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We perform a parametric study of the newly developed time-of-flight (TOF) image reconstruction algorithm, proposed for the real-time imaging in total-body Jagiellonian PET (J-PET) scanners. The asymmetric 3D filtering kernel is applied at each most likely position of electron-positron annihilation, estimated from the emissions of back-to-back $\gamma$-photons. The optimisation of its parameters is studied using Monte Carlo simulations of a 1-mm spherical source, NEMA IEC and XCAT phantoms inside the ideal J-PET scanner. The combination of high-pass filters which included the TOF filtered back-projection (FBP), resulted in spatial resolution, 1.5 $\times$ higher in the axial direction than for the conventional 3D FBP. For realistic $10$-minute scans of NEMA IEC and XCAT, which require a trade-off between the noise and spatial resolution, the need for Gaussian TOF kernel components, coupled with median post-filtering, is demonstrated. The best sets of 3D filter parameters were obtained by the Nelder-Mead minimisation of the mean squared error between the resulting and reference images. The approach allows training the reconstruction algorithm for custom scans, using the IEC phantom, when the temporal resolution is below 50 ps. The image quality parameters, estimated for the best outcomes, were systematically better than for the non-TOF FBP.

Research conducted in the framework of the J-PET project aims to develop a cost-effective total-body positron emission tomography scanner. As a first step on the way to construct a full-scale J-PET tomograph from long strips of plastic scintillators, a 24-strip prototype was built and tested. The prototype consists of detection modules arranged axially forming a cylindrical diagnostic chamber with the inner diameter of 360 mm and the axial field-of-view of 300 mm. Promising perspectives for a low-cost construction of a total-body PET scanner are opened due to an axial arrangement of strips of plastic scintillators, wchich have a small light attenuation, superior timing properties, and the possibility of cost-effective increase of the axial field-of-view. The presented prototype comprises dedicated solely digital front-end electronic circuits and a triggerless data acquisition system which required development of new calibration methods including time, thresholds and gain synchronization. The system and elaborated calibration methods including first results of the 24-module J-PET prototype are presented and discussed. The achieved coincidence resolving time equals to CRT = 490 $\pm$ 9 ps. This value can be translated to the position reconstruction accuracy $\sigma(\Delta l) =$ 18 mm which is fairly position-independent., Comment: Accepted for publication in IEEE Transactions on Instrumentation and Measurement

The J-PET tomograph is constructed from plastic scintillator strips arranged axially in concentric cylindrical layers. It enables investigations of positronium decays by measurement of the time, position, polarization and energy deposited by photons in the scintillators, in contrast to studies conducted so far with crystal and semiconductor based detection systems where the key selection of events is based on the measurement of the photons energies. In this article we show that the J-PET tomograph system is capable of exclusive measurements of the decays of ortho-positronium atoms. We present the first positronium production results, its lifetime distribution measurements and discuss estimation of the influence of various background sources. The tomograph s performance demonstrated here makes it suitable for precision studies of positronium decays including entanglement of the final state photons, positron annihilation lifetime spectroscopy plus molecular imaging diagnostics., Comment: 12 pages, 7 figures

In this article, a new method for the reconstruction of hit-position and hit-time of photons in long scintillator detectors is investigated. This research is motivated by the recent development of the positron emission tomography scanners based on plastic scintillators. The proposed method constitutes a new way of signal processing in Multi-Voltage-Technique. It is based on the determination of the degree of similarity between the registered signals and the synchronized model signals stored in a library. The library was established for a set of well defined hit-positions along the length of the scintillator. The Mahalanobis distance was used as a measure of similarity between the two compared signals. The method was validated on the experimental data measured using two-strips J-PET prototype with dimensions of 5x9x300 mm$^3$. The obtained Time-of-Flight (TOF) and spatial resolutions amount to 325~ps (FWHM) and 25~mm (FWHM), respectively. The TOF resolution was also compared to the results of an analogous study done using Linear Fitting method. The best TOF resolution was obtained with this method at four pre-defined threshold levels which was comparable to the resolution achieved from the Mahalanobis distance at two pre-defined threshold levels. Although the algorithm of Linear Fitting method is much simpler to apply than the Mahalanobis method, the application of the Mahalanobis distance requires a lower number of applied threshold levels and, hence, decreases the costs of electronics used in PET scanner.

