Miracle-dz/UniFAR-FTUs huggingface dataset:
Efficient lossless coding of medical image volumes using reversible integer wavelet transforms

A novel lossless medical image compression algorithm based on three-dimensional integer wavelet transforms and zerotree coding is presented. The EZW algorithm is extended to three dimensions and context-based adaptive arithmetic coding is used to improve its performance. The algorithm (3-D CB-EZW) efficiently encodes image volumes by exploiting the dependencies in all three dimensions, while enabling lossy and lossless compression from the same bitstream. Results on lossless compression of CT and MR images are presented, and compared to other lossless compression algorithms. The progressive performance of the 3-D CB-EZW algorithm is also compared to other lossy progressive coding algorithms. For representative images, the 3-D CB-EZW algorithm produced an average of 14% and 20% decrease in compressed file sizes for CT and MR images, respectively, compared to the best available 2-D lossless compression techniques.
Respiratory physiology before and after hemodialysis in chronic renal failure patients

Pulmonary function tests were performed immediately before and after hemodialysis in 11 normovolemic patients with chronic renal failure. In order to delineate the relative contributions of thoracic and abdominal musculature to the breathing process, lung volumes were determined in the horizontal (0°) and semi-upright postures (75°). Maximal static inspiratory and expiratory pressures, handgrip pressures, flow rates, and arterial blood gases were also determined. Vital capacity, inspiratory capacity, and expiratory reserve volume were significantly reduced and residual volume was significantly increased in both positions prior to dialysis (relative to predicted values). Maximal static inspiratory pressure, maximal static expiratory pressure, and arterial oxygen tension were also significantly reduced. After dialysis, expiratory reserve volume decreased significantly and residual volume increased significantly in the 75° position. Maximal static expiratory pressure decreased after dialysis although the statistical significance of this result was only borderline (p = 0.07). Hand-grip pressures also decreased (p = 0.005) following dialysis. The results of this study indicate that chronic renal failure patients undergoing maintenance hemodialysis have predialysis abdominal and thoracic muscle weakness with further abdominal weakening postdialysis. The results also indicate that other muscle groups (such as those of the hand and arm) weaken during hemodialysis.
Social cognition in multiple sclerosis

Objective: To quantify the magnitude of deficits in theory of mind (ToM) and facial emotion recognition among patients with multiple sclerosis (MS) relative to healthy controls. Methods: An electronic database search of Ovid MEDLINE, PsycINFO, and Embase was conducted from inception to April 1, 2016. Eligible studies were original research articles published in peer-reviewed journals that examined ToM or facial emotion recognition among patients with a diagnosis of MS and a healthy control comparison group. Data were independently extracted by 2 authors. Effect sizes were calculated using Hedges g. Results: Twenty-one eligible studies were identified assessing ToM (12 studies) and/or facial emotion recognition (13 studies) among 722 patients with MS and 635 controls. Deficits in both ToM (g = −0.71, 95% confidence interval [CI] −0.88 to −0.55, p < 0.001) and facial emotion recognition (g = −0.64, 95% CI −0.81 to −0.47, p < 0.001) were identified among patients with MS relative to healthy controls. The largest deficits were observed for visual ToM tasks and for the recognition of negative facial emotional expressions. Older age predicted larger emotion recognition deficits. Other cognitive domains were inconsistently associated with social cognitive performance. Conclusions: Social cognitive deficits are an overlooked but potentially important aspect of cognitive impairment in MS with potential prognostic significance for social functioning and quality of life. Further research is required to clarify the longitudinal course of social cognitive dysfunction, its association with MS disease characteristics and neurocognitive impairment, and the MS-specific neurologic damage underlying these deficits.
Improving the Reliability of Optimal In-Feed Amino Acid Ratios Based on Individual Amino Acid Efficiency Data from N Balance Studies in Growing Chicken

