IEAP - Institute of Experimental and Applied Physics

Partial tasks > X-ray absorption and phase sensitive radiography and tomography

X-ray absorption and phase sensitive radiography and tomography

Usage of pixel detectors of Medipix family for

X-ray absorption and phase sensitive radiography and tomography with submicron spatial resolution and high contrast,
Development of methods for image data processing.

Developed methodology is applied in the field of:

Biological imaging
Archaeology a paleontology
Material science

Responsible person

Jakůbek Jan

IEAP

Co-workers

Vavřík Daniel	IEAP
Dammer Jiří	IEAP
Krejčí Frantíšek	IEAP
Jandejsek Ivan	IEAP
Žemlička Jan	IEAP

Grants:

Number	Name	Agency
LC06041	Research center "Fabrication, modification and characterization of materials by energetic radiation"	MŠMT
1P04LA211	Collaboration Czech Republic with CERN	MŠMT
MSM 6840770040	Research Program 40: Usage of radionuclides and ionizing radiation.	MŠMT

Articles in Impacted Journals
(34)

Articles in Conference Proceedings
(31)

Thesis
(5)

Other publications
(6)

All
(76)

Table format

J. Dudák, J. Žemlička, F. Krejčí, J. Karch, M. Patzelt, P. Zach, V. Sykora, . , "Evaluation of sample holders designed for long-lasting X-ray micro-tomographic scans of ex-vivo soft tissue samples", Journal of Instrumentation (2016)

J. Dudák, J. Žemlička, J. Karch, M. Patzelt, J. Mrzílková, P. Zach, Z. Heřmanová, J. Kvacek, F. Krejčí, "High-contrast X-ray micro-radiography and micro-CT of ex-vivo soft tissue murine organs utilizing ethanol fixation and large area photon-counting detector ", Scientific reports 6, 30385 (2016)

J. Karch, B. Bartl, J. Dudák, J. Žemlička, F. Krejčí, "Non-destructive imaging of framents of historical beeswax seals using high-contrast X-ray micro-radiography and micro-tomography with large area photon-counting detector array", Micron (accepted) (2016)

J. Bulantova, T. Machacek, L. Panska, F. Krejčí, J. Karch, N. Jähring, S. Saghafi, H. Dodt, P. Horak, "Trichobilharzia regenti (Schistosomatidae): 3D imaging techniques in characterization of larval migration through the CNS of vertebrates", Micron (2016)

M. Slavíková, F. Krejčí, P. Kotlík, J. Jakůbek, I. Tomandl, J. Vacík, "Neutron and high-contrast X-ray micro-radiography as complementary tools for monitoring organosilicon consolidants in natural building stones", Nucl. Instr. Methods B: Beam Interactions with Materials and Atoms 338, 42-47 (2014)

F. Krejčí, "X-Ray Phase Contrast Imaging with Hybrid Semiconductor Pixel Detectors", Ph.D. Thesis, Faculty of Biomedical Engineering, CTU in Prague (2014)

M. Safavi-Naeini, Z. Han, D. Cutajar, S. Guatelli, M. Petasecca, M. Lerch, D. Franklin, J. Jakůbek, S. Pospíšil, J. Bucci, M. Zaider, A. Rosenfeld, "BrachyView, A novel inbody imaging system for HDR prostate brachytherapy: Design and Monte Carlo feasibility study", MEDICAL PHYSICS, Volume 40, Issue 7, Article Number: 071715 DOI: 10.1118/1.4808360 (2013)

M. Petasecca, K. Loo, M. Safavi-Naeini, Z. Han, P. Metcalfe, S. Meikle, S. Pospíšil, J. Jakůbek, J. Bucci, M. Zaider, M. Lerch, Y. Qi, A. Rosenfeld, "BrachyView: Proof-of-principle of a novel in-body gamma camera for low dose-rate prostate brachytherapy", MEDICAL PHYSICS, Volume: 40, Issue: 4, Article Number: 041709, DOI: 10.1118/1.4794487 (2013)

O. Jiroušek, D. Kytýř, T. Doktor, F. Krejčí, "Displacement tracking in single human trabecula with metal-plated micro-spheres using X-ray radiography imaging", Journal of Instrumentation 8 C02041 (2013)

V. Sýkora, J. Žemlička, F. Krejčí, J. Jakůbek, "X-ray micro-radiography and microscopy of seeds", Science 339 (6119), 511 (2013)

F. Krejčí, J. Jakůbek, M. Slavíková, P. Kotlík, "Application of High-resolution X-Ray Radiography for Monitoring the Penetration Depth of Consolidants in Natural Building Stones ", Engineering Mechanics Conference proceedings, Svratka, Czech Rep., Paper #312, pp. 733–739 (2012)

