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Showing 1 to 12 of 39 entries
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Genome sequencing and transcriptome analysis of .

Biotechnology for biofuels

Ivanova C, Ramoni J, Aouam T, Frischmann A, Seiboth B, Baker SE, Le Crom S, Lemoine S, Margeot A, Bidard F.
PMID: 28912831
Biotechnol Biofuels. 2017 Sep 07;10:209. doi: 10.1186/s13068-017-0897-7. eCollection 2017.

BACKGROUND: The hydrolysis of biomass to simple sugars used for the production of biofuels in biorefineries requires the action of cellulolytic enzyme mixtures. During the last 50 years, the ascomycete RESULTS: Sequence comparison of the cellulase-negative strain QM9978 to...

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Ivanova C, Ramoni J, Aouam T, et al. Genome sequencing and transcriptome analysis of . Biotechnol Biofuels. 2017;10:209doi: 10.1186/s13068-017-0897-7.
Ivanova, C., Ramoni, J., Aouam, T., Frischmann, A., Seiboth, B., Baker, S. E., Le Crom, S., Lemoine, S., Margeot, A., & Bidard, F. (2017). Genome sequencing and transcriptome analysis of . Biotechnology for biofuels, 10209. https://doi.org/10.1186/s13068-017-0897-7
Ivanova, Christa, et al. "Genome sequencing and transcriptome analysis of ." Biotechnology for biofuels vol. 10 (2017): 209. doi: https://doi.org/10.1186/s13068-017-0897-7
Ivanova C, Ramoni J, Aouam T, Frischmann A, Seiboth B, Baker SE, Le Crom S, Lemoine S, Margeot A, Bidard F. Genome sequencing and transcriptome analysis of . Biotechnol Biofuels. 2017 Sep 07;10:209. doi: 10.1186/s13068-017-0897-7. eCollection 2017. PMID: 28912831; PMCID: PMC5588705.
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Morphology of femtosecond laser modification of bulk dielectrics.

Optics express

Popov KI, McElcheran C, Briggs K, Mack S, Ramunno L.
PMID: 21263566
Opt Express. 2011 Jan 03;19(1):271-82. doi: 10.1364/OE.19.000271.

Using 3D Finite-Difference-Time-Domain simulations, we study the morphology of the laser-created damage inside fused silica. Among the competing effects limiting the intensity in the dielectric, we find the most important is the pulse defocusing by the plasma lens, partially...

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Popov KI, McElcheran C, Briggs K, et al. Morphology of femtosecond laser modification of bulk dielectrics. Opt Express. 2011;19(1):271-82doi: 10.1364/OE.19.000271.
Popov, K. I., McElcheran, C., Briggs, K., Mack, S., & Ramunno, L. (2011). Morphology of femtosecond laser modification of bulk dielectrics. Optics express, 19(1), 271-82. https://doi.org/10.1364/OE.19.000271
Popov, K I, et al. "Morphology of femtosecond laser modification of bulk dielectrics." Optics express vol. 19,1 (2011): 271-82. doi: https://doi.org/10.1364/OE.19.000271
Popov KI, McElcheran C, Briggs K, Mack S, Ramunno L. Morphology of femtosecond laser modification of bulk dielectrics. Opt Express. 2011 Jan 03;19(1):271-82. doi: 10.1364/OE.19.000271. PMID: 21263566.
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Probabilistic model-based cell tracking.

International journal of biomedical imaging

Kachouie NN, Fieguth P, Ramunas J, Jervis E.
PMID: 23165016
Int J Biomed Imaging. 2006;2006:12186. doi: 10.1155/IJBI/2006/12186. Epub 2006 Jul 02.

The study of cell behavior is of crucial importance in drug and disease research. The fields of bioinformatics and biotechnology rely on the collection, processing, and analysis of huge numbers of biocellular images, including cell features such as cell...