Time-Over-Threshold (TOT) technique is being used widely due to its implications in developing the multi channel readouts mainly when fast signal processing is required. Using TOT technique as a measure of energy loss instead of charge integration methods significantly reduces the signals readout cost by combining the time and energy information. Therefore, this approach can potentially be used in J-PET tomograph which is build from plastic scintillators characterized by fast light signals. The drawback in adopting this technique is lying in the non-linear correlation between input energy loss and TOT of the signal. The main motivation behind this work is to develop the relationship between TOT and energy loss and validate it with the J-PET tomograph. The experiment was performed using the $^{22}$Na beta emitter source placed in the center of the J-PET tomograph. One can obtain primary photons of two different energies: 511 keV photon from the annihilation of positron (direct annihilation or through the formation of para-Positronim atom or pick-off process of ortho-Positronium atoms), and 1275 keV prompt photon. This allows to study the correlation between TOT values and energy loss for energy range up to 1000 keV. As the photon interacts dominantly via Compton scattering inside the plastic scintillator, there is no direct information of primary photon energy. However, using the J-PET geometry one can measure the scattering angle of the interacting photon. Since, $^{22}$Na source emits photons of two different energies, it is required to know unambiguously the energy of incident photons and its corresponding scattering angle for the estimation of energy deposition. In this work, the relationship between Time Over Threshold and energy loss by interacting photons inside the plastic scintillators used in J-PET scanner is established for a energy deposited range 100-1000 keV

In living organisms the positron-electron annihilation (occurring during the PET imaging) proceeds in about 30% via creation of a metastable ortho-positronium atom. In the tissue, due to the pick-off and conversion processes, over 98% of ortho-positronia annihilate into two 511~keV photons. In this article we assess the feasibility for reconstruction of the mean ortho-positronium lifetime image based on annihilations into two photons. The main objectives of this work include: (i) estimation of the sensitivity of the total-body PET scanners for the ortho-positronium mean lifetime imaging using $2\gamma$ annihilations, and (ii) estimation of the spatial and time resolution of the ortho-positronium image as a function of the coincidence resolving time (CRT) of the scanner. Simulations are conducted assuming that radiopharmaceutical is labelled with $^{44}Sc$ isotope emitting one positron and one prompt gamma. The image is reconstructed on the basis of triple coincidence events. The ortho-positronium lifetime spectrum is determined for each voxel of the image. Calculations were performed for cases of total-body detectors build of (i) LYSO scintillators as used in the EXPLORER PET, and (ii) plastic scintillators as anticipated for the cost-effective total-body J-PET scanner. To assess the spatial and time resolution the three cases were considered assuming that CRT is equal to 140ps, 50ps and 10ps. The estimated total-body PET sensitivity for the registration and selection of image forming triple coincidences is larger by a factor of 12.2 (for LYSO PET) and by factor of 4.7 (for plastic PET) with respect to the sensitivity for the standard $2\gamma$ imaging by LYSO PET scanners with AFOV=20cm.

In this paper we present Monte Carlo N-Particle (MCNP) simulations of the system for underwater threat detection using neutron activation analysis developed in the SABAT project. The simulated system is based on a D-T neutron generator emitting 14~MeV neutrons without associated $\alpha$ particle detection and equipped with a LaBr$_3$:Ce scintillation detector offering superior energy resolution and allowing for precise identification of activation $\gamma$ quanta. The performed simulations show that using the neutron activation analysis method with the designed geometry we are able to identify $\gamma$-rays from hydrogen, carbon, sulphur and chlorine originating from mustard gas in a sea water environment. Our results show that the most efficient way of mustard gas detection is to compare the integral peak ratio for Cl and H., Comment: 14 pages, 5 figures

J-PET is the first positron-emission tomograph (PET) constructed from plastic scintillators. It was optimized for the detection of photons from electron-positron annihilation. Such photons, having an energy of 511 keV, interact with electrons in plastic scintillators predominantly via the Compton effect. Compton scattering is at most probable at an angle orthogonal to the electric field vector of the interacting photon. Thus registration of multiple photon scatterings with J-PET enables to determine the polarization of the annihilation photons. In this contribution we present estimates on the physical limitation in the accuracy of the polarization determination of $511$~keV photons with the J-PET detector., Comment: Submitted to Hyperfine Interactions

J-PET is a detector optimized for registration of photons from the electron-positron annihilation via plastic scintillators where photons interact predominantly via Compton scattering. Registration of both primary and scattered photons enables to determinate the linear polarization of the primary photon on the event by event basis with a certain probability. Here we present quantitative results on the feasibility of such polarization measurements of photons from the decay of positronium with the J-PET and explore the physical limitations for the resolution of the polarization determination of 511 keV photons via Compton scattering. For scattering angles of about 82 deg (where the best contrast for polarization measurement is theoretically predicted) we find that the single event resolution for the determination of the polarization is about 40 deg (predominantly due to properties of the Compton effect). However, for samples larger than ten thousand events the J-PET is capable of determining relative average polarization of these photons with the precision of about few degrees. The obtained results open new perspectives for studies of various physics phenomena such as quantum entanglement and tests of discrete symmetries in decays of positronium and extend the energy range of polarization measurements by five orders of magnitude beyond the optical wavelength regime., Comment: 10 pages, 14 figures, submitted to EPJ C

