Publications

A. Kulow, J. Perez, R. Boudjehem, E. Gautier, S. Pairis, S. Ould-Chikh, J.-L. Hazemann, J. C. da Silva, “First X-ray spectral ptychography and resonant ptychographic computed tomography experiments at the SWING beamline from Synchrotron SOLEIL”, Journal of Synchrotron Radiation 31(4), 867-876 (2024). [doi: 10.1107/S1600577524003229]

R. Boudjehem, A. Kulow, J. Perez, E. Gautier, S. Ould-chikh,  S. Pairis, J.-L. Hazemann, J. C. da Silva, “ProSPyX: software for post-processing images of X-ray ptychography with spectral capabilities”, Journal of Synchrotron Radiation 31(2), 399-408 (2024). [doi: 10.1107/S160057752400016X]

Beuvier, T., Chushkin, Y., Zontone, F., Gibaud, A., Cherkas, O., Da Silva, J. C., Snigireva, I., “Self-transformation of solid CaCO3 microspheres into core-shell and hollow hierarchical structures revealed by coherent X-ray diffraction imaging”, IUCrJ 9,5 (2022). [doi: 10.1107/S2052252522006108]

Neubauer, J., Sowoidnich, T., Valentini, L., Schulbert, C., Naber, C., Rössler, C., da Silva, J. C., Bellmann, F., “Evolution of the particle size distribution of tricalcium silicate during hydration by synchrotron X-ray nano-tomography”, Cement and Concrete Research 156, 106769 (2022). [doi: 10.1016/j.cemconres.2022.106769]

Miralaei, C., Le Floch, S., Debord, R., Nguyen, H. V., da Silva, J. C., San-Miguel, A., Le Poche, H., Pailhès, S., Pischedda, V., “Effect of extreme mechanical densification on the electrical properties of carbon nanotube micro-yarns”, Nanotechnology 33, 275708 (2022). [doi: 10.1088/1361-6528/ac6039]

Monaco, F., Hubert, M., da Silva, J. C., Favre-Nicolin, V., Montinaro, D., Cloetens, P., Laurencin, J., “A comparison between holographic and near-field ptychographic X-ray tomography for solid oxide cell materials”, Materials Characterization 187, 111834 (2022). [doi: 10.1016/j.matchar.2022.111834]

Ihli, J.,  Bloch, L.,  Boecklein, S., Rzepka, P., Burghammer, M., da Silva, J. C.,  Mestl, G., van Bokhoven, J. A., “Evolution of Heterogeneity in Industrial Selective Oxidation Catalyst Pellets”, ACS Catalysis 11, 8274-8283 (2021). [doi: 10.1021/acscatal.1c01744]

David M. Paganin; Vincent Favre-Nicolin; Alessandro Mirone; Alexander Rack; Julie Villanova; Margie P.  Olbinado; Vincent Fernandez; Julio C. da Silva; Daniele Pellicia, “Boosting spatial resolution by incorporating periodic boundary conditions into single-distance hard-x-ray phase retrieval”, Journal of Optics 22, 115607 (2020). [doi: 10.1088/2040-8986/abbab9]. [preprint: arxiv:2005.03660v1] 

Gussone, J.; Bugelnig, K., Barriobero-Villa, P., da Silva, J. C., Hecht, U., Dresbach, C., Sket, F., Cloetens, P., Stark, A., Schell, N., Haubrich, J., Requena, G., “Ultrafine eutectic Ti-Fe-based alloys processed by additive manufacturing – A new candidate for high temperature applications”, Applied Materials Today 20, 100767 (2020). [doi: 10.1016/j.apmt.2020.100767] 

Ihli, J.,  Bloch, L.,  Krumeich, F.,  Wakonig, K., Holler, M.,  Guizar-Sicairos, M., Weber, T.,  da Silva, J. C.,  van Bokhoven, J. A., “Hierarchical Structure of NiMo Hydrodesulfurization Catalysts Determined by Ptychographic X‐ray Computed Tomography”, Angewandte Chemie International Edition 59(39), 17266-17271 (2020). [dois: 10.1002/anie.202008030 and 10.1002/ange.202008030]