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Kachouie NN, Fieguth P, Ramunas J, et al. Probabilistic model-based cell tracking. Int J Biomed Imaging. 2006;2006:12186doi: 10.1155/IJBI/2006/12186.
Kachouie, N. N., Fieguth, P., Ramunas, J., & Jervis, E. (2006). Probabilistic model-based cell tracking. International journal of biomedical imaging, 200612186. https://doi.org/10.1155/IJBI/2006/12186
Kachouie, Nezamoddin N, et al. "Probabilistic model-based cell tracking." International journal of biomedical imaging vol. 2006 (2006): 12186. doi: https://doi.org/10.1155/IJBI/2006/12186
Kachouie NN, Fieguth P, Ramunas J, Jervis E. Probabilistic model-based cell tracking. Int J Biomed Imaging. 2006;2006:12186. doi: 10.1155/IJBI/2006/12186. Epub 2006 Jul 02. PMID: 23165016; PMCID: PMC2324028.
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Correction to new anticancer agents mimicking protein recognition motifs.

Journal of medicinal chemistry

Persico M, Ramunno A, Maglio V, Franceschelli S, Esposito C, Carotenuto A, Brancaccio D, De Pasquale V, Pavone LM, Varra M, Orteca N, Novellino E, Fattorusso C.
PMID: 25927290
J Med Chem. 2015 May 14;58(9):4088. doi: 10.1021/acs.jmedchem.5b00607. Epub 2015 Apr 30.

No abstract available.

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Persico M, Ramunno A, Maglio V, et al. Correction to new anticancer agents mimicking protein recognition motifs. J Med Chem. 2015;58(9):4088doi: 10.1021/acs.jmedchem.5b00607.
Persico, M., Ramunno, A., Maglio, V., Franceschelli, S., Esposito, C., Carotenuto, A., Brancaccio, D., De Pasquale, V., Pavone, L. M., Varra, M., Orteca, N., Novellino, E., & Fattorusso, C. (2015). Correction to new anticancer agents mimicking protein recognition motifs. Journal of medicinal chemistry, 58(9), 4088. https://doi.org/10.1021/acs.jmedchem.5b00607
Persico, Marco, et al. "Correction to new anticancer agents mimicking protein recognition motifs." Journal of medicinal chemistry vol. 58,9 (2015): 4088. doi: https://doi.org/10.1021/acs.jmedchem.5b00607
Persico M, Ramunno A, Maglio V, Franceschelli S, Esposito C, Carotenuto A, Brancaccio D, De Pasquale V, Pavone LM, Varra M, Orteca N, Novellino E, Fattorusso C. Correction to new anticancer agents mimicking protein recognition motifs. J Med Chem. 2015 May 14;58(9):4088. doi: 10.1021/acs.jmedchem.5b00607. Epub 2015 Apr 30. PMID: 25927290.
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Imaging and modeling collagen architecture from the nano to micro scale.

Biomedical optics express

Brown CP, Houle MA, Popov K, Nicklaus M, Couture CA, Laliberté M, Brabec T, Ruediger A, Carr AJ, Price AJ, Gill HS, Ramunno L, Légaré F.
PMID: 24466490
Biomed Opt Express. 2013 Dec 16;5(1):233-43. doi: 10.1364/BOE.5.000233. eCollection 2013 Dec 16.

The collagen meshwork plays a central role in the functioning of a range of tissues including cartilage, tendon, arteries, skin, bone and ligament. Because of its importance in function, it is of considerable interest for studying development, disease and...

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Brown CP, Houle MA, Popov K, et al. Imaging and modeling collagen architecture from the nano to micro scale. Biomed Opt Express. 2013;5(1):233-43doi: 10.1364/BOE.5.000233.
Brown, C. P., Houle, M. A., Popov, K., Nicklaus, M., Couture, C. A., Laliberté, M., Brabec, T., Ruediger, A., Carr, A. J., Price, A. J., Gill, H. S., Ramunno, L., & Légaré, F. (2013). Imaging and modeling collagen architecture from the nano to micro scale. Biomedical optics express, 5(1), 233-43. https://doi.org/10.1364/BOE.5.000233
Brown, Cameron P, et al. "Imaging and modeling collagen architecture from the nano to micro scale." Biomedical optics express vol. 5,1 (2013): 233-43. doi: https://doi.org/10.1364/BOE.5.000233
Brown CP, Houle MA, Popov K, Nicklaus M, Couture CA, Laliberté M, Brabec T, Ruediger A, Carr AJ, Price AJ, Gill HS, Ramunno L, Légaré F. Imaging and modeling collagen architecture from the nano to micro scale. Biomed Opt Express. 2013 Dec 16;5(1):233-43. doi: 10.1364/BOE.5.000233. eCollection 2013 Dec 16. PMID: 24466490; PMCID: PMC3891335.
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Effect of refractive index mismatch on forward-to-backward ratios in SHG imaging.