Simple Summary Dietary amino acid concentration should closely meet the quantitative requirement of animals dependent on genotype, gender, age, aimed performance and housing conditions. Both under- and over-supply yield impaired efficacy of individual amino acid utilization and increase the nitrogen excretion. Hence, for optimal feed formulation, a validated knowledge about adequacy of dietary amino acid balance is necessary. Present studies contribute toward ensuring ideal amino acid ratios in diets for growing broiler chicken making use of a new amino acid efficiency-based procedure. Abstract Three consecutive nitrogen balance experiments with fast-growing male broiler chickens (ROSS 308), both during starter and grower periods, were conducted to determine the ideal ratios of several indispensable amino acids relative to lysine. The control diets based on corn, wheat, fishmeal, field peas, wheat gluten and soybean oil were formulated by computer optimizing to meet the assumed ideal amino acid ratios and to fulfill both the energy and nutrient requirements of growing chicken. According to principles of the diet dilution technique, balanced control diets were diluted by wheat starch and refilled by crystalline amino acids and remaining feed ingredients, except the amino acid under study. The lysine, threonine, tryptophan, arginine, isoleucine and valine diluted diets resulted in significantly lower protein quality as compared to control diet, especially following increased dietary lysine supply (experiments II and III) and stronger amino acid dilution (experiment III). Accordingly, the limiting position of individual amino acids was confirmed, and the derived amino acid efficiency data were utilized to derive ideal amino acid ratios for the starter period: Lys (100): Thr (60): Trp (19): Arg (105): Ile (55): Val (63); and the grower period: Lys (100): Thr (62): Trp (17): Arg (105): Ile (65): Val (79).
A Simple and Accurate Model for Prediction of Cancer-Specific Mortality in Patients Treated with Surgery for Primary Penile Squamous Cell Carcinoma

Purpose: Cancer-specific mortality (CSM) of patients with primary penile squamous cell carcinoma (PPSCC) may be quite variable. Recently, a nomogram was developed to provide standardized and individualized mortality predictions. Unfortunately, it relies on a large number (n = 8) of specific variables that are unavailable in routine clinical practice. We attempted to develop a simpler prediction rule with at least equal accuracy in predicting CSM after surgical removal of PPSCC. Experimental Design: The predictive rule was developed on a cohort of 856 patients identified in the 1988 to 2004 Surveillance, Epidemiology and End Results (SEER) database. The predictors consisted of age, race, SEER stage (localized versus regional versus metastatic), tumor grade, type of surgery (excisional biopsy, partial penectomy, and radical penectomy), and of lymph node status (pN0 versus pN1-3 versus pNx). A look-up table based on Cox regression model-derived coefficients was used for prediction of 5-year CSM. The predictive rule accuracy was tested using the Harrell's modification of the area under the receiver operating characteristics curve. Results: SEER stage and histologic grade achieved independent predictor status and qualified for inclusion in the model. The model achieved 73.8% accuracy for prediction of CSM at 5 years after surgery. Both predictors achieved independent predictor status in competing risk regression models addressing CSM, where other cause mortality was controlled for. Conclusion: Despite equivalent accuracy, our predictive rule predicting 5-year CSM in patients with PPSCC is substantially less complex (2 versus 8 variables) than the previously published model.
Interactive Digital Photomontage

We describe an interactive, computer-assisted framework for combining parts of a set of photographs into a single composite picture, a process we call "digital photomontage. " Our framework makes use of two techniques primarily: graph-cut optimization, to choose good seams within the constituent images so that they can be combined as seamlessly as possible; and gradient-domain fusion, a process based on Poisson equations, to further reduce any remaining visible artifacts in the composite. Also central to the framework is a suite of interactive tools that allow the user to specify a variety of high-level image objectives, either globally across the image, or locally through a painting-style interface. Image objectives are applied independently at each pixel location and generally involve a function of the pixel values (such as "maximum contrast") drawn from that same location in the set of source images. Typically, a user applies a series of image objectives iteratively in order to create a finished composite. The power of this framework lies in its generality; we show how it can be used for a wide variety of applications, including "selective composites" (for instance, group photos in which everyone looks their best), relighting, extended depth of field, panoramic stitching, clean-plate production, stroboscopic visualization of movement, and time-lapse mosaics.
Co-Occurring Disorders: A Challenge for Mexican Community-Based Residential Care Facilities for Substance Use

