Juan Felipe Pérez-Juste Abascal, Ph.D.

Contributions by year

​

Juan F P J Abascal, but in the past I have also signed as J F Perez-Juste Abascal and J Abascal

​

​

Bloc publications

​

2023

• J Abascal, Exploratory image analysis — Part 2 : Embeddings on TensorBoard, Medium, Link

​​

• J Abascal, Exploratory image analysis — Part 1 : Advanced density plots, Medium. Link

​​

• J Abascal, Talking ChatBot: From chatting to talking to any source of data, Medium. Link

​​

• J Abascal, Chat to any source of data with LangChain and OpenAI, Medium. Link

​

​Peer-reviewed publications 

​

2023

• C Garcelon. et al. Quantification of cartilage and subchondral bone cysts on knee specimens based on a spectral photon-counting computed tomography. Scientific Reports 13 (1), 11080, (2022). PDF

​

2022

• Chappard, C., Abascal, J., Olivier, C. et al. Virtual monoenergetic images from photon-counting spectral computed tomography to assess knee osteoarthritis. Eur Radiol Exp 6, 10 (2022). PDF ​​

​

2021

• V Pronina, AL Mur, JFPJ Abascal, F Peyrin, DV Dylov, N Ducros. 3D denoised completion network for deep single-pixel reconstruction of hyperspectral images, Optics Express 29 (24), 39559-39573, 2021. (PDF)

​​

​

2020

• JFPJ Abascal, N Ducros, et al.. Material Decomposition in Spectral CT using deep learning: A Sim2Real transfer approach, IEEE Access, 2020 ⟨PDF⟩

 

• JFPJ Abascal, S Bussod, N Ducros, S Si-Mohamed, C Chappard, P Douek, F Peyrin. A residual U-Net network with image prior for 3D image denoising, 2020, (preprint PDF)

​​​​​

2019

• G Landry, F Dörringer, S Si-Mohamed, P Douek, JFPJ Abascal, F Peyrin, IP Almeida, F Verhaegen, I Rinaldi, K Parodi, S Rit. Technical Note: Relative proton stopping power estimation from virtual monoenergetic images reconstructed from dual-layer computed tomography. Med Phys, 46(4): 1821-1828, 2019. DOI: 10.1002/mp.13404

​

​

2018

• JFPJ Abascal, N Ducros, F Peyrin. Nonlinear material decomposition using a regularized iterative scheme based on the Bregman distance, Inv Probl 34 124003, 2018. DOI: 10.1088/1361-6420/aae1e7 PDF.   

​

2017​​

• JFPJ Abascal, Manuel Desco and J Parra-Roble. Incorporation of prior knowledge of the signal behavior into the reconstruction to accelerate the acquisition of MR diffusion data. IEEE Trans Med Imaging, 2017. DOI: 10.1109/TMI.2017.2765281. (MATLAB code)​ PDF 

​​

• N Ducros, JFPJ Abascal, B Sixou, S Rit, F Peyrin. Regularization of Nonlinear Decomposition of Spectral X-ray Projection Images. Med Phys, 44(9):e174-e187, 2017. DOI: 10.1002/mp.12283 (MATLAB code: SPRAY Toolbox) PDF

​

• K  C Assi, E Gay, C Chnafa, S Mendez, F Nicoud, JFPJ Abascal, P Lantelme, F Tournoux, and D Garcia. Intraventricular vector flow mapping - A Doppler-based regularized problem with automatic model selection. Phys Med Biol 62(17):7131-7147, 2017. DOI: 10.1088/1361-6560/aa7fe7 PDF

​

2016

• J F P J Abascal, M Abella, E Marinetto, J Pascau, and M Desco. A Novel Prior- and Motion-Based Compressed Sensing Method for Small-Animal Respiratory Gated CT.  PLOS ONE 9;11(3):e0149841, 2016.  DOI: 10.1371/journal.pone.0149841. (MATLAB Code) PDF

 

