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Author

  • Vinod Subramaniam
2011

Alpha-Synuclein: Horseshoe Conformation on Intact Large Unilamellar Vesicles

Robotta, M., Braun, P., van Rooijen, B., Subramaniam, V., Drescher, M. & Huber, M., 2 Feb 2011, In : Biophysical Journal. 100, 3, p. 184-184

Research output: Contribution to JournalArticle

Analysis of single quantum-dot mobility inside 1D nanochannel devices

Hoang, T. H., Segers-Nolten, I. M. J., Tas, N. R., van Honschoten, J. W., Subramaniam, V. & Elwenspoek, M. C., 8 Jul 2011, In : Nanotechnology. 22, 27, p. 275201

Research output: Contribution to JournalArticle

Dark proteins disturb multichromophore coupling in tetrameric fluorescent proteins

Blum, C., Meixner, A. J. & Subramaniam, V., Jan 2011, In : Journal of biophotonics. 4, 1-2, p. 114-21 8 p.

Research output: Contribution to JournalArticle

Dendritic ruthenium(II)-based dyes tuneable for diagnostic or therapeutic applications

Ruggi, A., Beekman, C., Wasserberg, D., Subramaniam, V., Reinhoudt, D. N., van Leeuwen, F. W. B. & Velders, A. H., 10 Jan 2011, In : Chemistry: A European Journal. 17, 2, p. 464-7 4 p.

Research output: Contribution to JournalArticle

Direct evidence of coexisting horseshoe and extended helix conformations of membrane-bound alpha-synuclein

Robotta, M., Braun, P., van Rooijen, B., Subramaniam, V., Huber, M. & Drescher, M., 7 Feb 2011, In : ChemPhysChem. 12, 2, p. 267-9 3 p.

Research output: Contribution to JournalArticle

Inhibition of α-synuclein aggregation by small heat shock proteins

Bruinsma, I. B., Bruggink, K. A., Kinast, K., Versleijen, A. A. M., Segers-Nolten, I. M. J., Subramaniam, V., Kuiperij, H. B., Boelens, W., de Waal, R. M. W. & Verbeek, M. M., Oct 2011, In : Proteins. 79, 10, p. 2956-67 12 p.

Research output: Contribution to JournalArticle

Integrin-dependent activation of the JNK signaling pathway by mechanical stress

Pereira, A. M., Tudor, C., Kanger, J. S., Subramaniam, V. & Martin-Blanco, E., 2011, In : PLoS ONE. 6, 12, p. e26182

Research output: Contribution to JournalArticle

Open Access

Microspectroscopic analysis of green fluorescent proteins infiltrated into mesoporous silica nanochannels

Ma, Y., Rajendran, P., Blum, C., Cesa, Y., Gartmann, N., Brühwiler, D. & Subramaniam, V., 1 Apr 2011, In : Journal of Colloid and Interface Science. 356, 1, p. 123-30 8 p.

Research output: Contribution to JournalArticle

Nanomechanical properties of α-synuclein amyloid fibrils: a comparative study by nanoindentation, harmonic force microscopy, and Peakforce QNM

Sweers, K. K. M., van der Werf, K., Bennink, M. L. & Subramaniam, V., 30 Mar 2011, In : Nanoscale research letters. 6, 1, p. 270

Research output: Contribution to JournalArticle

Open Access

Patterning of peptide nucleic acids using reactive microcontact printing

Calabretta, A., Wasserberg, D., Posthuma-Trumpie, G. A., Subramaniam, V., van Amerongen, A., Corradini, R., Tedeschi, T., Sforza, S., Reinhoudt, D. N., Marchelli, R., Huskens, J. & Jonkheijm, P., 15 Feb 2011, In : Langmuir. 27, 4, p. 1536-42 7 p.

Research output: Contribution to JournalArticle

Room temperature excitation spectroscopy of single quantum dots

Blum, C., Schleifenbaum, F. E., Stopel, M. H. W., Peter, S., Sackrow, M., Subramaniam, V. & Meixner, A. J., 2011, In : Beilstein journal of nanotechnology. 2, p. 516-24 9 p.

Research output: Contribution to JournalArticle

Open Access

Single-molecule DNA force spectroscopy to probe interactions with the tri-peptide Lys-Trp-Lys

Murade, C. U., Subramaniam, V., Otto, C. & Bennink, M. L., 4 Oct 2011, In : ChemPhysChem. 12, 14, p. 2545-8 4 p.

Research output: Contribution to JournalArticle

Strategies for patterning biomolecules with dip-pen nanolithography

Wu, C-C., Reinhoudt, D. N., Otto, C., Subramaniam, V. & Velders, A. H., 18 Apr 2011, In : Small. 7, 8, p. 989-1002 14 p.