ABSTRACT Objective: In Mexico, specialized treatment services for people with co-occurring disorders are limited within public health services, while private options are deemed too costly. More than 2,000 community-based residential care facilities have risen as an alternative and are the main source of treatment for individuals with substance use disorders; however, suboptimal practices within such facilities are common. Information on the clinical characteristics of patients receiving care in these facilities is scarce and capacity to provide high-quality care for co-occurring disorders is unknown. The aims of this study were to examine the prevalence of co-occurring disorders in patients receiving treatment for substance use in these community-based residential centers and to assess whether the presence of co-occurring disorders is associated with higher severity of substance use, psychiatric symptomatology, and other health risks. Methods: This study was conducted with 601 patients receiving treatment for substance use disorders at 30 facilities located in five Mexican states, recruited in 2013 and 2014. Patients were assessed with self-report measures on substance use, service utilization, suicidality, HIV risk behaviors, psychiatric symptomatology, and psychiatric disorder diagnostic criteria. Results: The prevalence of any co-occurring disorder in this sample was 62.6%. Antisocial personality disorder was the most prevalent (43.8%), followed by major depressive disorder (30.9%). The presence of a co-occurring disorder was associated with higher severity of psychiatric symptoms (aB = .496, SE = .050, p < .05); more days of substance use (aB = .219, SE = .019, p < .05); current suicidal ideation (aOR = 5.07, 95% CI [2.58, 11.17]; p < .05), plans (aOR = 5.17 95% CI [2.44, 12.73]; p < .05), and attempts (aOR = 6.43 95% CI [1.83, 40.78]; p < .05); more sexual risk behaviors; and more contact with professional services (aOR = 1.77, 95% CI [1.26, 2.49], p < .05). Conclusions: Co-occurring disorders are highly prevalent in community-based residential centers in Mexico and are associated with significantly increased probability of other health risks. This highlights the need to develop care standards for this population and the importance of clinical research in these settings.
Functional Integration of Adult-Born Hippocampal Neurons after Traumatic Brain Injury

Abstract Traumatic brain injury (TBI) increases hippocampal neurogenesis, which may contribute to cognitive recovery after injury. However, it is unknown whether TBI-induced adult-born neurons mature normally and functionally integrate into the hippocampal network. We assessed the generation, morphology, and synaptic integration of new hippocampal neurons after a controlled cortical impact (CCI) injury model of TBI. To label TBI-induced newborn neurons, we used 2-month-old POMC-EGFP mice, which transiently and specifically express EGFP in immature hippocampal neurons, and doublecortin-CreERT2 transgenic mice crossed with Rosa26-CAG-tdTomato reporter mice, to permanently pulse-label a cohort of adult-born hippocampal neurons. TBI increased the generation, outward migration, and dendritic complexity of neurons born during post-traumatic neurogenesis. Cells born after TBI had profound alterations in their dendritic structure, with increased dendritic branching proximal to the soma and widely splayed dendritic branches. These changes were apparent during early dendritic outgrowth and persisted as these cells matured. Whole-cell recordings from neurons generated during post-traumatic neurogenesis demonstrate that they are excitable and functionally integrate into the hippocampal circuit. However, despite their dramatic morphologic abnormalities, we found no differences in the rate of their electrophysiological maturation, or their overall degree of synaptic integration when compared to age-matched adult-born cells from sham mice. Our results suggest that cells born after TBI participate in information processing, and receive an apparently normal balance of excitatory and inhibitory inputs. However, TBI-induced changes in their anatomic localization and dendritic projection patterns could result in maladaptive network properties.
Improving physical health monitoring in secondary care for patients on clozapine

Aims and method To assess how well psychiatric teams follow up abnormal results from physical health monitoring of patients in a secondary care clozapine clinic compared with follow-up in a specialist secondary care physical health clinic, using an audit/re-audit method of comparison. Prevalence data for cardiovascular risk factors within the clinic population were also obtained. Results Substantial and statistically significant ( P <0.01) improvements in follow-up of abnormal results were made following the introduction of a specialist clinic compared with treatment as usual. Prevalence of all cardiovascular risk factors among the patients on clozapine was very high compared with the general population. Clinical implications Patients on clozapine have significant and multiple cardiovascular risk factors, which may be best managed within a specialist secondary care physical health clinic that can follow up abnormal results and coordinate care across primary and secondary care.
Outcomes of Parathyroid Autotransplantation During Total Thyroidectomy: A Comparison with Age- and Sex-Matched Controls