• F Li , JFPJ Abascal, M Desco, M Soleimani .Total variation regularization with split Bregman-based method in magnetic induction tomography using experimental data. IEEE Sensors Journal , 17(4),: 976 - 985, 2017. DOI: 10.1109/JSEN.2016.263741. PDF 

​

2015

• C Chavarrias, JFPJ Abascal, P Montesinos, M Desco. Exploitation of temporal redundancy in compressed sensing reconstruction of fMRI studies with a prior-based algorithm (PICCS), Med Phys, 42(7): 3814 , 2015. DOI: 10.1118/1.4921365  (MATLAB code) PDF

​

• J F P J Abascal, M Abella, A Sisniega, J J Vaquero, and M Desco. Investigation of different sparsity transforms for the PICCS algorithm in small-animal respiratory gated CT.  PLOS ONE 10(4): e0120140, 2015.  DOI: 10.1371/journal.pone.0120140. (Data) (MATLAB code) PDF

 

2014

• J F P J Abascal, P Montesinos, E Marinetto, J Pascau, M Desco. Comparison of total variation with a motion estimation based compressed sensing approach for self-gated cardiac cine MRI in small animal studies. PLOS ONE 9(10): e110594, 2014. DOI: 10.1371/journal.pone.0110594 (MATLAB code) PDF 

​

2013

• P Montesinos, J F P J Abascal, L Cussó, J J Vaquero, M Desco. Application of the compressed sensing technique to self-gated cardiac cine sequences in small animals. Magn Reson Med., 72(2): 369–380, 2013. DOI: 10.1002/mrm.24936 (MATLAB code) PDF

 

• J Chamorro-Servent, J F P J Abascal, J Aguirre, S Arridge, T Correia, J Ripoll, M Desco, J J Vaquero. Use of Split Bregman denoising for iterative reconstruction in fluorescence diffuse optical tomography. J Biomed Opt, 18(7):076016, 2013. DOI: http://dx.doi.org/10.1117/1.JBO.18.7.076016. (MATLAB code) PDF 

 

2012

• JF P-J Abascal, J Aguirre, J Chamorro-Servent, M Schweiger, S Arridge, J Ripoll, JJ Vaquero, M Desco. Influence of Absorption and Scattering on the Quantification of Fluorescence Diffuse Optical Tomography using Normalized Data. J Biomed Opt, 17(3): 036013-1 - 036013-9, 2012. DOI: http://dx.doi.org/10.1117/1.JBO.17.3.036013. PDF

 

2011

• Abascal JF, Chamorro-Servent J, Aguirre J, Arridge S, Correia T, Ripoll J, Vaquero JJ, Desco M. Fluorescence diffuse optical tomography using the split Bregman method. Med Phys. 38(11):6275-84, 2011. (Selected paper by the American Physical Society and the American Institute of Physics, http://www.vjbio.org). DOI: 10.1118/1.3656063. (MATLAB code available from https://github.com/HGGM-LIM/Efficient-ART-Split-Bregman-Reconstruction) PDF 

​

• Teresa Correia, Juan Aguirre, Alejandro Sisniega, Judit Chamorro-Servent, Juan Abascal, Juan J. Vaquero, Manuel Desco, Ville Kolehmainen, and Simon Arridge. Split operator method for fluorescence diffuse optical tomography using anisotropic diffusion regularisation with prior anatomical information. Biomedical Optics Express 2(9), 2632-2648, 2011. DOI: 10.1364/BOE.2.002632. PDF

 

• Juan-Felipe P J Abascal, William R B Lionheart, Simon R Arridge, Martin Schweiger, David Atkinson and David S Holder. Electrical impedance tomography in anisotropic media with known eigenvectors. Inverse Problems 27, 65004, 2011. DOI: 10.1088/0266-5611/27/6/065004 PDF 

​

2008

• Juan-Felipe P.J. Abascal, Simon R. Arridge, David Atkinson, Raya Horesh, Lorenzo Fabrizi, Marzia De Lucia, Lior Horesh, Richard H. Bayford, David S. Holder. Use of anisotropic modelling in electrical impedance tomography; Description of method and preliminary assessment of utility in imaging brain function in the adult head. NeuroImage 43 (2), 258-268, 2008. DOI: 10.1016/j.neuroimage.2008.07.023 PDF

