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| 2. |
- Abelev, Betty, et al.
(författare)
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Long-range angular correlations on the near and away side in p-Pb collisions at root S-NN=5.02 TeV
- 2013
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Ingår i: Physics Letters. Section B: Nuclear, Elementary Particle and High-Energy Physics. - : Elsevier BV. - 0370-2693. ; 719:1-3, s. 29-41
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Tidskriftsartikel (refereegranskat)abstract
- Angular correlations between charged trigger and associated particles are measured by the ALICE detector in p-Pb collisions at a nucleon-nucleon centre-of-mass energy of 5.02 TeV for transverse momentum ranges within 0.5 < P-T,P-assoc < P-T,P-trig < 4 GeV/c. The correlations are measured over two units of pseudorapidity and full azimuthal angle in different intervals of event multiplicity, and expressed as associated yield per trigger particle. Two long-range ridge-like structures, one on the near side and one on the away side, are observed when the per-trigger yield obtained in low-multiplicity events is subtracted from the one in high-multiplicity events. The excess on the near-side is qualitatively similar to that recently reported by the CMS Collaboration, while the excess on the away-side is reported for the first time. The two-ridge structure projected onto azimuthal angle is quantified with the second and third Fourier coefficients as well as by near-side and away-side yields and widths. The yields on the near side and on the away side are equal within the uncertainties for all studied event multiplicity and p(T) bins, and the widths show no significant evolution with event multiplicity or p(T). These findings suggest that the near-side ridge is accompanied by an essentially identical away-side ridge. (c) 2013 CERN. Published by Elsevier B.V. All rights reserved.
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| 3. |
- Daneshjou, Roxana, et al.
(författare)
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Working toward precision medicine : Predicting phenotypes from exomes in the Critical Assessment of Genome Interpretation (CAGI) challenges
- 2017
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Ingår i: Human Mutation. - : Hindawi Limited. - 1059-7794 .- 1098-1004. ; 38:9, s. 1182-1192
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Tidskriftsartikel (refereegranskat)abstract
- Precision medicine aims to predict a patient's disease risk and best therapeutic options by using that individual's genetic sequencing data. The Critical Assessment of Genome Interpretation (CAGI) is a community experiment consisting of genotype-phenotype prediction challenges; participants build models, undergo assessment, and share key findings. For CAGI 4, three challenges involved using exome-sequencing data: Crohn's disease, bipolar disorder, and warfarin dosing. Previous CAGI challenges included prior versions of the Crohn's disease challenge. Here, we discuss the range of techniques used for phenotype prediction as well as the methods used for assessing predictive models. Additionally, we outline some of the difficulties associated with making predictions and evaluating them. The lessons learned from the exome challenges can be applied to both research and clinical efforts to improve phenotype prediction from genotype. In addition, these challenges serve as a vehicle for sharing clinical and research exome data in a secure manner with scientists who have a broad range of expertise, contributing to a collaborative effort to advance our understanding of genotype-phenotype relationships.
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| 4. |
- Bakic, Predrag R., et al.
(författare)
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Artifact reduction in simultaneous tomosynthesis and mechanical imaging of the breast
- 2019
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Ingår i: Medical Imaging 2019 : Physics of Medical Imaging - Physics of Medical Imaging. - : SPIE. - 9781510625433 ; 10948
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Konferensbidrag (refereegranskat)abstract
- Mechanical imaging (MI) uses a pressure sensor array to estimate the stiffness of lesions. Recent clinical studies have suggested that MI combined with digital mammography may reduce false positive findings and negative biopsies by over 30%. Digital breast tomosynthesis (DBT) has been adopted progressively in cancer screening. The tomographic nature of DBT improves lesion visibility by reducing tissue overlap in reconstructed images. For maximum benefit, DBT and MI data should be acquired simultaneously; however, that arrangement produces visible artifacts in DBT images due to the presence of the MI sensor array. We propose a method for reducing artifacts during the DBT image reconstruction. We modified the parameters of a commercial DBT reconstruction engine and investigated the conspicuity of artifacts in the resultant images produced with different sensor orientations. The method was evaluated using a physical anthropomorphic phantom imaged on top of the sensor. Visual assessment showed a reduction of artifacts. In a quantitative test, we calculated the artifact spread function (ASF), and compared the ratio of the mean ASF values between the proposed and conventional reconstruction (termed ASF ratio, RASF). We obtained a mean RASF of 2.74, averaged between two analyzed sensor orientations (45° and 90°). The performance varied with the orientation and the type of sensor structures causing the artifacts. RASF for wide connection lines was larger at 45° than at 90° (5.15 vs. 1.00, respectively), while for metallic contacts RASF was larger at 90° than at 45° (3.31 vs. 2.21, respectively). Future work will include a detailed quantitative assessment, and further method optimization in virtual clinical trials.
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| 5. |
- Bakic, Predrag R., et al.
