Miracle-dz/UniFAR-FTUs huggingface dataset:
Confirmation of the validity of the psychophysical light scattering factor.

PURPOSE To reevaluate the validity of the light scatter factor (LSF) formula of Paulsson and Sjöstrand, LSF = L/E (M2/M1-1), where L is the target luminance, E is the illuminance of the glare source at the eye, and M2 and M1 are modulation contrast thresholds measured with and without the glare source, respectively. This equation has recently been deemed invalid by Yager, Yuan, and Mathews. METHOD Ratios of contrast thresholds with and without glare were measured for three glare illuminance levels for each of three stimulus luminances. This results in five different ratios of L/E, spanning a range of 1.60 log units. RESULTS The data show an excellent fit to the Paulsson and Sjöstrand equation, and the LSF scores conform well to previously published normative values. CONCLUSION The light scatter factor equation of Paulsson and Sjöstrand is confirmed as valid without resorting to the need for correction factors based on variables such as pupil size.
The need for routine eye examinations.

PURPOSE To determine the incidence and causes of vision loss to assist in the objective determination of the preferred frequency of routine screening for those with normal vision. METHODS A prospective, population-based study of people aged 40 or more years. Standardized examination protocols were used that included presenting and best corrected visual acuity, visual field testing, and comprehensive eye examination with dilation. RESULTS There were 2529 people with a full data set, including 1590 with a normal baseline examination. The 5-year incidence of vision loss (<6/12 presenting acuity in the worse eye) was 2.39%. Overall, 24 (63%) of 38 of those with vision loss had noticed a change in their vision, and 18 (75%) of these 24 had attended an eye examination. This left only 14 (0.88%) people who had had normal baseline examination results and had asymptomatic vision loss develop over this 5-year period. CONCLUSIONS Frequent routine eye examinations of those with normal examination results will have a low yield and may not be cost effective. Health promotion messages should target those who notice a change in vision and those at higher risk such as those with diabetes or a family history of eye disease.
Splenic artery embolization: Have we gone too far?

BACKGROUND Splenic artery angioembolization (EMBO) has been promoted to increase the success rate of nonoperative management of splenic injuries. Our institutional clinical pathway calls for EMBO in the setting of ongoing splenic bleeding or contrast blush on computed tomography scan. We perceived a higher rate of failure than that reported in the literature. The purpose of this study was to review our experience with splenic EMBO to identify predictors of failure of nonoperative/EMBO management. METHODS The trauma registry and interventional radiology database of a Level I trauma center were reviewed for patients with splenic injuries from January 2000 through June 2004. Charts and films of patients undergoing EMBO were reviewed. RESULTS There were 221 patients admitted with blunt splenic injuries. Of these, 165 (75%) were selected for nonoperative management; 41 (25%) of them underwent splenic EMBO. Of the 41, 11 patients (27%) failed nonoperative/EMBO management. Of nine patients with low-grade injury (I, II) and small or no hemoperitoneum, none failed EMBO, whereas 10 of 23 (43%) with high-grade injury (III, IV, V) and moderate or large hemoperitoneum failed. EMBO was more likely to fail if extravasation was seen on angiography (59% vs. 4%). Coils (vs. particles) and main (vs. selective) artery EMBO were more often successful. Of EMBO patients who experienced transient hypotension, 57% required splenectomy. CONCLUSIONS EMBO may have salvaged many spleens, but splenectomy was required in 27% of EMBO patients. Patient selection is critical to successful management. Any hypotension in the face of a contrast blush probably warrants laparotomy. The combination of high grade injury and significant hemoperitoneum, or extravasation on angiogram, predict a high risk of failure and thus warrant a low threshold for splenectomy if bleeding persists. Technical EMBO considerations may impact success, but this requires further investigation.
Functional connectivity in the default network during resting state is preserved in a vegetative but not in a brain dead patient