 

• Abascal, J.F.P.J.; Lambert, M.; Lesselier, D.; Dorn, O. 3D Eddy-Current imaging of metal tubes by gradient-based, controlled evolution of level sets. IEEE Transactions on Magnetics 44 (12), 4721-4729 , 2008. DOI: 10.1109/TMAG.2008.2004265 PDF

 

• Juan-Felipe P J Abascal, Simon R Arridge, Richard H Bayford and David S Holder. Comparison of methods for optimal choice of the regularization parameter for linear electrical impedance tomography of brain function. Physiol. Meas. 29, 1319-1334, 2008. DOI: 10.1088/0967-3334/29/11/007 PDF 

 

2007

• Abascal JF, Arridge SR, Lionheart WR, Bayford RH, Holder DS. Validation of a finite-element solution for electrical impedance tomography in an anisotropic medium. Physiol. Meas. 28, S129-S140, 2007. (Selected paper by IOP.) DOI: 10.1088/0967-3334/28/7/S10 PDF

​

2006

• L Fabrizi, M Sparkes, L Horesh, J F Perez-Juste Abascal, A McEwan, R H Bayford, R Elwes, C D Binnie and D S Holder. Factors limiting the application of electrical impedance tomography for identification of regional conductivity changes using scalp electrodes during epileptic seizures in humans. Physiol. Meas., 27, S163-S174, 2006. DOI: http://dx.doi.org/10.1088/0967-3334/27/5/S14

​

​

Conference proceedings and abstracts

​

2020

​​​

• ​JFPJ Abascal, N Ducros, V Pronina, S Bussod, P Douek, S Arridge, A Hauptmann, F Peyrin. Material decomposition in spectral CT using deep learning. IEEE Internat Sympos Biomed Imaging (ISBI), Iowa, US, 2020. Abstract PDF (Conf Record)

​​

• JFPJ Abascal, N Ducros, V Pronina, S Bussod, P Douek, S Arridge, A Hauptmann, F Peyrin. Nonlinear material decomposition in spectral CT using deep learning. Applied Inverse Problems conference, Grenoble, 2019

​​

2019

• JFPJ Abascal, N Ducros, S Arridge, A Hauptmann, S Bussod, F Peyrin. Nonlinear material decomposition in spectral CT using deep learning. Applied Inverse Problems conference, Grenoble, 2019

​

• JFPJ Abascal, S. Si-Mohamed, P Douek, C Chappard, F Peyrin. A sparse and prior based method for 3D image denoising, European Signal Processing Conference (EUSIPCO 2019) Preprint PDF

​​

• S BUSSOD, JFPJ Abascal, N Ducros, C Olivier, S Si-Mohamed, P Douek, C CHAPPARD, F Peyrin. Human Knee Phantom for Spectral CT: Validation of a Material Decomposition Algorithm. IEEE 16th International Symposium on Biomedical Imaging (ISBI), 2019

​​

• C Chappard, JFPJ Abascal, S Bussod, S Uk, S S. Si-Mohamed, P Douek, F Peyrin2. Feasibility of photon counting spectral CT to assess knee cartilage. Quantitative Musculoskeletal Imaging (QMSKI), 2019

​

2018

• C. Goubet, M. Langer, F. Peyrin, J. F. P. J. Abascal. LOW-DOSE SYNCHROTRON NANO-CT VIA COMPRESSED SENSING. Proc in ISBI, 2018. PDF. 