Requena, G., Bugelnig, K., Sket, F., Milenkovic, S., Rödler, G., Weisheit, A., Gussone, J., Haubrich, J., Barriobero-Vila, P., Pusztai, T.,  Granasy, L., Theofilatos, A., da Silva, J. C., Hecht, U., “Ultrafine Fe-Fe2Ti eutectics by directed energy deposition: insights into microstructure formation based on experimental techniques and phase field modelling”, Additive Manufacturing 33, 101133 (2020). [doi: 10.1016/j.addma.2020.101133] 

De Samber, B.,  Berghe, T. V, Meul, E., Bauters, S.,  Seyrich, M.,  Smet, J.,  De Paepe, B.,  da Silva, J. C.,  Bohic, S.,  Cloetens, P.,  Van Coster, R.,  Vandenabeele, P.,  Vincze, L., “Nanoscopic X-ray imaging and quantification of the iron cellular architecture within single fibroblasts of Friedreich's ataxia patients”, Journal of Synchrotron Radiation 27, 185-198 (2020). [doi: 10.1107/S1600577519015510] 

Moreau, S., Fraczkiewicz, A., Bouchu, D., Bleuet, P., Cloetens, P., da Silva, J. C., Manzanarez, H., Lorut, F., Lhostis, S., “Correlation between Electromigration-Related Void Volumes and Time-to-Failure by High Resolution X-Ray Tomography and Modeling”, IEEE Electron Device Letters 40(11), 1808-1811 (2019). [doi: 10.1109/LED.2019.2945089]

Sanchez del Rio, M., Celestre, R., Glass, M., Pirro, G., Reyes-Herrera, J., Barret, R., da Silva, J. C., Cloetens, P., Shi, X., Rebuffi, L., “A hierarchical approach for modelling X-ray beamlines. Application to a coherent beamline”, Journal of Synchrotron Radiation 26(6), 1887-1901 (2019). [doi: 10.1107/S160057751901213X] [preprint at arXiv: 1906.07100]

da Silva, J. C., Guilloud, C., Hignette, O., Jarnias, C., Ponchut, P., Ruat, M., Labiche, J.-C., Pacureanu, A., Yang, Y., Salome, M., Bohic, S., Cloetens, P., “Overcoming the challenges of high-energy X-ray ptychography”, Journal of Synchrotron Radiation 26, 1751-1762 (2019). [doi: 10.1107/S1600577519006301] 

Yang, Y., Fus, F., Pacureanu, A., da Silva, J. C., De Nolf, W., Biot, C., Bohic, S., Cloetens, P., “Three-dimensional correlative imaging of a malaria-infected cell with a hard X-ray nanoprobe”, Analytical Chemistry 91(10) 6549-6554(2019). [doi: 10.1021/acs.analchem.8b05957] 

Fus, F., Yang, Y., Lee, H. Z. S., Top, S., Carriere, M., Bouron, A., Pacureanu, A., da Silva, J. C., Salmain, M., Vessiere, A., Cloetens, P., Jaouen, G., Bohic, S., “Intracellular Localization of an Osmocenyl‐Tamoxifen Derivative in Breast Cancer Cells Revealed by Synchrotron Radiation X‐ray Fluorescence Nanoimaging”, Angewandte Chemie 131(11), 3499-3503 (2019). [dois: 10.1002/anie.201812336 and 10.1002/ange.201812336]

Villar, F., Andre, L., Baker, R., Bohic, S., da Silva, J. C., Guilloud, C., Hignette, O., Meyer, J., Pacureanu, A., Perez, M., Salome, M., van der Linden, P., Yang, Y., Cloetens, P., “Nanopositioning for the ESRF ID16A Nano-Imaging Beamline”, Synchrotron Radiation News 31(5), 9-14 (2018). [doi:10.1080/08940886.2018.1506234]