The Jagiellonian Positron Emission Tomograph (J-PET) is the first PET device built from plastic scintillators. It is a multi-purpose detector designed for medical imaging and for studies of properties of positronium atoms in porous matter and in living organisms. In this article we report on the commissioning of the J-PET detector in view of studies of positronium decays. We present results of analysis of the positron lifetime measured in the porous polymer. The obtained results prove that J-PET is capable of performing simultaneous imaging of the density distribution of annihilation points as well as positron annihilation lifetime spectroscopy., Comment: 5 pages, 2 figures

The Jagiellonian Positron Emission Tomograph (J-PET) is a novel de- vice being developed at Jagiellonian University in Krakow, Poland based on or- ganic scintillators. J-PET is an axially symmetric and high acceptance scanner that can be used as a multi-purpose detector system. It is well suited to pur- sue tests of discrete symmetries in decays of positronium in addition to medical imaging. J-PET enables the measurement of both momenta and the polarization vectors of annihilation photons. The latter is a unique feature of the J-PET detector which allows the study of time reversal symmetry violation operator which can be constructed solely from the annihilation photons momenta before and after the scattering in the detector.

A novel approach to tomographic data processing has been developed and evaluated using the Jagiellonian PET (J-PET) scanner as an example. We propose a system in which there is no need for powerful, local to the scanner processing facility, capable to reconstruct images on the fly. Instead we introduce a Field Programmable Gate Array (FPGA) System-on-Chip (SoC) platform connected directly to data streams coming from the scanner, which can perform event building, filtering, coincidence search and Region-Of-Response (ROR) reconstruction by the programmable logic and visualization by the integrated processors. The platform significantly reduces data volume converting raw data to a list-mode representation, while generating visualization on the fly., Comment: IEEE Transactions on Medical Imaging, 17 May 2018

A detection system of the conventional PET tomograph is set-up to record data from e+ e- annihilation into two photons with energy of 511 keV, and it gives information on the density distribution of a radiopharmaceutical in the body of the object. In this paper we explore the possibility of performing the three gamma photons imaging based on ortho-positronium annihilation, as well as the possibility of positronium mean lifetime imaging with the J-PET tomograph constructed from plastic scintillators. For this purposes simulations of the ortho-positronium formation and its annihilation into three photons were performed taking into account distributions of photons' momenta as predicted by the theory of quantum electrodynamics and the response of the J-PET tomograph. In order to test the proposed ortho-positronium lifetime image reconstruction method, we concentrate on the decay of the ortho-positronium into three photons and applications of radiopharmaceuticals labeled with isotopes emitting a prompt gamma quantum. The proposed method of imaging is based on the determination of hit-times and hit-positions of registered photons which enables the reconstruction of the time and position of the annihilation point as well as the lifetime of the ortho-positronium on an event-by-event basis. We have simulated the production of the positronium in a cylindrical phantom composed of a set of different materials in which the ortho-positronium lifetime varied from 2.0 ns to 3.0 ns, as expected for ortho-positronium created in the human body. The presented reconstruction method for total-body J-PET like detector allows to achieve a mean lifetime resolution of about 40 ps. Recent Positron Annihilation Lifetime Spectroscopy measurements of cancerous and healthy uterine tissues show that this sensitivity may allow to study the morphological changes in cell structures., Comment: accepted in PMB (http://iopscience.iop.org/article/10.1088/1361-6560/aafe20)

This article reports on the feasibility of testing of the symmetry under reversal in time in a purely leptonic system constituted by positronium atoms using the J-PET detector. The present state of T symmetry tests is discussed with an emphasis on the scarcely explored sector of leptonic systems. Two possible strategies of searching for manifestations of T violation in non-vanishing angular correlations of final state observables in the decays of metastable triplet states of positronium available with J-PET are proposed and discussed. Results of a pilot measurement with J-PET and assessment of its performance in reconstruction of three-photon decays are shown along with an analysis of its impact on the sensitivity of the detector for the determination of T -violation sensitive observables., Comment: 15 pages, 9 figures. Submitted to Advances in High Energy Physics

The possibility to separate signals caused by 511 keV photons created in annihilation of electron-positron pairs and the so-called prompt photons from nuclei de- excitation is investigated. It could potentially be used to improve the quality of reconstructed images in the J-PET scanner in 2+1 photon tomography. Firstly, a research is conducted for several radioisotopes that decay via \b{eta}+ decay followed by de-excitation of an excited nucleus. Efficiency, purity and false positive rate are calculated for each isotope as a function of energy deposited threshold, with a hypothesis that signals caused by 511 keV photons deposit smaller values of energy than 1 z 13the selected threshold, while prompt photons deposit larger energy than the threshold. Analysis of the results accompanied with physical properties of radioisotopes suggests using 44 Sc, which is the most promising candidate for medical applications. With the use of GATE and J-POS simulation software, in-phantom scattering was introduced and the best energy deposited threshold value was estimated to be approximately 375 keV. It corresponds to almost 100% efficiency for 511 keV signals, 75% purity for 511 keV photons, and approximately 70% efficiency and purity for prompt photons., Comment: 13 pages, 11 figures, 2 tables, proceedings from "Young Scientists" conferences in Warsaw, Poland, 2017