Recent studies on spontaneous fluctuations in the functional MRI blood oxygen level‐dependent (BOLD) signal in awake healthy subjects showed the presence of coherent fluctuations among functionally defined neuroanatomical networks. However, the functional significance of these spontaneous BOLD fluctuations remains poorly understood. By means of 3 T functional MRI, we demonstrate absent cortico‐thalamic BOLD functional connectivity (i.e. between posterior cingulate/precuneal cortex and medial thalamus), but preserved cortico‐cortical connectivity within the default network in a case of vegetative state (VS) studied 2.5 years following cardio‐respiratory arrest, as documented by extensive behavioral and paraclinical assessments. In the VS patient, as in age‐matched controls, anticorrelations could also be observed between posterior cingulate/precuneus and a previously identified task‐positive cortical network. Both correlations and anticorrelations were significantly reduced in VS as compared to controls. A similar approach in a brain dead patient did not show any such long‐distance functional connectivity. We conclude that some slow coherent BOLD fluctuations previously identified in healthy awake human brain can be found in alive but unaware patients, and are thus unlikely to be uniquely due to ongoing modifications of conscious thoughts. Future studies are needed to give a full characterization of default network connectivity in the VS patients population. Hum Brain Mapp, 2009. © 2009 Wiley‐Liss, Inc.
Data Analysis and Optimization for (Citi)Bike Sharing

Bike-sharing systems are becoming increasingly prevalent in urban environments. They provide a low-cost, environmentally-friendly transportation alternative for cities. The management of these systems gives rise to many optimization problems. Chief among these problems is the issue of bicycle rebalancing. Users imbalance the system by creating demand in an asymmetric pattern. This necessitates action to put the system back in balance with the requisite levels of bicycles at each station to facilitate future use. In this paper, we tackle the problem of maintaing system balance during peak rush-hour usageas well as rebalancing overnight to prepare the systemfor rush-hour usage. We provide novel problem formulationsthat have been motivated by both a close collaborationwith the New York City bike share (Citibike) and a careful analysisof system usage data. We analyze system data to discover the best placement of bikes tofacilitate usage. We solve routing problems forovernight shifts as well as clustering problems for handlingmid rush-hour usage. The tools developed from this research are currently in daily use at NYC Bike Share LLC, operators of Citibike.
The Reduction of Regional Cerebral Blood Flow in Normal-Appearing White Matter Is Associated with the Severity of White Matter Lesions in Elderly: A Xeon-CT Study

White matter lesions (WMLs) in normal elderly are related to chronic ischemia, and progression of WML occurs mostly in moderate to severe disease. However, the mechanism is uncertain. Thus, we enrolled fifty-six normal elderly patients without large artery disease. The severity of WML on MRI was graded as grade 0, I, II and III using the modified Fazekas scale. Cerebral blood flow (CBF) was measured by Xenon-CT. We found that CBF (mL/100 g/min) within periventricular lesions and in the right and left centrum semiovales were 20.33, 21.27 and 21.03, respectively, in group I; 16.33, 15.55 and 15.91, respectively, in group II; and 14.05, 14.46 and 14.23, respectively, in group III. CBF of normal-appearing white matter (NAWM) around periventricular areas and in the right and left centrum semiovales were 20.79, 22.26 and 22.15, respectively, in group 0; 21.12, 22.17 and 22.25, respectively, in group I; 18.02, 19.45 and 19.62, respectively, in group II; and 16.38, 18.18 and 16.74, respectively, in group III. Significant reductions in CBF were observed not only within lesions but also in NAWM surrounding the lesions. In addition, CBF was reduced significantly within lesions compared to NAWM of the same grade. Furthermore, CBF was reduced significantly in NAWM in grades II and III when compared to grades 0 and I. Our finding indicates that ischemia may play a role in the pathogenesis of WML. Additionally, our finding provides an alternative explanation for finding that the progression of WML occurred more commonly in patients with moderate to severe WML.
Optimal Deployment Patterns for Full Coverage and $k$-Connectivity $(k \leq 6)$ Wireless Sensor Networks

In this paper, we study deployment patterns to achieve full coverage and <i>k</i> -connectivity <i>(k</i> ≤ 6) under different ratios of the sensor communication range (denoted by <i>R</i><sub>c</sub>) to the sensing range (denoted by <i>R</i><sub>s</sub>) for homogeneous wireless sensor networks (WSNs). In particular, we propose new patterns for 3- and 5-connectivity. We also discover that there exists a hexagon-based universally elemental pattern that can generate all known optimal patterns. The previously proposed Voronoi-based approach cannot be applied to prove the optimality of the new patterns due to their special features. We propose a new deployment-polygon-based methodology. We prove the optimality of deployment patterns to achieve 3-connectivity, 4-connectivity, and 5-connectivity for certain ranges of <i>R</i><sub>c</sub>/<i>R</i><sub>s</sub>, respectively, and prove the optimality of deployment patterns to achieve 6-connectivity under all ranges of <i>R</i><sub>c</sub>/<i>R</i><sub>s</sub>.
Gefitinib, a novel, orally administered agent for the treatment of cancer

