Optimally Stabilized PET Image Denoising Using Trilateral Filtering

Low-resolution and signal-dependent noise distribution in positron emission tomography (PET) images makes denoising process an inevitable step prior to qualitative and quantitative image analysis tasks. Conventional PET denoising methods either over-smooth small-sized structures due to resolution limitation or make incorrect assumptions about the noise characteristics. Therefore, clinically important quantitative information may be corrupted. To address these challenges, we introduced a novel approach to remove signal-dependent noise in the PET images where the noise distribution was considered as Poisson-Gaussian mixed. Meanwhile, the generalized Anscombe's transformation (GAT) was used to stabilize varying nature of the PET noise. Other than noise stabilization, it is also desirable for the noise removal filter to preserve the boundaries of the structures while smoothing the noisy regions. Indeed, it is important to avoid significant loss of quantitative information such as standard uptake value (SUV)-based metrics as well as metabolic lesion volume. To satisfy all these properties, we extended bilateral filtering method into trilateral filtering through multiscaling and optimal Gaussianization process. The proposed method was tested on more than 50 PET-CT images from various patients having different cancers and achieved the superior performance compared to the widely used denoising techniques in the literature.Comment: 8 pages, 3 figures; to appear in the Lecture Notes in Computer Science (MICCAI 2014

ARAS: an automated radioactivity aliquoting system for dispensing solutions containing positron-emitting radioisotopes.

BackgroundAutomated protocols for measuring and dispensing solutions containing radioisotopes are essential not only for providing a safe environment for radiation workers but also to ensure accuracy of dispensed radioactivity and an efficient workflow. For this purpose, we have designed ARAS, an automated radioactivity aliquoting system for dispensing solutions containing positron-emitting radioisotopes with particular focus on fluorine-18 ((18)F).MethodsThe key to the system is the combination of a radiation detector measuring radioactivity concentration, in line with a peristaltic pump dispensing known volumes.ResultsThe combined system demonstrates volume variation to be within 5 % for dispensing volumes of 20 μL or greater. When considering volumes of 20 μL or greater, the delivered radioactivity is in agreement with the requested amount as measured independently with a dose calibrator to within 2 % on average.ConclusionsThe integration of the detector and pump in an in-line system leads to a flexible and compact approach that can accurately dispense solutions containing radioactivity concentrations ranging from the high values typical of [(18)F]fluoride directly produced from a cyclotron (~0.1-1 mCi μL(-1)) to the low values typical of batches of [(18)F]fluoride-labeled radiotracers intended for preclinical mouse scans (~1-10 μCi μL(-1))

Intra-Arterial Prostaglandin E1 Infusion in Patients with Rest Pain: Short-Term Results

Purpose. To present our results after short-term (1 month) intra-arterial infusion therapy of PGE1-alprostadil via a port system implanted in the ipsilateral external iliac artery (EIA) in patients with severe rest pain. Methods. Ten patients with severe rest pain were included. All patients showed extensive peripheral vascular disease below the knee. The tip of the catheter was introduced via a retrograde puncture in the ipsilateral external iliac artery (EIA). The patients received intraarterial infusion of PGE1, 20 mgr alprostadil daily, via the port catheter for 1 month. Results. Clinical success was evaluated according to subjective grading of pain (group A significant decrease, group B moderate decrease and group C no response). A significant decrease of rest pain was observed in 8 (group A, 80%) patients, a moderate decrease in 2 (Group B, 20%), whereas no patients demonstrated any significant response. Both patients of group B had Buergers' disease and continue to smoke during therapy. No peripheral thrombosis or clinical deterioration was noticed. Conclusion. Intraarterial infusion of PGE1 alprostadil on a daily basis, using a port catheter into the ipsilateral EIA, in selected patients with severe rest pain, seems to be very effective, without any serious complications

Genetic mapping of novel modifiers for ApcMin induced intestinal polyps’ development using the genetic architecture power of the collaborative cross mice

Background: Familial adenomatous polyposis is an inherited genetic disease, characterized by colorectal polyps. It is caused by inactivating mutations in the Adenomatous polyposis coli (Apc) gene. Mice carrying a nonsense mutation in the Apc gene at R850, which is designated ApcMin/+ (Multiple intestinal neoplasia), develop intestinal adenomas. Several genetic modifier loci of Min (Mom) were previously mapped, but so far, most of the underlying genes have not been identified. To identify novel modifier loci associated with ApcMin/+, we performed quantitative trait loci (QTL) analysis for polyp development using 49 F1 crosses between different Collaborative Cross (CC) lines and C57BL/6 J-ApcMin/+mice. The CC population is a genetic reference panel of recombinant inbred lines, each line independently descended from eight genetically diverse founder strains. C57BL/6 J-ApcMin/+ males were mated with females from 49 CC lines. F1 offspring were terminated at 23 weeks and polyp counts from three sub-regions (SB1–3) of small intestinal and colon were recorded. Results: The number of polyps in all these sub-regions and colon varied significantly between the different CC lines. At 95% genome-wide significance, we mapped nine novel QTL for variation in polyp number, with distinct QTL associated with each intestinal sub-region. QTL confidence intervals varied in width between 2.63–17.79 Mb. We extracted all genes in the mapped QTL at 90 and 95% CI levels using the BioInfoMiner online platform to extract, significantly enriched pathways and key linker genes, that act as regulatory and orchestrators of the phenotypic landscape associated with the ApcMin/+ mutation. Conclusions: Genomic structure of the CC lines has allowed us to identify novel modifiers and confirmed some of the previously mapped modifiers. Key genes involved mainly in metabolic and immunological processes were identified. Future steps in this analysis will be to identify regulatory elements – and possible epistatic effects – located in the mapped QTL