(författare)
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Evaluation of a flat fielding method for simultaneous DBT and MI acquisition
- 2020
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Ingår i: 15th International Workshop on Breast Imaging, IWBI 2020. - : SPIE. - 1996-756X .- 0277-786X. - 9781510638310 ; 11513
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Konferensbidrag (refereegranskat)abstract
- We are developing a prototype system for simultaneous digital breast tomosynthesis (DBT) and mechanical imaging (MI). MI maps the local pressure distribution during clinical exams, to distinguish breast abnormalities from the normal tissue. Both DBT alone, and MI when combined with digital mammography, have demonstrated the ability to reduce false positives; however, the benefit of combining DBT with MI has not been investigated. A practical limitation in simultaneous DBT and MI is the presence of the MI sensor in DBT images. Metallic elements of the sensor generate noticeable artifacts, which may interfere with clinical analysis. Previously, we shown that the sensor artifacts can be reduced by flat fielding, which combines projections of the sensor acquired with and without the breast. In this paper we evaluate the flat fielding by assessing artifact reduction and visibility of breast abnormalities. Images of a physical anthropomorphic breast phantom were acquired using a clinical wide-angle DBT system. Visual evaluation was performed by experienced medical physicists. Image quality descriptors were calculated in images with and without flat fielding. To evaluate the visibility of abnormalities we estimated the full width at half maximum (FWHM) for calcifications modeled in the phantom. Our preliminary results suggest a substantial reduction of artifacts by flat fielding (on average 83%). Few noticeable artifacts remain near the breast edge, in the reconstructed image with the sensor in focus. We observed a 17% reduction in the FWHM. Future work would include a detailed assessment, and method optimization using virtual trials as a design aid.
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| 6. |
- Bakic, Predrag R., et al.
(författare)
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Pre-processing for image quality improvement in simultaneous DBT and mechanical imaging
- 2020
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Ingår i: Medical Imaging 2020 : Physics of Medical Imaging - Physics of Medical Imaging. - : SPIE. - 1605-7422. - 9781510633919 ; 11312
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Konferensbidrag (refereegranskat)abstract
- Simultaneous digital breast tomosynthesis (DBT) and mechanical imaging (MI) offer the potential to combine anatomic information from DBT with functional information from MI. This makes it possible to associate tissue stiffness with specific anatomic structures in the breast, a combination that can reduce false-positive findings by using the MI data to discriminate between ambiguous lesions in DBT. This, in turn, will reduce the frequency of negative biopsies. Simultaneous imaging requires that the MI sensor array be present during DBT acquisition. This introduces artifacts, since the sensor is attenuating. Previously, we demonstrated that the DBT reconstruction could be modified to reduce sensor conspicuity in DBT images. In this paper, we characterize the relative attenuation of the breast and the sensor, to calculate the artifact reduction in DBT reconstruction. We concentrate on pre-processing DBT projections prior to reconstruction. Using commercially available a DBT system, we have confirmed that the sensor array does not completely attenuate the x-rays. This suggests that a pre-processing method based upon flat fielding can be used to reduce artifacts. In a proof-of-concept study, we performed flat fielding by combining DBT projections of the MI sensor with and without an anthropomorphic breast phantom. Visual evaluation confirmed substantially improved image quality. The artifacts were reduced throughout the image for all sensor elements. Few residual artifacts are noticeable where the phantom thickness decreases. The investigation of additional pre-processing, including beam hardening correction is ongoing. Future work includes quantitative validation, noise stabilization, and method optimization in virtual clinical trials and subsequent patient studies.
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| 7. |
- Barufaldi, Bruno, et al.
(författare)
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Virtual Clinical Trials in Medical Imaging System Evaluation and Optimisation
- 2021
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Ingår i: Radiation Protection Dosimetry. - : Oxford University Press (OUP). - 1742-3406 .- 0144-8420. ; 195:3-4, s. 363-371
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Tidskriftsartikel (refereegranskat)abstract
- Virtual clinical trials (VCTs) can be used to evaluate and optimise medical imaging systems. VCTs are based on computer simulations of human anatomy, imaging modalities and image interpretation. OpenVCT is an open-source framework for conducting VCTs of medical imaging, with a particular focus on breast imaging. The aim of this paper was to evaluate the OpenVCT framework in two tasks involving digital breast tomosynthesis (DBT). First, VCTs were used to perform a detailed comparison of virtual and clinical reading studies for the detection of lesions in digital mammography and DBT. Then, the framework was expanded to include mechanical imaging (MI) and was used to optimise the novel combination of simultaneous DBT and MI. The first experiments showed close agreement between the clinical and the virtual study, confirming that VCTs can predict changes in performance of DBT accurately. Work in simultaneous DBT and MI system has demonstrated that the system can be optimised in terms of the DBT image quality. We are currently working to expand the OpenVCT software to simulate MI acquisition more accurately and to include models of tumour growth. Based on our experience to date, we envision a future in which VCTs have an important role in medical imaging, including support for more imaging modalities, use with rare diseases and a role in training and testing artificial intelligence (AI) systems.