Traditional cytotoxic anticancer therapies do not differentiate between tumour and host cells, and research efforts have been focused on finding new agents that target tumour tissue. Gefitinib (‘Iressa’, ZD1839) is an orally active epidermal growth factor receptor tyrosine kinase inhibitor that blocks signal pathways implicated in solid tumour growth and metastasis. In phase II trials, gefitinib 250 mg/day demonstrated efficacy in the control of advanced non‐small‐cell lung cancer (NSCLC) in patients who had undergone prior chemotherapy. Response rates were 18·4 and 11·8%, and disease control rates were 54·4 and 42·2%, at 250 mg/day in two multicentre trials – IDEAL 1 and 2. Gefitinib also caused rapid relief from the symptoms of NSCLC in approximately 40% of patients, while displaying a generally good tolerability profile that most commonly included mild, reversible gastrointestinal and skin adverse events. Gefitinib 250 mg/day has been approved for use in advanced, previously treated NSCLC in several countries including the USA, Japan and Australia. As a monotherapy and combination therapy, it is being investigated for the treatment of several common tumour types in addition to NSCLC. The pharmacokinetics of gefitinib have shown it to be suitable for once daily dosing, with a terminal half‐life of approximately 48 h in patients with cancer. Steady‐state exposure is achieved after 10 days dosing, and exposure is dose proportional up to 250 mg/day. Gefitinib is cleared principally by the biliary route and in part by metabolism. This review summarizes relevant data from studies of gefitinib that inform its clinical administration.
THE DIFFUSION-MULTIPLE APPROACH TO DESIGNING ALLOYS

▪ Abstract The diffusion-multiple approach—the creation of composition gradients and intermetallic phases by long-term annealing of junctions of three or more phases/alloys—enables the generation of a large number of phases and compositions for efficient mapping of phase diagrams, phase properties, and kinetics. With an efficiency much higher than that of a conventional approach, many critical materials data, which otherwise would be too time-consuming and expensive to acquire, can be obtained and employed to accelerate alloy design. The critical data for structural materials design include phase diagrams, diffusion coefficients, precipitation kinetics, solution-strengthening effects, and precipitation-strengthening effects. All these data can be obtained from diffusion multiples. The combination of the diffusion-multiple approach with the CALPHAD approach can impact computational design of structural materials. The diffusion-multiple approach can also be applied to combinatorial screening of functional m.
Measurement and analysis of a microwave oscillator stabilized by a sapphire dielectric ring resonator for ultra-low noise

Phase-noise measurements are presented for a microwave oscillator whose frequency is stabilized by a whispering gallery mode sapphire ring resonator with Q of 2*10/sup 5/. The nature of the mode, which involves little metallic conduction, allows nearly full use of the very low dielectric loss in sapphire. Several mode families have been identified with good agreement with calculated frequency predictions. Waveguide coupling parameters have been characterized for the principal (lowest frequency) mode family, for n=5 to n=10 full waves around the perimeter. For a 5-cm wheel resonator in a 7.6-cm container, Q-values of above 10/sup 5/ were found at room temperature for all of the modes in this sequence. Coupling Q-values for the same modes ranged from 10/sup 4/ (n=5) to 10/sup 5/ (n=10) for a WR112 waveguide port at the center of the cylinder wall of the containing can. Phase noise measurements for a transistor oscillator locked to the n=10 (7.84-GHz) mode showed a 1/f/sup 3/ dependence for low offset frequencies, and a value of L(f)=-55 dB/Hz at an offset of 10 Hz from the carrier. The oscillator shows phase noise below the previously reported for any X-band source. <<ETX>>
Single Insulin-Specific CD8+ T Cells Show Characteristic Gene Expression Profiles in Human Type 1 Diabetes