ABSTRACT Purpose: To determine the effect of parathyroid autotransplantation (PA) on postoperative hypocalcemia in cases of total thyroidectomy. Materials and Methods: Cases undergoing total thyroidectomy and PA were compared with age and sex-matched controls who had not undergone PA. The postoperative percentage changes (PC) of parathyroid hormone (PTH) and calcium (Ca+2) in the first 12–24 hours (12–24hr→preop), between the 1st-3rd weeks (1-3wk→preop) and at the 6th month (6mo→preop), the rates of hypocalcemia (Ca+2< 8mg/dL) and low PTH level (PTH< 15 pg/mL), permanent hypocalcemia, inadvertent parathyroidectomy in both groups were compared. Results: The number of patients with PTH12-24hr<15 pg/mL was significantly higher (n:34,(55.7%)) than the number of patients in the control group (n:16(26.2%)), (p=0.001). The rate of decrease in the blood Ca+2 median PC (6mo→preop) was significantly higher in the PA group (4.2%) than the control group (1.1%), (p=0.008). There was no significant difference between the 2 groups in terms of the postoperative frequency of hypocalcemia (p>0.05). In the PA&age≤50 group, the rate of inadvertent parathyroidectomy was higher than that of cases over age 50 (p=0.029). Conclusion: In spite of the presence of an increased postoperative hypocalcemia trend in cases requiring PA during total thyroidectomy, the rates of transient and permanent hypocalcemia were not different to the control cases. But the frequency of cases with low PTH level in cases undergoing PA was higher than that of the control cases. In cases of 50 years of age and under, who had undergone PA, the possibility of inadvertent parathyroidectomy increased.
Chronopolis Digital Preservation Network

The Chronopolis Digital Preservation Initiative, one of the Library of Congress’ latest efforts to collect and preserve at-risk digital information, has completed its first year of service as a multi-member partnership to meet the archival needs of a wide range of domains. Chronopolis is a digital preservation data grid framework developed by the San Diego Supercomputer Center (SDSC) at UC San Diego, the UC San Diego Libraries (UCSDL), and their partners at the National Center for Atmospheric Research (NCAR) in Colorado and the University of Maryland's Institute for Advanced Computer Studies (UMIACS). Chronopolis addresses a critical problem by providing a comprehensive model for the cyberinfrastructure of collection management, in which preserved intellectual capital is easily accessible, and research results, education material, and new knowledge can be incorporated smoothly over the long term. Integrating digital library, data grid, and persistent archive technologies, Chronopolis has created trusted environments that span academic institutions and research projects, with the goal of long-term digital preservation. A key goal of the Chronopolis project is to provide cross-domain collection sharing for long-term preservation. Using existing high-speed educational and research networks and mass-scale storage infrastructure investments, the partnership is leveraging the data storage capabilities at SDSC, NCAR, and UMIACS to provide a preservation data grid that emphasizes heterogeneous and highly redundant data storage systems. In this paper we will explore the major themes within Chronopolis, including: a) The philosophy and theory behind a nationally federated data grid for preservation. b) The core tools and technologies used in Chronopolis. c) The metadata schema that is being developed within Chronopolis for all of the data elements. d) Lessons learned from the first year of the project. e) Next steps in digital preservation using Chronopolis: how we plan to strengthen and broaden our network with enhanced services and new customers.
Elaborated Reichardt detectors.