Samples of uterine leiomyomatis and normal tissues taken from patients after surgery were investigated using the Positron Annihilation Lifetime Spectroscopy (PALS). Significant differences in all PALS parameters between normal and diseased tissues were observed. For all studied patients, it was found that the values of the free annihilation and ortho-positronium lifetime are larger for the tumorous tissues than for the healthy ones. For most of the patients, the intensity of the free annihilation and ortho-positronium annihilation was smaller for the tumorous than for the healthy tissues. For the first time, in this kind of studies, the $3\gamma$ fraction of positron annihilation was determined to describe changes in the tissue porosity during morphologic alteration., Comment: Presented at the 2nd Jagiellonian Symposium on Fundamental and Applied Subatomic Physics, Krak\'ow, Poland, June 4-9, 2017

In this paper we extend the state-of-the-art filtered backprojection (FBP) method with application of the concept of Total Variation regularization. We compare the performance of the new algorithm with the most common form of regularizing in the FBP image reconstruction via apodizing functions. The methods are validated in terms of cross-correlation coefficient between reconstructed and real image of radioactive tracer distribution using standard Derenzo-type phantom. We demonstrate that the proposed approach results in higher cross-correlation values with respect to the standard FBP method., Comment: Presented at the 2nd Jagiellonian Symposium on Fundamental and Applied Subatomic Physics, Krak\'ow, Poland, June 4-9, 2017. To be published in Acta Phys. Pol. B

The Jagiellonian Positron Emission Tomograph (J-PET) is the first PET built from plastic scintillators. J-PET prototype consists of 192 detection modules arranged axially in three layers forming a cylindrical diagnostic chamber with the inner diameter of 85 cm and the axial field-of-view of 50 cm. An axial arrangement of long strips of plastic scintillators, their small light attenuation, superior timing properties, and relative ease of the increase of the axial field-of-view opens promising perspectives for the cost effective construction of the whole-body PET scanner, as well as construction of MR and CT compatible PET inserts. Present status of the development of the J-PET tomograph will be presented and discussed., Comment: Presented at the 2nd Jagiellonian Symposium on Fundamental and Applied Subatomic Physics, Krak\'ow, Poland, June 4-9, 2017. To be published in Acta Phys. Pol. B

The Jagiellonian Positron Emission Tomograph (J-PET) is a detector for medical imaging of the whole human body as well as for physics studies involving detection of electron-positron annihilation into photons. J-PET has high angular and time resolution and allows for measurement of spin of the positronium and the momenta and polarization vectors of annihilation quanta. In this article, we present the potential of the J-PET system for background rejection in the decays of positronium atoms., Comment: Presented at the 2nd Jagiellonian Symposium on Fundamental and Applied Subatomic Physics, Krak\'ow, Poland, June 4-9, 2017. To be published in Acta Phys. Pol. B

We present a method and preliminary results of the image reconstruction in the Jagiellonian PET tomograph. Using GATE (Geant4 Application for Tomographic Emission), interactions of the 511 keV photons with a cylindrical detector were generated. Pairs of such photons, flying back-to-back, originate from e+e- annihilations inside a 1-mm spherical source. Spatial and temporal coordinates of hits were smeared using experimental resolutions of the detector. We incorporated the algorithm of the 3D Filtered Back Projection, implemented in the STIR and TomoPy software packages, which differ in approximation methods. Consistent results for the Point Spread Functions of ~5/7,mm and ~9/20, mm were obtained, using STIR, for transverse and longitudinal directions, respectively, with no time of flight information included., Comment: Presented at the 2nd Jagiellonian Symposium on Fundamental and Applied Subatomic Physics, Krak\'ow, Poland, June 4-9, 2017. To be published in Acta Phys. Pol. B

Positron Annihilation Lifetime Spectroscopy (PALS) has shown to be a powerful tool to study the nanostructures of porous materials. Positron Emissions Tomography (PET) are devices allowing imaging of metabolic processes e.g. in human bodies. A newly developed device, the J-PET (Jagiellonian PET), will allow PALS in addition to imaging, thus combining both analyses providing new methods for physics and medicine. In this contribution we present a computer program that is compatible with the J-PET software. We compare its performance with the standard program LT 9.0 by using PALS data from hexane measurements at different temperatures. Our program is based on an iterative procedure, and our fits prove that it performs as good as LT 9.0., Comment: 4 figures, 8 pages

The Jagiellonian Positron Emission Tomograph (J-PET) project carried out in the Institute of Physics of the Jagiellonian University is focused on construction and tests of the first prototype of PET scanner for medical diagnostic which allows for the simultaneous 3D imaging of the whole human body using organic scintillators. The J-PET prototype consists of 192 scintillator strips forming three cylindrical layers which are optimized for the detection of photons from the electron-positron annihilation with high time- and high angular-resolutions. In this article we present time calibration and synchronization of the whole J-PET detection system by irradiating each single detection module with a 22Na source and a small detector providing common reference time for synchronization of all the modules., Comment: Accepted to publish in Acta Phys. Pol. A