​

​

2017

• JFPJ Abascal, M Abella, C Mory, N Ducros, C de Molina, E Marinetto, F Peyrin, M Desco. Sparse reconstruction methods in x-ray CT. Proc in  SPIE Optical Engineering + Applications - Developments in X-Ray Tomography XI (2017), San Diego, US.  http://dx.doi.org/10.1117/12.2272711. PDF

​

• JFPJ Abascal, N Ducros, S Rit, F Peyrin. Nonlinear material decomposition using a regularized iterative scheme based on the Bregman distance. IMA Conference on Inverse Problems from Theory to Application, Cambridge, UK, 2017

​

• JFPJ Abascal, N Ducros, S Rit, B Sixou, F Peyrin. Nonlinear material decomposition for X-ray spectral CT imaging using a Bregman Iterative approach. Recherche en Imagerie et Technologies pour la Santé (RITS) 2017, Mar 2017, Lyon, France

​

• N Ducros, O Pivot, S Rit, JM Létang, JFPJ Abascal, Y Boursier, M Dupont, C Morel, F Peyrin. Imagerie X spectrale: Décomposition en base de matériaux par calibration polynomiale. Recherche en Imagerie et Technologies pour la Santé (RITS) 2017, Mar 2017, Lyon, France

​

2016

• JFPJ Abascal, E Lage, JL Herraiz, ME Martino, M Desco, and JJ Vaquero. Dynamic PET Reconstruction using the split Bregman formulation. IEEE Nuclear Science Symposium and Medical Imaging Conference (2016 NSS/MIC), 2016

​

• JFPJ Abascal, J Parra, M Desco. Incorporation of prior knowledge of the signal behavior into the compressed sensing framework for accelerated acquisition in hyperpolarized gas diffusion MRI. Proceedings of ISMRM 2016

 

• C de Molina, JFPJ Abascal, M Desco, M Abella. Study of the possibilities of Surface-Constrained Compressed Sensing (SCCS) Method for Limited-View Tomography in CBCT systems. Proceedings of 4th International Conference on Image Formation in X-Ray Computed Tomography, 2016 

 

2015

• E Marinetto, JFPJ Abascal, JM Mateos, M Desco, J Pascau. Initial Evaluation of a New Line-Based Approach For Image-To-World Registration In Image-Guided Interventions, Computer Assisted Radiology and Surgery (CARS 2015) Barcelona, Spain. (Abstract, Oral presentation)

 

2014

• J F P J Abascal, E Lage, M E Martino, J L Herraiz, M Desco, J J Vaquero. Spatiotemporal Total Variation reconstruction for Dynamic PET. IEEE Nuclear Science Symposium and Medical Imaging Conference (2014 NSS/MIC), 2014. PDF

 

• M Abella, J F P J Abascal, E Marinetto, J J Vaquero, M Desco. Novel 4D Image Reconstruction for Dynamic X-Ray Computed Tomography in Slow Rotating Scanners. IEEE Nuclear Science Symposium and Medical Imaging Conference (2014 NSS/MIC), 2014. DOI: 10.1109/NSSMIC.2014.7430935 

​

• C de Molina, J F P J Abascal, J Pascau, M Desco, M Abella. Evaluation of the Possibilities of Limited Angle Reconstruction for the use of Digital Radiography System as a Tomograph. IEEE Nuclear Science Symposium and Medical Imaging Conference (2014 NSS/MIC), 2014. DOI: 10.1109/NSSMIC.2014.7430937

 

2013

• JFPJ Abascal, P Montesinos, E Marinetto, J Pascau, JJ Vaquero, M Desco. A Prior-Based Image Variation (PRIVA) Approach Applied to Motion-Based Compressed Sensing Cardiac Cine MRI. XIII Mediterranean Conference on Medical and Biological Engineering and Computing 2013, IFMBE Proceedings: 233-236, 2014. DOI: http://dx.doi.org/10.1007/978-3-319-00846-2_58. PDF 

 

• P Montesinos, JFPJ Abascal, C Chavarrías, JJ Vaquero, M Desco. Compressed Sensing for Cardiac MRI Cine Sequences: A Real Implementation on a Small-Animal Scanner. XIII Mediterranean Conference on Medical and Biological Engineering and Computing 2013, IFMBE Proceedings: 214-217, 2014. DOI: http://dx.doi.org/10.1007/978-3-319-00846-2_53. PDF 

 

• C Chavarrias, JFPJ Abascal, P Montesinos, M Desco. How Does Compressed Sensing Affect Activation Maps in Rat fMRI? XIII Mediterranean Conference on Medical and Biological Engineering and Computing 2013, IFMBE Proceedings: 202-205, 2014. DOI: http://dx.doi.org/10.1007/978-3-319-00846-2_50. 