Optics letters

van der Kolk JN, Bancelin S, Kioulos C, Lesina AC, Légaré F, Ramunno L.
PMID: 30320824
Opt Lett. 2018 Oct 15;43(20):5082-5085. doi: 10.1364/OL.43.005082.

Nonlinear optical imaging in the epi-direction is used to image subresolution features. We find that a refractive index mismatch between the object to be imaged and the background medium can change the far-field intensity image. As an example, we...

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van der Kolk JN, Bancelin S, Kioulos C, et al. Effect of refractive index mismatch on forward-to-backward ratios in SHG imaging. Opt Lett. 2018;43(20):5082-5085doi: 10.1364/OL.43.005082.
van der Kolk, J. N., Bancelin, S., Kioulos, C., Lesina, A. C., Légaré, F., & Ramunno, L. (2018). Effect of refractive index mismatch on forward-to-backward ratios in SHG imaging. Optics letters, 43(20), 5082-5085. https://doi.org/10.1364/OL.43.005082
van der Kolk, Jarno N, et al. "Effect of refractive index mismatch on forward-to-backward ratios in SHG imaging." Optics letters vol. 43,20 (2018): 5082-5085. doi: https://doi.org/10.1364/OL.43.005082
van der Kolk JN, Bancelin S, Kioulos C, Lesina AC, Légaré F, Ramunno L. Effect of refractive index mismatch on forward-to-backward ratios in SHG imaging. Opt Lett. 2018 Oct 15;43(20):5082-5085. doi: 10.1364/OL.43.005082. PMID: 30320824.
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Laser-induced plasmonic colours on metals.

Nature communications

Guay JM, Calà Lesina A, Côté G, Charron M, Poitras D, Ramunno L, Berini P, Weck A.
PMID: 28719576
Nat Commun. 2017 Jul 18;8:16095. doi: 10.1038/ncomms16095.

Plasmonic resonances in metallic nanoparticles have been used since antiquity to colour glasses. The use of metal nanostructures for surface colourization has attracted considerable interest following recent developments in plasmonics. However, current top-down colourization methods are not ideally suited...

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Guay JM, Calà Lesina A, Côté G, et al. Laser-induced plasmonic colours on metals. Nat Commun. 2017;8:16095doi: 10.1038/ncomms16095.
Guay, J. M., Calà Lesina, A., Côté, G., Charron, M., Poitras, D., Ramunno, L., Berini, P., & Weck, A. (2017). Laser-induced plasmonic colours on metals. Nature communications, 816095. https://doi.org/10.1038/ncomms16095
Guay, Jean-Michel, et al. "Laser-induced plasmonic colours on metals." Nature communications vol. 8 (2017): 16095. doi: https://doi.org/10.1038/ncomms16095
Guay JM, Calà Lesina A, Côté G, Charron M, Poitras D, Ramunno L, Berini P, Weck A. Laser-induced plasmonic colours on metals. Nat Commun. 2017 Jul 18;8:16095. doi: 10.1038/ncomms16095. PMID: 28719576; PMCID: PMC5520110.
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Effects of refractive index mismatch on SRS and CARS microscopy.

Optics express

van der Kolk J, Lesina AC, Ramunno L.
PMID: 27828510
Opt Express. 2016 Oct 31;24(22):25752-25766. doi: 10.1364/OE.24.025752.

An inhomogeneous linear refractive index profile, such as that occurring in biological tissues, is shown to significantly alter stimulated Raman scattering (SRS) and coherent anti-Stokes Raman scattering (CARS) microscopy images. Our finite-difference time-domain simulations show that near-field enhancement and...