In this article it is presented an FPGA based $M$ulti-$V$oltage $T$hreshold (MVT) system which allows of sampling fast signals ($1-2$ ns rising and falling edge) in both voltage and time domain. It is possible to achieve a precision of time measurement of $20$ ps RMS and reconstruct charge of signals, using a simple approach, with deviation from real value smaller than 10$\%$. Utilization of the differential inputs of an FPGA chip as comparators together with an implementation of a TDC inside an FPGA allowed us to achieve a compact multi-channel system characterized by low power consumption and low production costs. This paper describes realization and functioning of the system comprising 192-channel TDC board and a four mezzanine cards which split incoming signals and discriminate them. The boards have been used to validate a newly developed Time-of-Flight Positron Emission Tomography system based on plastic scintillators. The achieved full system time resolution of $\sigma$(TOF) $\approx 68$ ps is by factor of two better with respect to the current TOF-PET systems., Comment: Accepted for publication in JINST, 10 pages, 8 figures

In this paper we estimate the time resolution of the J-PET scanner built from plastic scintillators. We incorporate the method of signal processing using the Tikhonov regularization framework and the Kernel Density Estimation method. We obtain simple, closed-form analytical formulas for time resolutions. The proposed method is validated using signals registered by means of the single detection unit of the J-PET tomograph built out from 30 cm long plastic scintillator strip. It is shown that the experimental and theoretical results, obtained for the J-PET scanner equipped with vacuum tube photomultipliers, are consistent., Comment: 25 pages, 11 figures

We demonstrated the feasibility of measuring the axial coordinate of a gamma quantum interaction point in a plastic scintillator bar via the detection of scintillation photons escaping from the scintillator with an array of wavelength-shifting (WLS) strips. Using a test set-up comprising a BC-420 scintillator bar and an~array of sixteen BC-482A WLS strips we achieved a spatial resolution of~5\,mm~($\sigma$) for annihilation photons from a $^{22}$Na isotope. The studied method can be used to improve the spatial resolution of a plastic-scintillator-based PET scanner which is being developed by the J-PET collaboration., Comment: 13 pages, 8 figures; Submitted to Nuclear Instruments and Methods in Physics Research Section A

We present a study of the application of the Jagiellonian Positron Emission Tomograph (J-PET) for the registration of gamma quanta from decays of ortho-positronium (o-Ps). The J-PET is the first positron emission tomography scanner based on organic scintillators in contrast to all current PET scanners based on inorganic crystals. Monte Carlo simulations show that the J-PET as an axially symmetric and high acceptance scanner can be used as a multi-purpose detector well suited to pursue research including e.g. tests of discrete symmetries in decays of ortho-positronium in addition to the medical imaging. The gamma quanta originating from o-Ps decay interact in the plastic scintillators predominantly via the Compton effect, making the direct measurement of their energy impossible. Nevertheless, it is shown in this paper that the J-PET scanner will enable studies of the o-Ps$\to3\gamma$ decays with angular and energy resolution equal to $\sigma(\theta) \approx 0.4^{\circ}$ and $\sigma(E) \approx 4.1$ keV, respectively. An order of magnitude shorter decay time of signals from plastic scintillators with respect to the inorganic crystals results not only in better timing properties crucial for the reduction of physical and instrumental background, but also suppresses significantly the pileups, thus enabling compensation of the lower efficiency of the plastic scintillators by performing measurements with higher positron source activities.

This work reports on a new reconstruction algorithm allowing to reconstruct the decays of ortho-positronium atoms into three photons using the places and times of photons recorded in the detector. The method is based on trilateration and allows for a simultaneous reconstruction of both location and time of the decay. Results of resolution tests of the new reconstruction in the J-PET detector based on Monte Carlo simulations are presented, which yield a spatial resolution at the level of 2 cm (FWHM) for X and Y and at the level of 1 cm (FWHM) for Z available with the present resolution of J-PET after application of a kinematic fit. Prospects of employment of this method for studying angular correlations of photons in decays of polarized ortho-positronia for the needs of tests of CP and CPT discrete symmetries are also discussed. The new reconstruction method allows for discrimination of background from random three-photon coincidences as well as for application of a novel method for determination of the linear polarization of ortho-positronium atoms, which is also introduced in this work., Comment: 18 pages, 5 figures. Accepted for publication in Nuclear Instrumentation and Methods in Physics Research A

Modern TOF-PET scanner systems require high-speed computing resources for efficient data processing, monitoring and image reconstruction. In this article we present the data flow and software architecture for the novel TOF-PET scanner developed by the J-PET collaboration. We discuss the data acquisition system, reconstruction framework and image reconstruction software. Also, the concept of computing outside hospitals in the remote centers such as \'Swierk Computing Centre in Poland is presented., Comment: Paper withdrawn since it was already uploaded to arXiv by the first author on 10.09.2015. The identifier of the article is arXiv:1508.02451