Reconstructing gravitational wave signals from binary black hole mergers with minimal assumptions

We present a systematic comparison of the binary black hole (BBH) signal waveform reconstructed by two independent and complementary approaches used in LIGO and Virgo source inference: a template-based analysis, and a morphology-independent analysis. We apply the two approaches to real events and to two sets of simulated observations made by adding simulated BBH signals to LIGO and Virgo detector noise. The first set is representative of the 10 BBH events in the first Gravitational Wave Transient Catalog (GWTC-1). The second set is constructed from a population of BBH systems with total mass and signal strength in the ranges that ground based detectors are typically sensitive. We find that the reconstruction quality of the GWTC-1 events is consistent with the results of both sets of simulated signals. We also demonstrate a simulated case where the presence of a mismodelled effect in the observed signal, namely higher order modes, can be identified through the morphology-independent analysis. This study is relevant for currently progressing and future observational runs by LIGO and Virgo

The BayesWave analysis pipeline in the era of gravitational wave observations

We describe updates and improvements to the BayesWave gravitational wave transient analysis pipeline, and provide examples of how the algorithm is used to analyze data from ground-based gravitational wave detectors. BayesWave models gravitational wave signals in a morphology-independent manner through a sum of frame functions, such as Morlet-Gabor wavelets or chirplets. BayesWave models the instrument noise using a combination of a parametrized Gaussian noise component and non-stationary and non-Gaussian noise transients. Both the signal model and noise model employ trans-dimensional sampling, with the complexity of the model adapting to the requirements of the data. The flexibility of the algorithm makes it suitable for a variety of analyses, including reconstructing generic unmodeled signals; cross checks against modeled analyses for compact binaries; as well as separating coherent signals from incoherent instrumental noise transients (glitches). The BayesWave model has been extended to account for gravitational wave signals with generic polarization content and the simultaneous presence of signals and glitches in the data. We describe updates in the BayesWave prior distributions, sampling proposals, and burn-in stage that provide significantly improved sampling efficiency. We present standard review checks indicating the robustness and convergence of the BayesWave trans-dimensional sampler

Detection and parameter estimation of binary neutron star merger remnants

Detection and parameter estimation of binary neutron star merger remnants can shed light on the physics of hot matter at supranuclear densities. Here we develop a fast, simple model that can generate gravitational waveforms, and show it can be used for both detection and parameter estimation of post-merger remnants. The model consists of three exponentially-damped sinusoids with a linear frequency-drift term. The median fitting factors between the model waveforms and numerical-relativity simulations exceed 0.90. We detect remnants at a post-merger signal-to-noise ratio of ≥7 using a Bayes-factor detection statistic with a threshold of 3000. We can constrain the primary post-merger frequency to ±^(1.4)_(1.2)% at post-merger signal-to-noise ratios of 15 with an increase in precision to ±^(0.3)_(0.2)% for post-merger signal-to-noise ratios of 50. The tidal coupling constant can be constrained to ±⁹₁₂% at post-merger signal-to-noise ratios of 15, and ±5% at post-merger signal-to-noise ratios of 50 using a hierarchical inference model

Genetic mapping of novel modifiers for ApcMin induced intestinal polyps’ development using the genetic architecture power of the collaborative cross mice

Abstract Background Familial adenomatous polyposis is an inherited genetic disease, characterized by colorectal polyps. It is caused by inactivating mutations in the Adenomatous polyposis coli (Apc) gene. Mice carrying a nonsense mutation in the Apc gene at R850, which is designated Apc Min/+ (Multiple intestinal neoplasia), develop intestinal adenomas. Several genetic modifier loci of Min (Mom) were previously mapped, but so far, most of the underlying genes have not been identified. To identify novel modifier loci associated with Apc Min/+ , we performed quantitative trait loci (QTL) analysis for polyp development using 49 F1 crosses between different Collaborative Cross (CC) lines and C57BL/6 J-Apc Min/+ mice. The CC population is a genetic reference panel of recombinant inbred lines, each line independently descended from eight genetically diverse founder strains. C57BL/6 J-Apc Min/+ males were mated with females from 49 CC lines. F1 offspring were terminated at 23 weeks and polyp counts from three sub-regions (SB1–3) of small intestinal and colon were recorded. Results The number of polyps in all these sub-regions and colon varied significantly between the different CC lines. At 95% genome-wide significance, we mapped nine novel QTL for variation in polyp number, with distinct QTL associated with each intestinal sub-region. QTL confidence intervals varied in width between 2.63–17.79 Mb. We extracted all genes in the mapped QTL at 90 and 95% CI levels using the BioInfoMiner online platform to extract, significantly enriched pathways and key linker genes, that act as regulatory and orchestrators of the phenotypic landscape associated with the Apc Min/+ mutation. Conclusions Genomic structure of the CC lines has allowed us to identify novel modifiers and confirmed some of the previously mapped modifiers. Key genes involved mainly in metabolic and immunological processes were identified. Future steps in this analysis will be to identify regulatory elements – and possible epistatic effects – located in the mapped QTL