Research output: Contribution to JournalReview article

The Prostaglandin G-Protein Coupled Receptor EP4 Activates Both the Stimulatory G(s) and the Inhibitory G(i) Signaling Pathways

de Keijzer, S., Tudor, C., Figdor, C. G., Subramaniam, V., Lidke, D. & Cambi, A., 2 Feb 2011, In : Biophysical Journal. 100, 3, p. 418-418

Research output: Contribution to JournalArticle

2012

A comparative analysis of the aggregation behavior of amyloid-β peptide variants

Vandersteen, A., Hubin, E., Sarroukh, R., De Baets, G., Schymkowitz, J., Rousseau, F., Subramaniam, V., Raussens, V., Wenschuh, H., Wildemann, D. & Broersen, K., 30 Nov 2012, In : FEBS Letters. 586, 23, p. 4088-93 6 p.

Research output: Contribution to JournalArticle

A method for spatially resolved local intracellular mechanochemical sensing and organelle manipulation

Shekhar, S., Cambi, A., Figdor, C. G., Subramaniam, V. & Kanger, J. S., 8 Aug 2012, In : Biophysical Journal. 103, 3, p. 395-404 10 p.

Research output: Contribution to JournalArticle

Open Access

Atomic force microscopy under controlled conditions reveals structure of C-terminal region of α-synuclein in amyloid fibrils

Sweers, K. K. M., van der Werf, K. O., Bennink, M. L. & Subramaniam, V., 24 Jul 2012, In : ACS Nano. 6, 7, p. 5952-60 9 p.

Research output: Contribution to JournalArticle

Elucidating the Alpha-Synuclein Fibril Fold by Pulsed EPR

Shabestari, M. H., Segers-Nolten, I. M. J., Claessens, M. M. A. E., van Rooijen, B. D., Subramaniam, V. & Huber, M., 31 Jan 2012, In : Biophysical Journal. 102, 3, p. 454A-454A

Research output: Contribution to JournalArticle

Fabrication of cell container arrays with overlaid surface topographies

Truckenmüller, R., Giselbrecht, S., Escalante-Marun, M., Groenendijk, M., Papenburg, B., Rivron, N., Unadkat, H., Saile, V., Subramaniam, V., van den Berg, A., van Blitterswijk, C., Wessling, M., Boer, J. D. & Stamatialis, D., Feb 2012, In : Biomedical Microdevices. 14, 1, p. 95-107 13 p.

Research output: Contribution to JournalArticle

Open Access

Hunting the chameleon: structural conformations of the intrinsically disordered protein alpha-synuclein

Drescher, M., Huber, M. & Subramaniam, V., 16 Apr 2012, In : ChemBioChem. 13, 6, p. 761-8 8 p.

Research output: Contribution to JournalArticle

Kinetic measurements give new insights into lipid membrane permeabilization by α-synuclein oligomers

Stöckl, M. T., Claessens, M. M. A. E. & Subramaniam, V., Jan 2012, In : Molecular BioSystems. 8, 1, p. 338-45 8 p.

Research output: Contribution to JournalArticle

Locally resolved membrane binding affinity of the N-terminus of α-synuclein

Robotta, M., Hintze, C., Schildknecht, S., Zijlstra, N., Jüngst, C., Karreman, C., Huber, M., Leist, M., Subramaniam, V. & Drescher, M., 2012, In : Biochemistry. 51, 19, p. 3960-2 3 p.

Research output: Contribution to JournalArticle

Molecular composition of sub-stoichiometrically labeled α-synuclein oligomers determined by single-molecule photobleaching

Zijlstra, N., Blum, C., Segers-Nolten, I. M. J., Claessens, M. M. A. E. & Subramaniam, V., 27 Aug 2012, In : Angewandte Chemie International Edition in English. 51, 35, p. 8821-4 4 p.

Research output: Contribution to JournalArticle

Molecular plasticity regulates oligomerization and cytotoxicity of the multipeptide-length amyloid-β peptide pool

Vandersteen, A., Masman, M. F., De Baets, G., Jonckheere, W., van der Werf, K., Marrink, S. J., Rozenski, J., Benilova, I., De Strooper, B., Subramaniam, V., Schymkowitz, J., Rousseau, F. & Broersen, K., 2012, In : Journal of Biological Chemistry. 287, 44, p. 36732-43 12 p.