A novel Positron Emission Tomography system, based on plastic scintillators, is being developed by the J-PET collaboration. In this article we present the simulation results of the scatter fraction, representing one of the parameters crucial for background studies defined in the NEMA-NU-2-2012 norm. We elaborate an event selection methods allowing to suppress events in which gamma quanta were scattered in the phantom or underwent the multiple scattering in the detector. The estimated scatter fraction for the single-layer J-PET scanner varies from 37% to 53% depending on the applied energy threshold., Comment: 14 pages, 5 figures

Various mesoporous materials were investigated to choose the best material for experiments requiring high yield of long-lived positronium. We found that the fraction of 3\gamma annihilation determined using \gamma-ray energy spectra and positron annihilation lifetime spectra (PAL) changed from 20% to 25%. The 3gamma fraction and o-Ps formation probability in the polymer XAD-4 is found to be the largest. Elemental analysis performed using scanning electron microscop (SEM) equipped with energy-dispersive X-ray spectroscop EDS show high purity of the investigated materials., Comment: 12 pages, 2 figures

Jagiellonian Positron Emission Tomograph (J-PET) is a multi-purpose detector which will be used for search for discrete symmetries violations in the decays of positronium atoms and for investigations with positronium atoms in life-sciences and medical diagnostics. In this article we present three methods for determination of the beam profile of collimated annihilation gamma quanta. Precise monitoring of this profile is essential for time and energy calibration of the J-PET detector and for the determination of the library of model signals used in the hit-time and hit-position reconstruction. We have we have shown that usage of two lead bricks with dimensions of 5x10x20 cm^3 enables to form a beam of annihilation quanta with Gaussian profile characterized by 1 mm FWHM. Determination of this characteristic is essential for designing and construction the collimator system for the 24-module J-PET prototype. Simulations of the beam profile for different collimator dimensions were performed. This allowed us to choose optimal collimation system in terms of the beam profile parameters, dimensions and weight of the collimator taking into account the design of the 24 module J-PET detector., Comment: 14 pages, 9 figures

In this paper, we present a complete Data Acquisition System (DAQ) together with the readout mechanisms for the J-PET tomography scanner. In general detector readout chain is constructed out of Front-End Electronics (FEE), measurement devices like Time-to-Digital or Analog-to-Digital Converters (TDCs or ADCs), data collectors and storage. We have developed a system capable for maintaining continuous readout of digitized data without preliminary selection. Such operation mode results in up to 8 Gbps data stream, therefore it is required to introduce a dedicated module for online event building and feature extraction. The Central Controller Module, equipped with Xilinx Zynq SoC and 16 optical transceivers serves as such true real time computing facility. Our solution for the continuous data recording (trigger-less) is a novel approach in such detector systems and assures that most of the information is preserved on the storage for further, high-level processing. Signal discrimination applies an unique method of using LVDS buffers located in the FPGA fabric., Comment: 6 pages, 1 figure

The Jagiellonian Positron Emission Tomograph (J-PET) was constructed as a prototype of the cost-effective scanner for the simultaneous metabolic imaging of the whole human body. Being optimized for the detection of photons from the electron-positron annihilation with high time- and high angular-resolution, it constitutes a multi-purpose detector providing new opportunities for studying the decays of positronium atoms. Positronium is the lightest purely leptonic object decaying into photons. As an atom bound by a central potential it is a parity eigenstate, and as an atom built out of an electron and an anti-electron it is an eigenstate of the charge conjugation operator. Therefore, the positronium is a unique laboratory to study discrete symmetries whose precision is limited in principle by the effects due to the weak interactions expected at the level of (~10$^{-14}$) and photon-photon interactions expected at the level of (~10$^{-9}$). The J-PET detector enables to perform tests of discrete symmetries in the leptonic sector via the determination of the expectation values of the discrete-symmetries-odd operators, which may be constructed from the spin of ortho-positronium atom and the momenta and polarization vectors of photons originating from its annihilation. In this article we present the potential of the J-PET detector to test the C, CP, T and CPT symmetries in the decays of positronium atoms., Comment: 27 pages, 6 figures