 

• A Sisniega, J Abascal, M Abella, J Chamorro, M Desco, JJ Vaquero. Iterative Dual-Energy Material Decomposition for Slow kVp Switching: A Compressed Sensing Approach. XIII Mediterranean Conference on Medical and Biological Engineering and Computing 2013, IFMBE Proceedings: 491-494, 2014. DOI: http://dx.doi.org/10.1007/978-3-319-00846-2_122. 

 

• J Chamorro-Servent, JFPJ Abascal, J Ripoll, JJ Vaquero, M Desco. Split Bregman-Singular Value Analysis Approach to Solve the Compressed Sensing Problem of Fluorescence Diffuse Optical Tomography. XIII Mediterranean Conference on Medical and Biological Engineering and Computing 2013, IFMBE Proceedings: 415-418, 2014. DOI: http://dx.doi.org/10.1007/978-3-319-00846-2_103. 

 

2012

• Juan Abascal, Alejandro Sisniega, Cristina Chavarrías, Juan José Vaquero, Manuel Desco, and Mónica Abella. Investigation of Different Compressed Sensing Approaches for Respiratory Gating in Small Animal CT. IEEE Nuclear Science Symposium and Medical Imaging Conference, M17-17, Anaheim, California, 2012. DOI: http://dx.doi.org/10.1109/NSSMIC.2012.6551761.

 

• A. Sisniega, J. F. Abascal, M. Abella, M. Desco, J. J. Vaquero. Iterative Dual-Energy Raw Data Decomposition for Slow kVp Switching: a Feasibility Study. IEEE Nuclear Science Symposium and Medical Imaging Conference, M18-77, Anaheim, California, 2012. 

 

2011

• P Montesinos, JF Pérez-Juste Abascal, J Chamorro, C Chavarrías, M Benito, JJ Vaquero, M Desco. High-Resolution Dynamic Cardiac MRI on Small Animals Using Reconstruction Based on Split Bregman Methodology. Abstract book of the IEEE Nuclear Science Symposium and Medical Imaging Conference, 349, 2011. DOI: http://dx.doi.org/10.1109/NSSMIC.2011.6152633

 

• J Chamorro, JF Abascal, J Aguirre, S Arridge, T Correia, J Ripoll, M Desco, JJ Vaquero. ART with Split Bregman Denoising: a Reconstruction Method for Fluorescence Diffuse Optical Tomography. Abstract book of the IEEE Nuclear Science Symposium and Medical Imaging Conference, 268, 2011.

 

• P Montesinos, JF Pérez-Juste Abascal, J Chamorro, C Chavarrías, M Benito, JJ Vaquero, M Desco. Uso del método de Split Bregman para la resolución del problema de compressed sensing en imagen de resonancia magnética dinámica cardiaca para pequeño animal. Libro de actas del XXIX Congreso Anual de la Sociedad Española de Ingeniería Biomédica (CASEIB), 453-456, 2011.

 

• J Chamorro-Servent, JF P-J Abascal, J Aguirre, J Vaquero, M Desco. Reconstrucción de Tomografía Óptica Difusiva por Fluorescencia usando Compressed Sensing Split Bregman. Resúmenes del XXIX Congreso Anual de la Sociedad Española de Ingeniería Biomédica (CASEIB), 58, 2011.

 

2010

• J Aguirre, J Chamorro-Servent, J Abascal, J Ripoll, M Desco, JJ Vaquero. Imaging features of an FDOT system with optimized ART parameters. Proceedings del XXVIII Congreso Anual de la Sociedad Española de Ingeniería Biomédica (CASEIB), s.p., 2010.