Research output: Contribution to JournalArticle

Nanomechanical properties of single amyloid fibrils

Sweers, K. K. M., Bennink, M. L. & Subramaniam, V., 20 Jun 2012, In : Journal of Physics. Condensed matter. 24, 24, p. 243101

Research output: Contribution to JournalReview article

Nanophotonic control of the Förster resonance energy transfer efficiency

Blum, C., Zijlstra, N., Lagendijk, A., Wubs, M., Mosk, A. P., Subramaniam, V. & Vos, W. L., 16 Nov 2012, In : Physical Review Letters. 109, 20, p. 203601

Research output: Contribution to JournalArticle

Silver Nanoparticle Aggregates as Highly Efficient Plasmonic Antennas for Fluorescence Enhancement

Gill, R., Tian, L., Somerville, W. R. C., Le Ru, E. C., van Amerongen, H. & Subramaniam, V., 9 Aug 2012, In : Journal of Physical Chemistry C. Nanomaterials and Interfaces. 116, 31, p. 16687-16693

Research output: Contribution to JournalArticle

Open Access

Size-selective detection in integrated optical interferometric biosensors

Mulder, H. K. P., Ymeti, A., Subramaniam, V. & Kanger, J. S., 10 Sep 2012, In : Optics Express. 20, 19, p. 20934-20950 17 p.

Research output: Contribution to JournalArticle

Spatially resolved frequency-dependent elasticity measured with pulsed force microscopy and nanoindentation

Sweers, K. K. M., van der Werf, K. O., Bennink, M. L. & Subramaniam, V., 21 Mar 2012, In : Nanoscale. 4, 6, p. 2072-7 6 p.

Research output: Contribution to JournalArticle

Structural model for alpha-synuclein fibrils derived from high resolution imaging and nanomechanical studies using atomic force microscopy

Sweers, K. K. M., Segers-Nolten, I. M. J., Bennink, M. L. & Subramaniam, V., 2012, In : Soft Matter. 8, 27, p. 7215-7222

Research output: Contribution to JournalArticle

Tri- and pentamethine cyanine dyes for fluorescent detection of α-synuclein oligomeric aggregates

Kovalska, V. B., Losytskyy, M. Y., Tolmachev, O. I., Slominskii, Y. L., Segers-Nolten, G. M. J., Subramaniam, V. & Yarmoluk, S. M., Nov 2012, In : Journal of Fluorescence. 22, 6, p. 1441-8 8 p.

Research output: Contribution to JournalArticle

Wafer-scale thin encapsulated two-dimensional nanochannels and its application toward visualization of single molecules

Hoang, T. H., Tong, H. D., Segers-Nolten, I. M. J., Tas, N. R., Subramaniam, V. & Elwenspoek, M. C., 1 Feb 2012, In : Journal of Colloid and Interface Science. 367, 1, p. 455-9 5 p.

Research output: Contribution to JournalArticle

2013

Blinking statistics of colloidal quantum dots at different excitation wavelengths

Stopel, M. H. W., Prangsma, J. C., Blum, C. & Subramaniam, V., 14 Oct 2013, In : RSC Advances. 3, 38, p. 17440-17445 6 p.

Research output: Contribution to JournalArticle

Can nanophotonics control the Förster resonance energy transfer efficiency?

Blum, C., Zijlstra, N., Lagendijk, A., Wubs, M., Mosk, A. P., Subramaniam, V. & Vos, W. L., 2013, 2013 Conference on Lasers and Electro-Optics Europe and International Quantum Electronics Conference, CLEO/Europe-IQEC 2013. ACM, IEEE Computer Society, 6801861

Research output: Chapter in Book / Report / Conference proceedingConference contributionAcademicpeer-review

Characterizing Nanoscale Morphologic and Mechanical Properties of α-Synuclein Amyloid Fibrils with Atomic Force Microscopy

Sweers, K. K. M., Stöckl, M. T., Bennink, M. L. & Subramaniam, V., Nov 2013, Bio-nanoimaging: Protein Misfolding and Aggregation. Elsevier Inc, p. 309-322 14 p.

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review

Emission enhancement and lifetime modification of phosphorescence on silver nanoparticle aggregates

Gill, R., Tian, L., van Amerongen, H. & Subramaniam, V., 14 Oct 2013, In : Physical Chemistry Chemical Physics - PCCP. 15, 38, p. 15734-15739 6 p.

Research output: Contribution to JournalArticle

Open Access

Fast, single-step, and surfactant-free oligonucleotide modification of gold nanoparticles using DNA with a positively charged tail

Gill, R., Göeken, K. L. & Subramaniam, V., 18 Dec 2013, In : Chemical Commununications. 49, 97, p. 11400-2 3 p.

Research output: Contribution to JournalArticle

Open Access

Imaging the static dielectric constant in vitro and in living cells by a bioconjugable GFP chromophore analog

Signore, G., Abbandonato, G., Storti, B., Stöckl, M. T., Subramaniam, V. & Bizzarri, R., 28 Feb 2013, In : Chemical Commununications. 49, 17, p. 1723-5 3 p.