Recent tests of a single module of the Jagiellonian Positron Emission Tomography system (J-PET) consisting of 30 cm long plastic scintillator strips have proven its applicability for the detection of annihilation quanta (0.511 MeV) with a coincidence resolving time (CRT) of 0.266 ns. The achieved resolution is almost by a factor of two better with respect to the current TOF-PET detectors and it can still be improved since, as it is shown in this article, the intrinsic limit of time resolution for the determination of time of the interaction of 0.511 MeV gamma quanta in plastic scintillators is much lower. As the major point of the article, a method allowing to record timestamps of several photons, at two ends of the scintillator strip, by means of matrix of silicon photomultipliers (SiPM) is introduced. As a result of simulations, conducted with the number of SiPM varying from 4 to 42, it is shown that the improvement of timing resolution saturates with the growing number of photomultipliers, and that the 2 x 5 configuration at two ends allowing to read twenty timestamps, constitutes an optimal solution. The conducted simulations accounted for the emission time distribution, photon transport and absorption inside the scintillator, as well as quantum efficiency and transit time spread of photosensors, and were checked based on the experimental results. Application of the 2 x 5 matrix of SiPM allows for achieving the coincidence resolving time in positron emission tomography of $\approx$ 0.170 ns for 15 cm axial field-of-view (AFOV) and $\approx$ 0.365 ns for 100 cm AFOV. The results open perspectives for construction of a cost-effective TOF-PET scanner with significantly better TOF resolution and larger AFOV with respect to the current TOF-PET modalities., Comment: To be published in Phys. Med. Biol. (26 pages, 17 figures)

In this paper we present prospects for using the J-PET detector to search for discrete symmetries violations in a purely leptonic system of the positronium atom. We discuss tests of CP and CPT symmetries by means of ortho-positronium decays into three photons. No zero expectation values for chosen correlations between ortho-positronium spin and momentum vectors of photons would imply the existence of physics phenomena beyond the Standard Model. Previous measurements resulted in violation amplitude parameters for CP and CPT symmetries consistent with zero, with an uncertainty of about 10-3. The J-PET detector allows to determine those values with better precision thanks to a unique time and angular esolution combined with a high geometrical acceptance. Achieving the aforementioned is possible due to application of polymer scintillators instead of crystals as detectors of annihilation quanta., Comment: in Nukleonika 2015

Results of Positron Annihilation Lifetime Spectroscopy (PALS) and microscopic studies on simple microorganisms: brewing yeasts are presented. Lifetime of ortho - positronium (o-Ps) were found to change from 2.4 to 2.9 ns (longer lived component) for lyophilised and aqueous yeasts, respectively. Also hygroscopicity of yeasts in time was examined, allowing to check how water - the main component of the cell - affects PALS parameters, thus lifetime of o-Ps were found to change from 1.2 to 1.4 ns (shorter lived component) for the dried yeasts. The time sufficient to hydrate the cells was found below 10 hours. In the presence of liquid water an indication of reorganization of yeast in the molecular scale was observed. Microscopic images of the lyophilised, dried and wet yeasts with best possible resolution were obtained using Inverted Microscopy (IM) and Environmental Scanning Electron Microscopy (ESEM) methods. As a result visible changes to the surface of the cell membrane were observed in ESEM images., Comment: Nukleonika (2015)

The J-PET detector being developed at Jagiellonian University, is a Positron Emission Tomograph composed of the long strips of polymer scintillators. At the same time it is a detector system which will be used for studies of the decays of positronium atoms. The shape of photomultiplier signals depends on the hit-time and hit-position of the gamma quantum. In order to take advantage of this fact a dedicated sampling front-end electronics which enables to sample signals in voltage domain with the time precision of about 20 ps and novel reconstruction method based on the comparison of examined signal with the model signals stored in the library has been developed. As a measure of the similarity we use the Mahalanobis distance. The achievable position and time-resolution depends on number and values of the threshold levels at which the signal is sampled. A reconstruction method, as well as preliminary results are presented and discussed., Comment: 12 pages, 4 figures

The polystyrene dopped with 2,5-diphenyloxazole as a primary fluor and 2-(4-styrylphenyl)benzoxazole as a wavelength shifter, prepared as a plastic scintillator was investigated using positronium probe in wide range of temperatures from 123 to 423 K. Three structural transitions at 260 K, 283 K and 370 K were found in the material. In the o-Ps intensity dependence on temperature, the significant hysteresis is observed. Heated to 370 K, the material exhibits the o-Ps intensity variations in time., Comment: in Nukleonika 2015

The Jagiellonian-PET (J-PET) collaboration is developing a prototype TOF-PET detector based on long polymer scintillators. This novel approach exploits the excellent time properties of the plastic scintillators, which permit very precise time measurements. The very fast, FPGA-based front-end electronics and the data acquisition system, as well as, low- and high-level reconstruction algorithms were specially developed to be used with the J-PET scanner. The TOF-PET data processing and reconstruction are time and resource demanding operations, especially in case of a large acceptance detector, which works in triggerless data acquisition mode. In this article, we discuss the parallel computing methods applied to optimize the data processing for the J-PET detector. We begin with general concepts of parallel computing and then we discuss several applications of those techniques in the J-PET data processing., Comment: 8 pages

Modern TOF-PET scanner systems require high-speed computing resources for efficient data processing, monitoring and image reconstruction. In this article we present the data flow and software architecture for the novel TOF-PET scanner developed by the J-PET collaboration. We discuss the data acquisition system, reconstruction framework and image reconstruction software. Also, the concept of computing outside hospitals in the remote centers such as \'Swierk Computing Centre in Poland is presented., Comment: 8 pages, 2 figures