Fraczkiewicz, A., Lorut, F., Audoit, G., Boller, E., Capria, E., Cloetens, P., da Silva, J. C., Farcy, A., Mourier, T., Ponthenier, F., Bleuet, P., “3D high resolution imaging for microelectronics: a multi-technique survey on copper pillars”, Ultramiscroscopy 193, 71-83 (2018). [doi: 10.1016/j.ultramic.2018.04.012]

da Silva, J. C., Guizar-Sicairos, M., Holler, M., Diaz, A., van Bokhoven, J., Bunk, O., Menzel, A., “Quantitative region-of-interest tomography using variable field of view”, Optics Express, 26(13),  16752-16768 (2018). [doi: 10.1364/OE.26.016752]

Hubert, M., Pacureanu, A., Guilloud, C., Yang, Y., da Silva, J. C., Laurencin, J., Lefebvre-Joud, F., Cloetens, P., “Efficient correction of wavefront inhomogeneities in X-ray holographic nanotomography by random sample displacement”, Applied Physics Letters, 112, 203704 (2018). [doi: 10.1063/1.5026462]

Haubrich, J., Löbbecke, M., Watermeyer, P., Wilde, F., Requena, G., da Silva, J. C., “Buried interfaces - a systematic study to characterize an adhesive interface at multiple scales”, Applied Surface Science, 433, 546-555 (2018). [doi: 10.1016/j.apsusc.2017.10.015] 

Tannert, R., Schwan, M., Rege, A., Eggeler, M., da Silva, J. C., Bartsch, M., Milow, B., Itskov, M., Ratke, L., “The three-dimensional structure of flexible resorcinol-formaldehyde aerogels investigated by means of holotomography”, Journal of Sol-Gel Science and Technology 84, 391-399 (2017). [doi: 10.1007/s10971-017- 4363-6] 

Ihli, J., Jacob, R. R., Holler, M., Guizar-Sicairos, M., Diaz, A., da Silva, J. C., Ferreira Sanchez, D., Krumeich, F., Grolimund, D., Taddei, M., Cheng W.-C., Shu, Y., Menzel, A., van Bokhoven, J. A., “A Three Dimensional View of Structural Changes caused by deactivation of Fluid Catalytic Cracking Catalysts”, Nature Communications 8, 809 (2017). [doi: 10.1038/s41467-017-00789-w] 

Favre-Nicolin, V., Chushkin, Y., Cloetens, P., da Silva, J. C., Ruta, B., Zontone, F., “Dynamics and Imaging Using Coherent X-rays at the European Synchrotron”, Synchrotron Radiation News 30(5), 13-18 (2017). [doi: 10.1080/08940886.2017.1364528] (featured in the cover). 

da Silva, J. C., Pacureanu, A., Yang, Y., Bohic, S., Morawe, C., Barrett, R., Cloetens, P., “Efficient concentration of high-energy x-rays for diffraction-limited imaging resolution”, Optica 4(5), 492-495 (2017). [doi: 10.1364/OPTICA.4.000492] 

Barriobero-Vila, P., Gussone, J., Haubrich, J., Sandlöbes, S., da Silva, J. C., Cloetens, P., Schell, N., Requena, G., “Inducing stable α+β microstructures during selective laser melting of Ti-6Al-4V by intensified intrinsic heat treatments”. Materials 10, 268, (2017). [doi: 10.3390/ma10030268] 

 Cuesta, A., De la Torre, A., Santacruz, I., Trtik, P., da Silva, J. C., Diaz, A., Holler, M., Aranda, M. A. G. , “Chemistry and Mass Density of Aluminum Hydroxide Gel in Eco-Cements by Ptychographic X-ray Computed Tomography”. The Journal of Physical Chemistry C 121, 3044-3054 (2017). [doi: 10.1021/acs.jpcc.6b10048] 