F. Krejčí, M. Kroupa, J. Jakůbek, P. Brůža, D. Pánek, "Detection of Soft X-rays with the Pixel Detector Timepix operated as a highly sensitive Dark-Current free CCD-like Camera ", 2011 IEEE Nuclear Science Symposium Conference Record, NP5.S-166, 1708 - 1712 (2012)

J. Žemlička, J. Jakůbek, F. Krejčí, D. Hradil, J. Hradilová, H. Mislerová, "Mobile system for in-situ imaging of cultural objects", Journal of Instrumentation 7 C01108 (2012)

F. Krejčí, J. Jakůbek, M. Kroupa, P. Brůža, D. Pánek, "Pixel detector Timepix operated in pile-up mode for pulsed imaging with ultra-soft X-rays", Journal of Instrumentation 7 C12013 (2012)

M. Slavíková, F. Krejčí, J. Žemlička, M. Pech, P. Kotlík, J. Jakůbek, "X-ray Radiography and Tomography for Monitoring the Penetration Depth of Consolidants in Opuka - the Building stone of Prague Monuments ", Journal of Cultural Heritage 13 (4), 357-364 (2012)

J. Jakůbek, "Absorption and Phase X-ray Imaging Using Reflected Beam", NIM A, 633-1, S172-S174, doi:10.1016/j.nima.2010.06.158 (2011)

M. Kroupa, J. Jakůbek, "High Contrast Laminography Using Iterative Algorithms", JINST 6 C01045, doi: 10.1088/1748-0221/6/01/C01045 (2011)

I. Jandejsek, P. Soukup, J. Jakůbek, "Image processing for X-ray transmission radiography with 3D voxel detector", JINST 6 C12061 doi:10.1088/1748-0221/6/12/C12061 (2011)

J. Dammer, F. Weyda, J. Benes, V. Sopko, J. Jakůbek, V. Vondracek, "Microradiography of biological samples with Timepix", JINST 6 C11005 doi:10.1088/1748-0221/6/11/C11005 (2011)

D. Tureček, T. Holý, J. Jakůbek, S. Pospíšil, Z. Vykydal, "Pixelman: a multi-platform data acquisition and processing software package for Medipix2, Timepix and Medipix3 detectors ", Journal of Instrumentation 6 C01046, doi: 10.1088/1748-0221/6/01/C01046 (2011)

D. Vavřík, J. Dammer, J. Jakůbek, I. Jeon, O. Jiroušek, M. Kroupa, P. Zlámal, "Radiography in Engineering Practice", Nucl. Instr. Methods A, Vol. 633, Suppl. 1, p. S152-S155, doi:10.1016/j.nima.2010.06.152 (2011)

F. Krejčí, J. Jakůbek, M. Kroupa, "Single grating method for low dose 1-D and 2-D phase contrast X-ray imaging", Journal of Instrumentation 6 C01073 (2011)

J. Dammer, F. Weyda, V. Sopko, J. Jakůbek, "The use of contrast agent for imaging biological samples", JINST 6 C01096, doi: 10.1088/1748-0221/6/01/C01096 (2011)

M. Weaver, J. Green, M. Petasecca, M. Lerch, D. Cutajar, D. Franklin, J. Jakůbek, M. Carolan, M. Conway, S. Pospíšil, T. Kron, P. Metcalfe, M. Zaider, A. Rosenfeld, "Three-dimensional dosimetry imaging of I-125 plaque for eye cancer treatment", Nucl. Instr. Methods A, Vol. 633, Suppl. 1, p. S276-S278, doi:10.1016/j.nima.2010.06.187 (2011)

F. Krejčí, J. Jakůbek, M. Kroupa, "X-ray Phase Contrast Imaging Using Single Absorption Coded Aperture", Nucl. Instr. Methods A 633, Suppl. 1, 181 - 184 (2011)

J. Uher, J. Jakůbek, S. Mayo, A. Stevenson, J. Tickner, "X-ray beam hardening based material recognition in micro-imaging", JINST 6 P08015 doi:10.1088/1748-0221/6/08/P08015 (2011)

P. Vrba, M. Vrbová, P. Brůža, D. Pánek, F. Krejčí, M. Kroupa, J. Jakůbek, "XUV radiation from gaseous nitrogen and argon target laser plasmas ", Journal of Physics: Conference Series (2011)

F. Krejčí, J. Jakůbek, M. Kroupa, " Hard x-ray phase contrast imaging using single absorption grating and hybrid semiconductor pixel detector", Rev. Sci. Instrum. 81, 113702 (2010)

F. Krejčí, J. Jakůbek, M. Kroupa, "Low dose X-ray phase contrast imaging sensitive to phase effects in 2-D ", IEEE NSS/MIC/RTSD Knoxville Conf. Record M09-166, doi: 10.1109/NSSMIC.2010.5874172