OBJECTIVE Both the early steps and the high recurrence of autoimmunity once the disease is established are unexplained in human type 1 diabetes. Because CD8+ T cells are central and insulin is a key autoantigen in the disease process, our objective was to characterize HLA class I–restricted autoreactive CD8+ T cells specific for preproinsulin (PPI) in recent-onset and long-standing type 1 diabetic patients and healthy control subjects. RESEARCH DESIGN AND METHODS We used HLA-A*02:01 tetramers complexed to PPI peptides to enumerate circulating PPI-specific CD8+ T cells in patients and characterize them using membrane markers and single-cell PCR. RESULTS Most autoreactive CD8+ T cells detected in recent-onset type 1 diabetic patients are specific for leader sequence peptides, notably PPI6–14, whereas CD8+ T cells in long-standing patients recognize the B-chain peptide PPI33–42 (B9–18). Both CD8+ T-cell specificities are predominantly naïve, central, and effector memory cells, and their gene expression profile differs from cytomegalovirus-specific CD8+ T cells. PPI6–14–specific CD8+ T cells detected in one healthy control displayed Il-10 mRNA expression, which was not observed in diabetic patients. CONCLUSIONS PPI-specific CD8+ T cells in type 1 diabetic patients include central memory and target different epitopes in new-onset versus long-standing disease. Our data support the hypothesis that insulin therapy may contribute to the expansion of autoreactive CD8+ T cells in the long term.
Combined Noninvasive Imaging and Modeling Approaches Reveal Metabolic Compartmentation in the Barley Endosperm[W][OA]

This research integrates dynamic NMR-based imaging and metabolic modeling to study the spatial arrangement of metabolism in the living grain of barley. Distinct metabolic compartments within the endosperm are uncovered and visualized using Ala as a marker. The beneficial role of metabolic compartmentation for carbon and nitrogen economy is discussed. The starchy endosperm of cereals is a priori taken as a metabolically uniform tissue. By applying a noninvasive assay based on 13C/1H-magnetic resonance imaging (MRI) to barley (Hordeum vulgare) grains, we uncovered metabolic compartmentation in the endosperm. 13C-Suc feeding during grain filling showed that the primary site of Ala synthesis was the central region of the endosperm, the part of the caryopsis experiencing the highest level of hypoxia. Region-specific metabolism in the endosperm was characterized by flux balance analysis (FBA) and metabolite profiling. FBA predicts that in the central region of the endosperm, the tricarboxylic acid cycle shifts to a noncyclic mode, accompanied by elevated glycolytic flux and the accumulation of Ala. The metabolic compartmentation within the endosperm is advantageous for the grain's carbon and energy economy, with a prominent role being played by Ala aminotransferase. An investigation of caryopses with a genetically perturbed tissue pattern demonstrated that Ala accumulation is a consequence of oxygen status, rather than being either tissue specific or dependent on the supply of Suc. Hence the 13C-Ala gradient can be used as an in vivo marker for hypoxia. The combination of MRI and metabolic modeling offers opportunities for the noninvasive analysis of metabolic compartmentation in plants.
Which Compound to Select in Lead Optimization? Prospectively Validated Proteochemometric Models Guide Preclinical Development

In quite a few diseases, drug resistance due to target variability poses a serious problem in pharmacotherapy. This is certainly true for HIV, and hence, it is often unknown which drug is best to use or to develop against an individual HIV strain. In this work we applied ‘proteochemometric’ modeling of HIV Non-Nucleoside Reverse Transcriptase (NNRTI) inhibitors to support preclinical development by predicting compound performance on multiple mutants in the lead selection stage. Proteochemometric models are based on both small molecule and target properties and can thus capture multi-target activity relationships simultaneously, the targets in this case being a set of 14 HIV Reverse Transcriptase (RT) mutants. We validated our model by experimentally confirming model predictions for 317 untested compound – mutant pairs, with a prediction error comparable with assay variability (RMSE 0.62). Furthermore, dependent on the similarity of a new mutant to the training set, we could predict with high accuracy which compound will be most effective on a sequence with a previously unknown genotype. Hence, our models allow the evaluation of compound performance on untested sequences and the selection of the most promising leads for further preclinical research. The modeling concept is likely to be applicable also to other target families with genetic variability like other viruses or bacteria, or with similar orthologs like GPCRs.
The rapid isolation of vacuoles from leaves of crassulacean Acid metabolism plants.