Hubert, M., Laurencin, J., Cloetens, P., da Silva, J. C., Lefebvre-Joud, F., Bleuet, P., Nakajo, A., Siebert, E., “Role of microstructure on electrode operating mechanisms for mixed ionic electronic conductors : From synchrotron-based 3D reconstruction to electrochemical modeling”, Solid State Ionics 294, 90-107 (2016). [doi: 10.1016/j.ssi.2016.07.001] 

da Silva, J. C., Menzel, A., “Elementary signals in ptychography”, Optics Express 23, 33812-33821 (2015). [doi: 10.1364/OE.23.033812] 

da Silva, J. C., Mader, K., Holler, M., Haberthür, D., Diaz, A., Guizar-Sicairos, M., Cheng, W-.C., Shu, Y., Raabe, J., Menzel, A., van Bokhoven, J. A., “Assessment of the 3D pore structure and individual components of preshaped catalyst bodies by X-ray imaging”, ChemCatChem 7, 413-416 (2015). [doi: 10.1002/cctc.201402925] 

da Silva, J. C., Trtik, P., Diaz, A., Holler, M., Guizar-Sicairos, M., Raabe, J., Bunk, O., Menzel, A., “Mass density and water content of saturated never-dried calcium silicate hydrates”, Langmuir 31, 3779-3783 (2015). [doi: 10.1021/la504478j] 

Alborghetti, M. R., Furlan, A. S., da Silva, J. C., Sforça, M. L., Honorato, R. V., Granato, D. C., Migueleti, D. L. S., Neves, J. L., Oliveira, P. S. L., Paes-Leme, A. F., Zeri, A. C. M., Torriani, I. L., Kobarg, J., “Structural Analysis of Intermolecular Interactions in the Kinesin Adaptor Complex Fasciculation and Elongation Protein Zeta 1 / Short Coiled-Coil Protein (FEZ1/SCOCO)”, PLoS ONE 8(10), e76602 (2013). [doi: 10.1371/journal.pone.0076602] 

Gendre, C., Genty, M., da Silva, J. C., Tfayli, A., Boiret, M., Lecoq, O., Baron, M., Chaminade, P., Péan, J. M., “Comprehensive study of dynamic curing effect on tablet coating structure”, European Journal of Pharmaceutics and Biopharmaceutics 81, 657-665 (2012). [doi: 10.1016/j.ejpb.2012.04.006] 

Santos, A. M., Schechtman, D., Cardoso, A. C., Clemente, C. F. M. Z., da Silva, J. C., Fioramonte, M., Pereira, M. B. M., Marin, T. M., Oliveira, P. S. L., Figueira, A. C. M., Oliveira, S. H., Torriani, I. L., Gozzo, F. C., Xavier-Neto, J., Franchini, K. G., “FERM domain interaction with myosin negatively regulates FAK in cardiomyocyte hypertrophy”, Nature Chemical Biology 8, 102-110 (2012). [doi: 10.1038/nchembio.717] 

da Silva, J. C., Borges, J. C., Cyr, D. M., Ramos, C. H. I., Torriani, I. L., Kobarg, J., “Central domain deletions affect the SAXS solution structure and function of Yeast Hsp40 proteins Sis1 and Ydj1”, BMC Structural Biology 11, 40 (2011). [doi: 10.1186/1472-6807-11-40] 

Meirelles, G. V., da Silva, J. C., Mendonça, Y. A., Ramos, C. H. I., Torriani, I. L., Kobarg, J., “Human Nek6 is a monomeric mostly globular kinase with an unfolded short N-terminal domain”, BMC Structural Biology 11, 12-24 (2011). [doi: 10.1186/1472-6807-11-12] 

Meirelles, G. V., Lanza, D. C. F., da Silva, J. C., Bernachi, J. S., Leme, A. F. P., Kobarg, J., “Characterization of hNek6 Interactome Reveals an Important Role for Its Short N-terminal Domain and Colocalization with Proteins at the Centrosome”, Journal of Proteome Research 9, 6298-6316 (2010). [doi: 10.1021/pr100562w] 

