; 66: 38-41
Thesis
A.M. van Oijen
Microscopy and spectroscopy on single molecules at low temperature
Leiden, the Netherlands; Leiden University, 2001
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