A technique is presented for the isolation of vacuoles from Sedum telephium L. leaves. Leaf material is digested enzymically to produce protoplasts rapidly which are partially lysed by gentle osmotic shock and the inclusion of 5 millimolar ethyleneglycol-bis (beta-aminoethyl ether)N,N'-tetraacetic acid in the wash medium. Vacuoles are isolated from the partially lysed protoplasts by brief centrifugation on a three-step Ficoll-400 gradient consisting of 5, 10, and 15% (w/v) Ficoll-400. A majority of the vacuoles accumulate at the 5 to 10% Ficoll interface, whereas a smaller proportion sediments at the 10 to 15% Ficoll-400 interface. The total time required for vacuole isolation is 2 to 2.5 hours, beginning from leaf harvest.The yield of vacuoles is approximately 44%. The major vacuole layer is < 7% contaminated by marker enzymes from the cytoplasm and other organelles but shows no contamination by chloroplasts. Isolated vacuoles were stable for >15 hours when left in Ficoll; however, dispersion into media of various osmotic concentrations resulted in decreased stability. Addition of mercaptobenzothiazole, CaCl(2), MgCl(2), bovine serum albumin, ethylenediaminetetraacetic acid, polyethylene glycol 600, and KH(2)PO(4) to the vacuole isolation media did not increase the stability of the isolated vacuoles.THIS TECHNIQUE WITH ONLY SLIGHT MODIFICATIONS HAS BEEN USED TO ISOLATE LEAF CELL VACUOLES FROM THE FOLLOWING CRASSULACEAN ACID METABOLISM PLANTS: pineapple, Kalanchoë fedtschenkoi, and Echeveria elegans. Spinach leaves also were used successfully.
Early Jurassic diversification of pycnodontiform fishes (Actinopterygii, Neopterygii) after the end-Triassic extinction event: evidence from a new genus and species, Grimmenodon aureum

ABSTRACT A new genus and species of pycnodontiform fishes, Grimmenodon aureum, from marginal marine, marinebrackish lower Toarcian (Harpoceras exaratum ammonite subzone) clay deposits of Grimmen in northeastern Germany is described. The single specimen represents a diagnostic left prearticular dentition characterized by unique tooth arrangement and ornamentation patterns. Grimmenodon aureum, gen. et sp. nov., is the second unambiguously identified pycnodontiform species from the Early Jurassic, in addition to Eomesodon liassicus from the early Lower Jurassic of western Europe. We also report an indeterminate pycnodontiform tooth crown from the upper Pliensbachian (Pleuroceras apyrenum ammonite subzone) of the same site. The material expands the Early Jurassic range of pycnodontiforms significantly northwards and confirms their presence before and immediately following the onset of the Toarcian Oceanic Anoxic Event (T-OAE) in the marginal marine ecosystems south of the Fennoscandian Shield. Moreover, the new records indicate that the Early Jurassic diversity of pycnodontiform fishes was greater than previously assumed and probably equaled that of the Late Triassic. Therefore, it is hypothesized that the Triassic-Jurassic mass extinction event did not affect pycnodontiform fishes significantly. Micro-computed tomography was used to study the internal anatomy of the prearticular of Grimmenodon aureum, gen. et sp. nov. Our results show that no replacement teeth were formed within the tooth-bearing bone but rather were added posteriorly to functional teeth.
Relevance Feedback in Deep Convolutional Neural Networks for Content Based Image Retrieval

In this paper a novel Relevance Feedback approach that uses deep Convolutional Neural Networks (CNNs) for image retrieval is proposed. We utilize a deep CNN model to refine the feature representations of the deeper layer used for the retrieval, based on the feedback of the user. To this end, we adapt the pretrained model and we re-train the corresponding neural layers on relevant and irrelevant images, as qualified by the user. If the feedback of the users is large enough a generic model refinement method is also proposed, for improving the entire performance of the system in the retrieval task. In this case, we refine the deep CNN weights based on the feedback gathered from multiple users, forming a new training set. Experimental results denote the effectiveness of the proposed method in accomplishing better retrieval results with respect to a certain user's information need. The validation of the proposed approach on the queries used in the relevance feedback as well as on a generic unseen query dataset, demonstrates the improvement on the retrieval performance, as shown in the experimental results.