Alborghetti, M. R., Furlan, A. S., da Silva, J. C., Leme, A. P., Torriani, I. L., Kobarg, J., “The human FEZ1 protein forms a disulfide bond mediated dimer : implications for cargo transport”, Journal of Proteome Research 9, 4595-4603 (2010). [doi: 10.1021/pr100314q] 

Gonçalves, K. A., Borges J. C., da Silva, J. C., Papa, P. F., Bressan, G. C., Torriani I. L., Kobarg, J., “Solution structure of the human signaling protein RACK1”, BMC Structural Biology 10, 15-26 (2010). [doi: 10.1186/1472- 6807-10-15] 

da Silva, J. C., Plivelic, T. S., Herrera, M. L., Rucheinsky, N., Kieckbusch, T. G., Luccas, V., Torriani, I. L., “Polymorphic phases of natural fat from Cupuassu (Theobroma grandiflorum) beans : a WAXS/SAXS/DSC study”, Crystal Growth & Design 9(12), 5155-5163 (2009). [doi: 10.1021/cg901081j] 

Trindade, D. M, da Silva, J. C., Navarro, M. S., Torriani, I. C. L., Kobarg, J., “Low-resolution structural studies of human Stanniocalcin-1”, BMC Structural Biology 9, 57-68 (2009). [doi: 10.1186/1472-6807-9-57] 

Lanza, D. C. F., da Silva, J. C., Assmann, E. M., Quaresma, A. J. C., Bressan, G. C., Torriani, I. L., Kobarg, J., “Human FEZ1 has characteristics of a natively unfolded protein and dimerizes in solution”, Proteins 74, 104-121 (2009). [doi: 10.1002/prot.22135] 

Sousa, S. M., Rosselli, L. K., Kiyota, E., da Silva, J. C., Souza, G. H. M. F., Peroni, L. A., Stach-Machado, D. R., Eberlin, M. N., Souza, A. P., Koch, K. E., Arruda, P., Torriani, I. L., Yunes, J. A, “Structural and kinetic characterization of a maize aldose reductase”, Plant Physiology and Biochemistry 47, 98-104 (2009). [doi: 10.1016/j.plaphy.2008.10.009] 

Bressan, G. C., da Silva, J. C., Borges, J. C., Passos, D. O., Ramos, C. H. I., Torriani, I. L., Kobarg, J., “Human Regulatory Protein Ki-1/57 Has Characteristics of an Intrinsically Unstructured Protein”, Journal of Proteome Research 7, 4465-4474 (2008). [doi: 10.1021/pr8005342] 

Oliveira, C. L. P., de la Hoz, L., da Silva, J. C., Torriani, I. L., Netto, F. M., “Effects of gamma radiation on Beta- lactoglobulin : Oligomerization and aggregation”, Biopolymers, 85, 284-294 (2007). [doi: 10.1002/bip.20610] 

Requena, G., Barriobero-Villa, P., Bugelnig, K., Haubrich, J., Gussone, J., Hecht, U., Sket, F., da Silva, J. C., Villanova, J., “High Resolution 3D and 4D Characterization of Microstructure Formation in Novel Ti Alloys for Additive Manufacturing”, Microscopy and Microanalysis 25(S2), 384-385 (2019). [doi: 10.1017/S1431927619002654] 

Fus, F., Yang, Y., Lee, H. Z. S., Top, S., Carriere, M., Bouron, A., Pacureanu, A., da Silva, J. C., Salmain, M., Vessiere, A., Cloetens, P., Jaouen, G., Bohic, S., “Synchrotron Radiation X-Ray Fluorescence Nanoimaging Reveal the Intracellular Localization of Potent Anticancer Drug Osmocenyl-Tamoxifen Derivative”, Microscopy and Microanalysis 24(S2), 350-351 (2018). [doi: 10.1017/S1431927618014034] 