F. Krejčí, J. Jakůbek, M. Kroupa, "New approach in phase contrast X-ray imaging using coded aperture", 11th ICATPP Conference, Villa Olmo - Como (Italy), 5-9 October 2009, ISBN 10 981-4307-51-2, pp. 59 – 63 (2010)

O. Jiroušek, P. Zlámal, D. Kytýř, M. Kroupa, "Strain analysis of trabecular bone using time-resolved X-ray microtomography", NIM A (accepted) (2010)

P. Frallicciardi, J. Jakůbek, D. Vavřík, "Comparison of Single Photon Counting and Charge-Integrating Detectors for X-ray High Resolution Imaging of Small Biological Objects", NIM A, Vol. 607, Issue 1, p. 221-222 (2009)

F. Krejčí, J. Jakůbek, J. Dammer, D. Vavřík, "Enhancement of spatial resolution of roentgenographic methods", Nucl. Instr. Methods A 607, Issue 1, 208-211 (2009)

Z. Vykydal, J. Jakůbek, M. Svestkova, "Micro-Probe for Medical Radiation Imaging Based on Medipix2 Detector", 2009 IEEE Nuclear Science Symposium Conference Record, Pages: 2795-2797, doi: 10.1109/NSSMIC.2009.5401659

D. Vavřík, J. Jakůbek, "Radiogram enhancement and linearization using the beam hardening correction method", NIM A, Vol. 607, Issue 1, p. 212-214 (2009)

J. Jakůbek, "Semiconductor Pixel Detectors and their Applications in Life Sciences", 2009 JINST 4 P03013 doi:10.1088/1748-0221/4/03/P03013

V. Tichy, L. Švéda, J. Maršík, J. Jakůbek, V. Semencová, L. Pína, R. Hudec, M. Hromčík, "Capabilities of Medipix2 and Timepix Devices as Detectors for Lobster Eye X-Ray Optics", ICSO 2008 Conf. Proc.

J. Jakůbek, J. Dammer, T. Holý, M. Platkevič, J. Uher, Z. Vykydal, "Digital radiography with pixel detectors of Medipix family", Československý Časopis pro Fyziku, 1/2008, 25-36

J. Jakůbek, "Energy sensitive micro-radiography and micro-tomography of biological samples allowing tissue type recognition with semiconductor pixel detectors of Medipix family", EPSM ABEC 2008, Conference handbook, ISBN 0 8582 5872 2, (p. 265)

F. Krejčí, J. Jakůbek, M. Kroupa, J. Dammer, D. Vavřík, "Enhancement of Spatial Resolution of Roentgenographic Methods Using Deconvolution", IEEE NSS/MIC Conf. Proc. (2008) M06-315

F. Krejčí, J. Jakůbek, "Enhancement of spatial resolution of roentgenographic methods", Proceedings Workshop CTU Prague Vol. 12 (2008). FYZ 026

F. Krejčí, "Enhancement of spatial resolution of roentgenographic methods", MSc. Thesis, Faculty of Nuclear Sciences and Physical Engineering, CTU in Prague (2008)

J. Jakůbek, "Imaging of small objects in different light (skill to see invisible)", Vesmír 87, p 437 (2008)

D. Vavřík, J. Jakůbek, "Material Analysis Using Characteristic Transmission Spectra", IEEE NSS/MIC Conf. Proc. (2008), N30-320

F. Minarik, "Microimaging of biological objects (Supervisor: J. Jakubek)", Master Thesis, FBMI CTU Prague (2008)

D. Vavřík, T. Holý, J. Jakůbek, M. Jakůbek, J. Valach, "Microradiographic measurement of copper distribution in duralumin sample", Československý Časopis pro Fyziku, 1/2008, 58-61

D. Vavřík, J. Jakůbek, M. Jakůbek, T. Holý, "Microradiography in material science", Československý Časopis pro Fyziku, 1/2008, 53-57

J. Dammer, J. Jakůbek, D. Vavřík, "Microradiography of biological samples", Československý Časopis pro Fyziku, 1/2008, 50-52

P. Skrabal, "Processes in biological microimaging (Supervisor: J. Jakubek) in progress", Master Thesis, Charles U. Prague (2008)

J. Dammer, J. Jakůbek, R. Hanus, F. Weyda, D. Vavřík, "Real-time in-vivo imaging of small organisms", ICATPP congf. proceedings, p. 640-644 (2008)

J. Jakůbek, J. Dammer, C. Granja, T. Holý, S. Pospíšil, J. Uher, "Compact system for high resolution X-ray transmission radiography, in-line phase enhanced imaging and micro CT of biological samples", IEEE NSS IEEE NSS Conf. Proc. 4179187 (2007) 1077-1080