Research output: Contribution to JournalArticle

Interplay between myosin IIA-mediated contractility and actin network integrity orchestrates podosome composition and oscillations

van den Dries, K., Meddens, M. B. M., Keijzer, T. J. S., Shekhar, S., Subramaniam, V., Figdor, C. G. & Cambi, A., 2013, In : Nature Communications. 4, p. 1412

Research output: Contribution to JournalArticle

Open Access

Intra-laser-cavity microparticle sensing with a dual-wavelength distributed-feedback laser

Bernhardi, E. H., van der Werf, K. O., Hollink, A. J. F., Wörhoff, K., de Ridder, R. M., Subramaniam, V. & Pollnau, M., Jul 2013, In : Laser and Photonics Reviews. 7, 4, p. 589-598 10 p.

Research output: Contribution to JournalReview article

On-chip microparticle detection and sizing using a dual-wavelength waveguide laser

Bernhardi, E. H., van der Werf, K. O., Hollink, A. J. F., Worhoff, K., De Ridder, R. M., Subramaniam, V. & Pollnau, M., 2013, 2013 Conference on Lasers and Electro-Optics Europe and International Quantum Electronics Conference, CLEO/Europe-IQEC 2013. ACM, IEEE Computer Society, 6801533

Research output: Chapter in Book / Report / Conference proceedingConference contributionAcademicpeer-review

Oriented protein immobilization using covalent and noncovalent chemistry on a thiol-reactive self-reporting surface

Wasserberg, D., Nicosia, C., Tromp, E. E., Subramaniam, V., Huskens, J. & Jonkheijm, P., 27 Feb 2013, In : Journal of the American Chemical Society. 135, 8, p. 3104-11 8 p.

Research output: Contribution to JournalArticle

Structural and Compositional Information about Pre-Amyloid Oligomers

Zijlstra, N. & Subramaniam, V., 27 Jan 2013, Amyloid Fibrils and Prefibrillar Aggregates: Molecular and Biological Properties. Wiley-VCH, p. 103-126 24 p.

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review

What's in a name? Why these proteins are intrinsically disordered: Why these proteins are intrinsically disordered

Dunker, A. K., Babu, M. M., Barbar, E., Blackledge, M., Bondos, S. E., Dosztányi, Z., Dyson, H. J., Forman-Kay, J., Fuxreiter, M., Gsponer, J., Han, K-H., Jones, D. T., Longhi, S., Metallo, S. J., Nishikawa, K., Nussinov, R., Obradovic, Z., Pappu, R. V., Rost, B., Selenko, P. & 4 others, Subramaniam, V., Sussman, J. L., Tompa, P. & Uversky, V. N., 1 Apr 2013, In : Intrinsically disordered proteins. 1, 1, p. e24157

Research output: Contribution to JournalReview article

Open Access

α-Synuclein oligomers: an amyloid pore? Insights into mechanisms of α-synuclein oligomer-lipid interactions

Stöckl, M. T., Zijlstra, N. & Subramaniam, V., Apr 2013, In : Molecular Neurobiology. 47, 2, p. 613-621 9 p.

Research output: Contribution to JournalReview article

2014

A four-amino acid linker between repeats in the α-synuclein sequence is important for fibril formation

Shvadchak, V. V. & Subramaniam, V., 21 Jan 2014, In : Biochemistry. 53, 2, p. 279-81 3 p.

Research output: Contribution to JournalArticle

Alpha-synuclein binds to the inner membrane of mitochondria in an α-helical conformation

Robotta, M., Gerding, H. R., Vogel, A., Hauser, K., Schildknecht, S., Karreman, C., Leist, M., Subramaniam, V. & Drescher, M., 24 Nov 2014, In : ChemBioChem. 15, 17, p. 2499-502 4 p.

Research output: Contribution to JournalArticle

Amyloids of alpha-synuclein affect the structure and dynamics of supported lipid bilayers

Iyer, A., Petersen, N. O., Claessens, M. M. A. E. & Subramaniam, V., 17 Jun 2014, In : Biophysical Journal. 106, 12, p. 2585-94 10 p.

Research output: Contribution to JournalArticle

Open Access

Application of MALDI-TOF mass spectrometry for study on fibrillar and oligomeric aggregates of alpha-synuclein

Severinovskaya, O. V., Kovalska, V. B., Losytskyy, M. Y., Cherepanov, V. V., Subramaniam, V. & Yarmoluk, S. M., 2014, In : Biopolymers and Cell. 30, 3, p. 190-196 7 p.

Research output: Contribution to JournalArticle

Open Access

Background reduction in a young interferometer biosensor

Mulder, H. K. P., Subramaniam, V. & Kanger, J. S., 21 Jul 2014, Optical Sensors, 2014. Optical Society of America (OSA)

Research output: Chapter in Book / Report / Conference proceedingConference contributionAcademicpeer-review