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| 8. |
- Costa, Arthur C., et al.
(författare)
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Assessment of projection interpolation to compensate for the increased radiation dose in DBTMI
- 2023
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Ingår i: Medical Imaging 2023 : Physics of Medical Imaging - Physics of Medical Imaging. - 1605-7422. - 9781510660311 ; 12463
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Konferensbidrag (refereegranskat)abstract
- The combination of digital breast tomosynthesis (DBT) with other imaging modalities has been investigated in order to improve the detection and diagnosis of breast cancer. Mechanical Imaging (MI) measures the stress over the surface of the compressed breast, using a pressure sensor, during radiographic examination and its response has shown a correlation with the presence of malignant lesions. Thus, the combination of DBT and MI (DBTMI) has shown potential to reduce false positive results in breast cancer screening. However, compared to the conventional DBT exam, the presence of the MI sensor during mammographic image acquisition may cause a slight increase in the radiation dose. This work presents a proposal to reduce the radiation dose in DBTMI exams by removing some projections from the original set and replacing them with synthetic projections generated by a video frame interpolation (VFI) neural network. We compared several DBTMI acquisition arrangements, considering the removal of 16% of the original projections, using a deformable physical breast phantom, and evaluated the quality of the reconstructed images based on the Normalized Root Mean Squared Error (NRMSE). The results showed that, for some arrangements, the slices reconstructed with the addition of synthetic DBTMI projections presented better quality than when they were reconstructed with the reduced set of projections. Further studies must be carried out to optimize the interpolation approach.
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| 9. |
- Fougeres, Chloe, et al.
(författare)
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Search for Na-22 in novae supported by a novel method for measuring femtosecond nuclear lifetimes
- 2023
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Ingår i: Nature Communications. - : Springer Nature. - 2041-1723. ; 14:1
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Tidskriftsartikel (refereegranskat)abstract
- Classical novae are thermonuclear explosions in stellar binary systems, and important sources of Al-26 and Na-22. While ? rays from the decay of the former radioisotope have been observed throughout the Galaxy, Na-22 remains untraceable. Its half-life (2.6 yr) would allow the observation of its 1.275 MeV ?-ray line from a cosmic source. However, the prediction of such an observation requires good knowledge of its nucleosynthesis. The Na-22(p, ?)Mg-23 reaction remains the only source of large uncertainty about the amount of Na-22 ejected. Its rate is dominated by a single resonance on the short-lived state at 7785.0(7) keV in Mg-23. Here, we propose a combined analysis of particle-particle correlations and velocity-difference profiles to measure femtosecond nuclear lifetimes. The application of this method to the study of the Mg-23 states, places strong limits on the amount of Na-22 produced in novae and constrains its detectability with future space-borne observatories. The authors report a particle-particle correlation and velocity-difference profile method to measure nuclear lifetime. The results obtained for excited states of 23Mg are used to constrain the production of 22Na in the astrophysical novae explosions.
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| 10. |
- Maes, Dirk, et al.
(författare)
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Integrating national Red Lists for prioritising conservation actions for European butterflies
- 2019
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Ingår i: Journal of Insect Conservation. - : Springer Science and Business Media LLC. - 1366-638X .- 1572-9753. ; 23:2, s. 301-330
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Tidskriftsartikel (refereegranskat)abstract
- Red Lists are very valuable tools in nature conservation at global, continental and (sub-) national scales. In an attempt to prioritise conservation actions for European butterflies, we compiled a database with species lists and Red Lists of all European countries, including the Macaronesian archipelagos (Azores, Madeira and Canary Islands). In total, we compiled national species lists for 42 countries and national Red Lists for 34 of these. The most species-rich countries in Europe are Italy, Russia and France with more than 250 species each. Endemic species are mainly found on the Macaronesian archipelagos and on the Mediterranean islands. By attributing numerical values proportionate to the threat statuses in the different national Red List categories, we calculated a mean Red List value for every country (cRLV) and a weighted Red List value for every species (wsRLV) using the square root of the country’s area as a weighting factor. Countries with the highest cRLV were industrialised (NW) European countries such as the Netherlands, Belgium, the Czech Republic and Denmark, whereas large Mediterranean countries such as Spain and Italy had the lowest cRLV. Species for which a Red List assessment was available in at least two European countries and with a relatively high wsRLV (≥ 50) are Colias myrmidone, Pseudochazara orestes, Tomares nogelii, Colias chrysotheme and Coenonympha oedippus. We compared these wsRLVs with the species statuses on the European Red List to identify possible mismatches. We discuss how this complementary method can help to prioritise butterfly conservation on the continental and/or the (sub-)national scale.
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