J. Jakůbek, "Data processing and image reconstruction methods for pixel detectors", NIM A 576 (2007) 223-234, doi:10.1016/j.nima.2007.01.157

J. Dammer, T. Holý, J. Jakůbek, M. Jakůbek, S. Pospíšil, D. Vavřík, "In-vivo real-time X-ray µ-imaging", AIP Vol. 958 (2007), pp 139

J. Jakůbek, A. Cejnarová, J. Dammer, T. Holý, M. Platkevič, S. Pospíšil, D. Vavřík, Z. Vykydal, "Microradiography with Semiconductor Pixel Detectors", Amer. Inst. of Physics (AIP) Conf. Proc., Volume: 958, Pages: 131-135, doi: 10.1063/1.2825764 (2007)

J. Jakůbek, C. Granja, J. Dammer, R. Tykva, R. Hanus, J. Uher, Z. Vykydal, "Phase contrast enhanced high resolution X-ray imaging and tomography of soft tissue", Nucl. Instr. and Meth. A, Volume: 571, Issue: 1-2, Pages: 69-72, doi: 10.1016/j.nima.2006.10.031 (2007)

D. Vavřík, J. Dammer, T. Holý, J. Jakůbek, M. Jakůbek, I. Jandejsek, "Radiography of Chaotically Moving Objects", AIP Vol. 958 (2007) 139-142

R. Hanus, J. Dammer, T. Holý, J. Jakůbek, S. Pospíšil, R. Tykva, "Small-scale in vivo imaging of soft tissues by radioscopy using single X-ray photon counting", Journal of Microscopy 226 (2007) 191–194

J. Jakůbek, J. Dammer, T. Holý, M. Jakůbek, S. Pospíšil, V. Tichy, J. Uher, D. Vavřík, "Spectrometric Properties of TimePix Pixel Detector for X-ray Color and Phase Sensitive Radiography", IEEE NSS Conf. Proc. (2007) N50-6

T. Holý, J. Jakůbek, S. Pospíšil, J. Uher, D. Vavřík, Z. Vykydal, "Data acquisition and processing software package for Medipix-2 device", Nucl. Instr. and Meth. A, Volume: 563, Issue:1, Pages: 254-258, doi: 10.1016/j.nima.2006.01.122

D. Vavřík, T. Holý, J. Jakůbek, S. Pospíšil, Z. Vykydal, J. Dammer, "Direct thickness calibration: way to radiographic study of soft tissues", 9th ICATPP 2005 Conf. Proc., Pages: 773-778, doi: 10.1142/9789812773678_0122 (2006)

J. Jakůbek, D. Vavřík, T. Holý, M. Jakůbek, Z. Vykydal, "Experimental system for high resolution X-ray transmission radiography", Nucl. Instr. and Meth. A, Volume: 563, Issue 1, Pages: 278-281, doi: 10.1016/j.nima.2006.01.033

D. Vavřík, T. Holý, J. Jakůbek, M. Jakůbek, Z. Vykydal, "Microradiographic Observation of Material Damage Structure", 2006 IEEE Nuclear Science Symposium Conference Record, Pages: 1081-1083, doi: 10.1109/NSSMIC.2006.356034

R. Tykva, R. Hanus, J. Jakůbek, Z. Wimmer, V. Vlasáková, "Normalized model system for the study of termite management", XVIII World Congress IMEKO (2006)

D. Vavřík, T. Holý, J. Jakůbek, M. Jakůbek, J. Bryscejn, V. Tichy, Z. Vykydal, J. Valach, "Radiographic Observation of Damage Zone Evolution in High Ductile Specimen", European Conference of Fracture, Pages: 323-328, ISBN 1-4020-4971-4 (2006)

"Application of the Imaging Detector Medipix2 in X-ray Mammography (Supervisor: J. Jakubek)", Master Thesis, Charles U. Prague (2005)

D. Vavřík, T. Holý, J. Jakůbek, S. Pospíšil, Z. Vykydal, J. Dammer, "X-ray Micro Radiography Using Beam Hardening Correction", 2005 IEEE Nuclear Science Symposium Conference Record, Pages: 2989-2992 , doi: 10.1109/NSSMIC.2005.1596959

D. Vavřík, J. Jakůbek, S. Pospíšil, J. Visschers, J. Zemánková, "Non-destructive Observation of Damage Processes in precracked specimens by X-Ray Dynamic Defectoscopy", Annals of the Marie Curie fellowships-Vol.3, pp. 69-75, ISBN 92 92 894 7233¬2 (2004)

D. Vavřík, J. Jakůbek, S. Pospíšil, J. Visschers, "Non-destructive observation of damage processes by X-ray dynamic defectoscopy", International Conference on the Mechanical Behaviour of Materials, Conf. Proc. (2003)