Yang, Y., Bohic, S., Fus, F., Pacureanu, A., da Silva, J. C., Salome, M., Cloetens, P., “Quantitative Nano-imaging of Cells with a High Energy X-ray Cryo Nano-probe”, Microscopy and Microanalysis 24(S2), 402-403 (2018). [doi: 10.1017/S1431927618014290]  

Pacureanu, A., da Silva, J. C., Yang, Y., Bohic, S., Cloetens, P., "Nanoscale three-dimensional imaging of biological tissue with x-ray holographic tomography". Proc. SPIE 10711, Biomedical Imaging and Sensing Conference, 107112B, Event: SPIE Structured Light, Yokohama, Japan (2018). [doi: 10.1117/12.2319477] 

 Fraczkiewicz, A., Moreau, S., Mourier, T., Bleuet, P., Autran, P.-O., Capria, E., Cloetens, P., da Silva, J. C., Lhostis, S., Lorut, F., "Making synchrotron tomography a routine tool for 3D integration failure analysis through a limited number of projections, an adapted sample preparation scheme, and a fully-automated post-processing". Proceedings from the 43rd International Symposium For Testing and Failure Analysis (ISTFA), Pasadena, CA, pp. 14-18 (2017). [doi: 10.31399/asm.cp.istfa2017p0014] 

da Silva, J. C., Pacureanu, A., Yang, Y., Fus, F., Hubert, M., Bloch, L., Salome, M., Bohic, S., Cloetens, P., “High-energy cryo x-ray nano-imaging at the ID16A beamline of ESRF”. Proc. SPIE 10389, X-Ray Nanoimaging : Instruments and Methods III, 103890F (2017). [doi: 10.1117/12.2275739] 

da Silva, J. C., Haubrich, J., Requena, G., Hubert, M., Pacureanu, A., Bloch, L., Yang, Y., Cloetens, P., “High energy near-and far-field ptychographic tomography at the ESRF”. Proc. SPIE 10391, Developments in X-Ray Tomography XI, 1039106 (2017). [doi: 10.1117/12.2272971] 

Cuesta, A., de la Torre, A. G., Santacruz, I., Trtik, P., da Silva, J. C., Diaz, A., Holler, M., Aranda, M. A. G., “In situ hydration imaging study of a ye’elemite paste by ptychographic X-ray computed tomography”, Proceedings of the 39th International Conference on Cement Microscopy (ICMA), Toronto, Canada, pp. 17-32 (2017). 

Fraczkiewicz, A., Jouve, A., Mourier, T., Bleuet, P., Capria, E., Cloetens, P., da Silva, J. C., Lhostis, S., Lorut, F., “High resolution x-ray computed tomography : What synchrotron sources can bring to 3Di devices failure analysis”, Proceedings from the 42nd International Symposium for Testing and Failure Analysis (ISTFA), Forth Worth, Texas, USA, ASM International, pp. 1-6 (2016). 

Müter, D., Sørensen, H. O., Dalby, K. N., Guizar-Sicairos, M., Holler, M., da Silva, J. C., Stipp, S. L. S., “Nanoscale mechanical characterization of chalk using X-ray ptychographic imaging”, Proceedings of the 6th International Conference on Nanostructures (ICNS6), Kish Islan, Iran, pp. 1-3 (2016). 

Guizar-Sicairos, M., Holler, M., Diaz, A., da Silva, J. C., Tsai, E. H. R., Bunk, O., Martinez-Perez, C., Donoghue, Wellman, C. H., Menzel. A.,“Ptychographic X-ray nanotomography at the Swiss Light Source”, Proc. SPIE 9592, X-Ray Nanoimaging : Instruments and Methods II, 98920A (2015). [doi: 10.1117/12.2188313] 

Dalby, K. N., Sorensen, H. O., Mueter, D., Jha, D., da Silva, J. C., Stipp, S. L. S., “From oil field to ptychography : applications of FIB SEM in NanoGeoScience”, Microscopy and Microanalysis 20, 316-317 (2014). [doi: 10.1017/S1431927612003304]