 

• J Chamorro-Servent, J Abascal, J Aguirre, SR Arridge, J Ripoll, JJ Vaquero, M Desco. Optimización del diseño experimental FDOT de órganos de animal pequeño a través del análisis de valores singulares. Proceedings del XXVIII Congreso Anual de la Sociedad Española de Ingeniería Biomédica (CASEIB), s.p., 2010.

 

2009

• J.F. Abascal, M. Lambert, D. Lesselier, O. Dorn. Nonlinearized mapping of volumetric defects affecting a metal tube. Electromagnetic Non--Destructive Evaluation (XII), Y.-K. Shin and H.-B. Lee and S.-J. Song (Ed.), 172—179 Seoul, Korea, 2009. (ISBN: 978-1-60750-023-0). DOI: http://dx.doi.org/10.3233/978-1-60750-023-0-172

 

2008

 

• Juan-Felipe P.J. Abascal, Simon R. Arridge, William R.B. Lionheart, Richard H. Bayford and David S. Holder. Validation of a finite element solution for electrical impedance tomography in an anisotropic medium. 13th International Conference on Electrical Bioimpedance and the 8th Conference on Electrical Impedance Tomography, IFMBE Proceedings, 17, 372, 2008. (Springer ISBN 9783540738404). DOI: http://dx.doi.org/10.1007/978-3-540-73841-1_97

 

2005

• JFPJ Abascal, S Arridge, R Bayfordc, D Holder. Selecting the regularisation parameter for linear  Electrical Impedance Tomography of brain function. Applied Inverse Problems 2005, Cirencester, UK

​

• J F P J Abascal, S Arridge, D Holder, R Bayford. Selecting the regularisation parameter for linear Electrical Impedance Tomography of brain function. Conference on Biomedical Applications of Electrical Impedance Tomography, University College London, June 22 – 24th, 2005.

 

• L Fabrizi, M Sparkes, J F Perez Juste-Abascal, L Horesh, D Holder. EIT during epileptic seizures: not an easy task, Conference on Biomedical Applications of Electrical Impedance Tomography, University College London, June 22 – 24th, 2005.

 

• A Romsauerova, R Yerworth, A McEwan, L Horesh, JFPJ Abascal, DS Holder. Calibration and preliminary human measurements for multifrequency EIT of the human head. Calibration and preliminary human measurements for multifrequency EIT of the human head. VI International Conference on Biomedical Applications of Electrical Impedance Tomography, London, UK, 2005 

 

2004

• J F P J Abascal and William R.B. Lionheart. Rank analysis of the anisotropic inverse conductivity problem. Conference on Electrical Bioimpedance and Electrical Impedance Tomography, Gdansk, Poland, 20-24 June 2004. PDF 

 

• M. Soleimani, Juan Felipe P. J. Abascal and William R.B. Lionheart. Simultaneous reconstruction of the boundary shape and conductivity in 3D electrical impedance tomography. Conference on Electrical Bioimpedance and Electrical Impedance Tomography, Gdansk, Poland, 20-24 June 2004. 

 

Book chapters  

• L. Fabrizi, L. Horesh, J. F. Perez-Juste Abascal, A. McEwan, O. Gilad, R. Bayford and D. S. Holder (2011). Determination of Optimal Parameters and Feasibility for Imaging of Epileptic Seizures by Electrical Impedance Tomography: A Modelling Study Using a Realistic Finite Element Model of the Head, Applied Biomedical Engineering, Dr. Gaetano Gargiulo (Ed.), ISBN: 978-953-307-256-2. DOI: http://dx.doi.org/10.5772/25015

 

Theses

• J F P J Abascal. Improvements in reconstruction algorithms for electrical Impedance Tomography of brain function. Ph.D. thesis, Dept. of Medical Physics and Bioengineering, University College London, UK, 2007. PDF

 

• Juan Felipe Pérez-Juste Abascal. The anisotropic inverse conductivity problem. MSc Thesis, Dept. of Mathematics, The University of Manchester, UK, 2003.