The elaborated Reichardt detector (ERD) proposed by van Santen and Sperling [J. Opt. Soc. Am. A 1, 451 (1984)], based on Reichardt's motion detector [Z. Naturforsch. Teil B 12, 447 (1957)], is an opponent system of two mirror-image subunits. Each subunit receives inputs from two spatiotemporal filters (receptive fields), multiplies the filter outputs, and temporally integrates the product. Subunit outputs are algebraically subtracted to yield ERD output. ERD's can correctly indicate direction of motion of drifting sine waves of any spatial and temporal frequency. Here we prove that with a careful choice of either temporal or spatial filters, the subunits can themselves become quite similar or equivalent to the whole ERD; with suitably chosen filters, the ERD is equivalent to an elaborated version of a motion detector proposed by Watson and Ahumada [NASA Tech. Memo. 84352 (1983)]; and for every choice of filters, the ERD is fully equivalent to the detector proposed by Adelson and Bergen [J. Opt. Soc. Am. A 2, 284-299 (1985)]. Some equivalences between the motion detection (in x, t) by ERD's and spatial pattern detection (in x, y) are demonstrated. The responses of the ERD and its variants to drifting sinusoidal gratings, to other sinusoidally modulated stimuli (on-off gratings, counterphase flicker), and to combinations of sinusoids are derived and compared with data. ERD responses to two-frame motion displays are derived, and several new experimental predictions are tested experimentally. (ABSTRACT TRUNCATED AT 250 WORDS)
Study of the Long-Term Results of Decompressive Craniectomy after Severe Traumatic Brain Injury Based on a Series of 60 Consecutive Cases

Background. Decompressive craniectomy can be proposed in the management of severe traumatic brain injury. Current studies report mixed results, preventing any clear conclusions on the place of decompressive craniectomy in traumatology. Methods. The objective of this retrospective study was to evaluate the results of all decompressive craniectomies performed between 2005 and 2011 for refractory intracranial hypertension after severe traumatic brain injury. Sixty patients were included. Clinical parameters (Glasgow scale, pupillary examination) and radiological findings (Marshall CT scale) were analysed. Complications, clinical outcome, and early and long-term Glasgow Outcome Scale (GOS) were evaluated after surgery. Finally, the predictive value of preoperative parameters to guide the clinician's decision to perform craniectomy was studied. Results. Craniectomy was unilateral in 58 cases and the mean bone flap area was 100 cm2. Surgical complications were observed in 6.7% of cases. Mean followup was 30 months and a favourable outcome was obtained in 50% of cases. The initial Glasgow Scale was the only statistically significant predictive factor for long-term outcome. Conclusion. Despite the discordant results in the literature, this study demonstrates that decompressive craniectomy is useful for the management of refractory intracranial hypertension after severe traumatic brain injury.
Replication of the R Factor Rts1 in Proteus mirabilis

The replication of the R factor Rts1 in Proteus mirabilis was examined by using the technique of CsCl density-gradient centrifugation. The proportion of Rts1 deoxyribonucleic acid (DNA) relative to the host chromosomal DNA (% R-DNA) was 7% in both exponential and stationary growth phases in Penassay Broth and supplemented M9 minimal medium at 30 C. The chromosomal DNA content per cell varied over a threefold range in the different growth media. In agreement with previous genetic observations, the replication of Rts1 was found to be temperature-sensitive and Rts1 DNA was diluted from the cells during exponential growth at 42 C. (14)N-(15)N medium transfer experiments have shown that individual copies of Rts1 are selected at random for replication during the duplication of the multicopy episome pool.
Impact of DDT re-introduction on malaria transmission in KwaZulu-Natal.

OBJECTIVES To determine whether the re-introduction of DDT in KwaZulu-Natal had any effects on malaria transmission in the province. DESIGN, SETTING AND SUBJECTS The 2000 malaria epidemic in KwaZulu-Natal has been attributed to pyrethroid-resistant anopheles mosquitoes in the area. Previous studies have shown that these mosquitoes are still susceptible to DDT. To determine whether DDT re-introduction had any impact on malaria transmission in KwaZulu-Natal, the following variables (pre- and post-epidemic) were investigated: (i) the number of reported cases; and (ii) the distribution of Anopheles funestus in relation to the insecticides sprayed. OUTCOME MEASURES The notified malaria cases and the distribution of A. funestus were measured to determine the effects of DDT re-introduction on malaria transmission. RESULTS AND CONCLUSION After DDT re-introduction, the number of malaria cases decreased to levels lower than those recorded before the epidemic. A. funestus appears to have been eradicated from the province. The combination of an effective insecticide and effective antimalarial drugs in KwaZulu-Natal has resulted in a 91% decline in the malaria incidence rate. Unfortunately the continued exclusive use of DDT within the malarious areas of the province is threatened by the emergence of insecticide resistance.