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van der Kolk J, Lesina AC, Ramunno L. Effects of refractive index mismatch on SRS and CARS microscopy. Opt Express. 2016;24(22):25752-25766doi: 10.1364/OE.24.025752.
van der Kolk, J., Lesina, A. C., & Ramunno, L. (2016). Effects of refractive index mismatch on SRS and CARS microscopy. Optics express, 24(22), 25752-25766. https://doi.org/10.1364/OE.24.025752
van der Kolk, Jarno, et al. "Effects of refractive index mismatch on SRS and CARS microscopy." Optics express vol. 24,22 (2016): 25752-25766. doi: https://doi.org/10.1364/OE.24.025752
van der Kolk J, Lesina AC, Ramunno L. Effects of refractive index mismatch on SRS and CARS microscopy. Opt Express. 2016 Oct 31;24(22):25752-25766. doi: 10.1364/OE.24.025752. PMID: 27828510.
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Clinical Resistome Screening of 1,110 .

Frontiers in microbiology

Volz C, Ramoni J, Beisken S, Galata V, Keller A, Plum A, Posch AE, Müller R.
PMID: 31456751
Front Microbiol. 2019 Aug 13;10:1671. doi: 10.3389/fmicb.2019.01671. eCollection 2019.

Multidrug-resistant pathogens represent one of the biggest global healthcare challenges. Molecular diagnostics can guide effective antibiotics therapy but relies on validated, predictive biomarkers. Here we present a novel, universally applicable workflow for rapid identification of antimicrobial resistance (AMR) biomarkers...

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Volz C, Ramoni J, Beisken S, et al. Clinical Resistome Screening of 1,110 . Front Microbiol. 2019;10:1671doi: 10.3389/fmicb.2019.01671.
Volz, C., Ramoni, J., Beisken, S., Galata, V., Keller, A., Plum, A., Posch, A. E., & Müller, R. (2019). Clinical Resistome Screening of 1,110 . Frontiers in microbiology, 101671. https://doi.org/10.3389/fmicb.2019.01671
Volz, Carsten, et al. "Clinical Resistome Screening of 1,110 ." Frontiers in microbiology vol. 10 (2019): 1671. doi: https://doi.org/10.3389/fmicb.2019.01671
Volz C, Ramoni J, Beisken S, Galata V, Keller A, Plum A, Posch AE, Müller R. Clinical Resistome Screening of 1,110 . Front Microbiol. 2019 Aug 13;10:1671. doi: 10.3389/fmicb.2019.01671. eCollection 2019. PMID: 31456751; PMCID: PMC6700387.
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Gouy phase shift measurement using interferometric second-harmonic generation.

Optics letters

Bancelin S, Van der Kolk JN, Quigley AS, Pinsard M, Veres SP, Kreplak L, Ramunno L, Légaré F.
PMID: 29714771
Opt Lett. 2018 May 01;43(9):1958-1961. doi: 10.1364/OL.43.001958.

We report on a simple way to directly measure the Gouy phase shift of a strongly focused laser beam. This is accomplished by using a recent technique, namely, interferometric second-harmonic generation. We expect that this method will be of...

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Bancelin S, Van der Kolk JN, Quigley AS, et al. Gouy phase shift measurement using interferometric second-harmonic generation. Opt Lett. 2018;43(9):1958-1961doi: 10.1364/OL.43.001958.
Bancelin, S., Van der Kolk, J. N., Quigley, A. S., Pinsard, M., Veres, S. P., Kreplak, L., Ramunno, L., & Légaré, F. (2018). Gouy phase shift measurement using interferometric second-harmonic generation. Optics letters, 43(9), 1958-1961. https://doi.org/10.1364/OL.43.001958
Bancelin, Stéphane, et al. "Gouy phase shift measurement using interferometric second-harmonic generation." Optics letters vol. 43,9 (2018): 1958-1961. doi: https://doi.org/10.1364/OL.43.001958
Bancelin S, Van der Kolk JN, Quigley AS, Pinsard M, Veres SP, Kreplak L, Ramunno L, Légaré F. Gouy phase shift measurement using interferometric second-harmonic generation. Opt Lett. 2018 May 01;43(9):1958-1961. doi: 10.1364/OL.43.001958. PMID: 29714771.
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Spatial-spectral coupling in coherent anti-Stokes Raman scattering microscopy.