Nowadays, in Positron Emission Tomography (PET) systems, a Time of Flight information is used to improve the image reconstruction process. In Time of Flight PET (TOF-PET), fast detectors are able to measure the difference in the arrival time of the two gamma rays, with the precision enabling to shorten significantly a range along the line-of-response (LOR) where the annihilation occurred. In the new concept, called J-PET scanner, gamma rays are detected in plastic scintillators. In a single strip of J-PET system, time values are obtained by probing signals in the amplitude domain. Owing to Compress Sensing theory, information about the shape and amplitude of the signals is recovered. In this paper we demonstrate that based on the acquired signals parameters, a better signal normalization may be provided in order to improve the TOF resolution. The procedure was tested using large sample of data registered by a dedicated detection setup enabling sampling of signals with 50 ps intervals. Experimental setup provided irradiation of a chosen position in the plastic scintillator strip with annihilation gamma quanta.

The J-PET scanner, which allows for single bed imaging of the whole human body, is currently under development at the Jagiellonian University. The dis- cussed detector offers improvement of the Time of Flight (TOF) resolution due to the use of fast plastic scintillators and dedicated electronics allowing for sam- pling in the voltage domain of signals with durations of few nanoseconds. In this paper we show that recovery of the whole signal, based on only a few samples, is possible. In order to do that, we incorporate the training signals into the Tikhonov regularization framework and we perform the Principal Component Analysis decomposition, which is well known for its compaction properties. The method yields a simple closed form analytical solution that does not require iter- ative processing. Moreover, from the Bayes theory the properties of regularized solution, especially its covariance matrix, may be easily derived. This is the key to introduce and prove the formula for calculations of the signal recovery error. In this paper we show that an average recovery error is approximately inversely proportional to the number of acquired samples.

J-PET analysis framework is a flexible, lightweight, ROOT-based software package which provides the tools to develop reconstruction and calibration procedures for PET tomography. In this article we present the implementation of the full data-processing chain in the J-PET framework which is used for the data analysis of the J-PET tomography scanner. The Framework incorporates automated handling of PET setup parameters' database as well as high level tools for building data reconstruction procedures. Each of these components is briefly discussed., Comment: 6 pages, 1 figure

In this article we present a novel method of hit time and hit position reconstruction in long scintillator detectors. We take advantage of the fact that for this kind of detectors amplitude and shape of registered signals depends strongly on the position where particle hit the detector. The reconstruction is based on determination of the degree of similarity between measured and averaged signals stored in a library for a set of well-defined positions along the scintillator. Preliminary results of validation of the introduced method with experimental data obtained by means of the double strip prototype of the J-PET detector are presented.

We present a fast GPU implementation of the image reconstruction routine, for a novel two strip PET detector that relies solely on the time of flight measurements.

Novel Positron Emission Tomography system, based on plastic scintillators, is developed by the J-PET collaboration. In order to optimize geometrical configuration of built device, advanced computer simulations are performed. Detailed study is presented of background given by accidental coincidences and multiple scattering of gamma quanta., Comment: 18 pages, 16 figures

For the first time a molecule of 2-(4-styrylphenyl)benzoxazole containing benzoxazole and stilbene groups is applied as a scintillator dopant acting as a wavelength shifter. In this article a light yield of the plastic scintillator, prepared from styrene doped with 2 wt% of 2,5-diphenylbenzoxazole and 0.03 wt% of 2-(4-styrylphenyl)benzoxazole, is determined to be as large as 60% $\pm$ 2% of the anthracene light output. There is a potential to improve this value in the future by the optimization of the additives concentrations.

A novel method of hit time and hit position reconstruction in scintillator detectors is described. The method is based on comparison of detector signals with results stored in a library of synchronized model signals registered for a set of well-defined positions of scintillation points. The hit position is reconstructed as the one corresponding to the signal from the library which is most similar to the measurement signal. The time of the interaction is determined as a relative time between the measured signal and the most similar one in the library. A degree of similarity of measured and model signals is defined as the distance between points representing the measurement- and model-signal in the multi-dimensional measurement space. Novelty of the method lies also in the proposed way of synchronization of model signals enabling direct determination of the difference between time-of-flights (TOF) of annihilation quanta from the annihilation point to the detectors. The introduced method was validated using experimental data obtained by means of the double strip prototype of the J-PET detector and $^{22}$Na sodium isotope as a source of annihilation gamma quanta.The detector was built out from plastic scintillator strips with dimensions of 5 mm x 19 mm x 300 mm, optically connected at both sides to photomultipliers,from which signals were sampled by means of the Serial Data Analyzer.Using the introduced method, the spatial and TOF resolution of about 1.3 cm ($\sigma$) and 125 ps ($\sigma$) were established, respectively.