Optics express

Barlow AM, Popov K, Andreana M, Moffatt DJ, Ridsdale A, Slepkov AD, Harden JL, Ramunno L, Stolow A.
PMID: 23842316
Opt Express. 2013 Jul 01;21(13):15298-307. doi: 10.1364/OE.21.015298.

Coherent anti-Stokes Raman scattering (CARS) microscopy is a third-order nonlinear optical technique which permits label-free, molecule-specific hyperspectral imaging. The interference between coherent resonant and non-resonant terms leads to well known distortions in the vibrational spectrum, requiring the use of...

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Barlow AM, Popov K, Andreana M, et al. Spatial-spectral coupling in coherent anti-Stokes Raman scattering microscopy. Opt Express. 2013;21(13):15298-307doi: 10.1364/OE.21.015298.
Barlow, A. M., Popov, K., Andreana, M., Moffatt, D. J., Ridsdale, A., Slepkov, A. D., Harden, J. L., Ramunno, L., & Stolow, A. (2013). Spatial-spectral coupling in coherent anti-Stokes Raman scattering microscopy. Optics express, 21(13), 15298-307. https://doi.org/10.1364/OE.21.015298
Barlow, Aaron M, et al. "Spatial-spectral coupling in coherent anti-Stokes Raman scattering microscopy." Optics express vol. 21,13 (2013): 15298-307. doi: https://doi.org/10.1364/OE.21.015298
Barlow AM, Popov K, Andreana M, Moffatt DJ, Ridsdale A, Slepkov AD, Harden JL, Ramunno L, Stolow A. Spatial-spectral coupling in coherent anti-Stokes Raman scattering microscopy. Opt Express. 2013 Jul 01;21(13):15298-307. doi: 10.1364/OE.21.015298. PMID: 23842316.
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High-resolution, serial intravital microscopic imaging of nanoparticle delivery and targeting in a small animal tumor model.

Nano today

Smith BR, Zavaleta C, Rosenberg J, Tong R, Ramunas J, Liu Z, Dai H, Gambhir SS.
PMID: 24273594
Nano Today. 2013 Apr;8(2). doi: 10.1016/j.nantod.2013.02.004.

Nanoparticles are under active investigation for the detection and treatment of cancer. Yet our understanding of nanoparticle delivery to tumors is limited by our ability to observe the uptake process on its own scale in living subjects. We chose...

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Smith BR, Zavaleta C, Rosenberg J, et al. High-resolution, serial intravital microscopic imaging of nanoparticle delivery and targeting in a small animal tumor model. Nano Today. 2013;8(2)doi: 10.1016/j.nantod.2013.02.004.
Smith, B. R., Zavaleta, C., Rosenberg, J., Tong, R., Ramunas, J., Liu, Z., Dai, H., & Gambhir, S. S. (2013). High-resolution, serial intravital microscopic imaging of nanoparticle delivery and targeting in a small animal tumor model. Nano today, 8(2), . https://doi.org/10.1016/j.nantod.2013.02.004
Smith, Bryan Ronain, et al. "High-resolution, serial intravital microscopic imaging of nanoparticle delivery and targeting in a small animal tumor model." Nano today vol. 8,2 (2013). doi: https://doi.org/10.1016/j.nantod.2013.02.004
Smith BR, Zavaleta C, Rosenberg J, Tong R, Ramunas J, Liu Z, Dai H, Gambhir SS. High-resolution, serial intravital microscopic imaging of nanoparticle delivery and targeting in a small animal tumor model. Nano Today. 2013 Apr;8(2). doi: 10.1016/j.nantod.2013.02.004. PMID: 24273594; PMCID: PMC3836612.
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Showing 1 to 12 of 39 entries