gebhart/patrepeval huggingface dataset:
MRI lung lobe segmentation in pediatric cystic fibrosis patients using a recurrent neural network trained with publicly accessible CT datasets (2021)

Purpose: To introduce a widely applicable workflow for pulmonary lobe segmentation of MR images using a recurrent neural network (RNN) trained with chest computed tomography (CT) datasets. The feasibility is demonstrated for 2D coronal ultra-fast balanced steady-state free precession (ufSSFP) MRI. Methods: Lung lobes of 250 publicly accessible CT datasets of adults were segmented with an open-source CT-specific algorithm. To match 2D ufSSFP MRI data of pediatric patients, both CT data and segmentations were translated into pseudo-MR images, masked to suppress anatomy outside the lung. Network-1 was trained with pseudo-MR images and lobe segmentations, and applied to 1000 masked ufSSFP images to predict lobe segmentations. These outputs were directly used as targets to train Network-2 and Network-3 with non-masked ufSSFP data as inputs, and an additional whole-lung mask as input for Network-2. Network predictions were compared to reference manual lobe segmentations of ufSSFP data in twenty pediatric cystic fibrosis patients. Manual lobe segmentations were performed by splitting available whole-lung segmentations into lobes. Results: Network-1 was able to segment the lobes of ufSSFP images, and Network-2 and Network-3 further increased segmentation accuracy and robustness. The average all-lobe Dice similarity coefficients were 95.0$\pm$2.8 (mean$\pm$pooled SD [%]), 96.4$\pm$2.0, 93.0$\pm$2.0, and the average median Hausdorff distances were 6.1$\pm$0.9 (mean$\pm$SD [mm]), 5.3$\pm$1.1, 7.1$\pm$1.3, for Network-1, Network-2, and Network-3, respectively. Conclusions: RNN lung lobe segmentation of 2D ufSSFP imaging is feasible, in good agreement with manual segmentations. The proposed workflow might provide access to automated lobe segmentations for various lung MRI examinations and quantitative analyses.
Human genetic variation altering anthrax toxin sensitivity (2012)

The outcome of exposure to infectious microbes or their toxins is influenced by both microbial and host genes. Some host genes encode defense mechanisms, whereas others assist pathogen functions. Genomic analyses have associated host gene mutations with altered infectious disease susceptibility, but evidence for causality is limited. Here we demonstrate that human genetic variation affecting capillary morphogenesis gene 2 (CMG2), which encodes a host membrane protein exploited by anthrax toxin as a principal receptor, dramatically alters toxin sensitivity. Lymphoblastoid cells derived from a HapMap Project cohort of 234 persons of African, European, or Asian ancestry differed in sensitivity mediated by the protective antigen (PA) moiety of anthrax toxin by more than four orders of magnitude, with 99% of the cohort showing a 250-fold range of sensitivity. We find that relative sensitivity is an inherited trait that correlates strongly with CMG2 mRNA abundance in cells of each ethnic/geographical group and in the combined population pool (P = 4 × 10(-11)). The extent of CMG2 expression in transfected murine macrophages and human lymphoblastoid cells affected anthrax toxin binding, internalization, and sensitivity. A CMG2 single-nucleotide polymorphism (SNP) occurring frequently in African and European populations independently altered toxin uptake, but was not statistically associated with altered sensitivity in HapMap cell populations. Our results reveal extensive human diversity in cell lethality dependent on PA-mediated toxin binding and uptake, and identify individual differences in CMG2 expression level as a determinant of this diversity. Testing of genomically characterized human cell populations may offer a broadly useful strategy for elucidating effects of genetic variation on infectious disease susceptibility.
ChemInform Abstract: The Mystery of Chlorophyll Degradation: Constitution of a seco‐ Porphinoide Catabolite. (1991)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Microvascular and Interstitial Oxygen Tension in the Renal Cortex and Medulla Studied in A 4-H Rat Model of LPS-Induced Endotoxemia (2011)

The pathophysiology of sepsis-induced acute kidney injury remains poorly understood. As changes in renal perfusion and oxygenation have been shown, we aimed to study the short-term effects of endotoxemia on microvascular and interstitial oxygenation in the cortex and medulla, in conjunction with global and renal hemodynamics. In a 4-h rat model of endotoxemia, we simultaneously assessed renal artery blood flow and microvascular and interstitial oxygen tensions in the renal cortex and medulla using ultrasonic flowmetry, dual wavelength phosphorimetry, and tissue oxygen tension monitoring, respectively. Whereas medullary microvascular and interstitial oxygen tensions decreased promptly in line with macrovascular blood flow, changes in cortical oxygenation were only seen later on. During the entire experimental protocol, the gradient between microvascular PO₂ and tissue oxygen tension remained unchanged in both cortex and outer medulla. At study end, urine output was significantly decreased despite a maintained oxygen consumption rate. In this 4-h rat model of endotoxemia, total renal oxygen consumption and the gradient between microvascular PO₂ and tissue oxygen tension remained unaltered, despite falls in renal perfusion and oxygen delivery and urine output. Taken in conjunction with the decrease in urine output, our results could represent either a functional renal impairment or an adaptive response.
Resolving the Heat Generated from ZrO2 Atomic Layer Deposition Surface Reactions (2023)

In situ pyroelectric calorimetry and spectroscopic ellipsometry were used to investigate surface reactions in atomic layer deposition (ALD) of zirconium oxide (ZrO<sub>2</sub> ). Calibrated and time-resolved in situ ALD calorimetry provides new insights into the thermodynamics and kinetics of saturating surface reactions for tetrakis(dimethylamino)zirconium(IV) (TDMAZr) and water. The net ALD reaction heat ranged from 0.197 mJ cm<sup>-2</sup> at 76 °C to 0.155 mJ cm<sup>-2</sup> at 158 °C, corresponding to an average of 4.0 eV/Zr at all temperatures. A temperature dependence for reaction kinetics was not resolved over the range investigated. The temperature dependence of net reaction heat and distribution among metalorganic and oxygen source exposure is attributed to factors including growth rate, equilibrium surface hydroxylation, and the extent of the reaction. ZrO<sub>2</sub> -forming surface reactions were investigated computationally using DFT methods to better understand the influence of surface hydration on reaction thermodynamics.
The reversibility of canine vein-graft arterialization. (1990)

We assessed the reversibility of functional and morphological changes of arterialized vein segments by returning them to the venous circulation. Thirteen dogs underwent right carotid and femoral veno-arterial grafting. After 12 weeks, veno-arterial grafts were removed for contractility (norepinephrine [NE] and 5-hydroxytryptamine [5-HT]), luminal prostacyclin (PGI2), and morphometric analyses; the remaining segments were used as left jugular and femoral veno-venous grafts. After another 12 weeks, the veno-venous grafts were harvested. To NE, veno-arterial grafts (ED50, 5.4 +/- 0.1 [-log M]) were less sensitive than control veins (ED50, 6.0 +/- 0.2) or veno-venous grafts (ED50, 6.4 +/- 0.2) but were more sensitive than control arteries (ED50, 4.0 +/- 0.1); the maximum tension of veno-arterial grafts (6.2 +/- 0.6 g) was greater than that of veins, less than that of arteries (9.8 +/- 1.0 g), and comparable with that of veno-venous grafts (5.1 +/- 1.1 g). To 5-HT, veno-arterial (ED50, 7.5 +/- 0.1) and veno-venous (ED50, 7.3 +/- 0.2) grafts were more sensitive than arteries (ED50, 6.0 +/- 0.3), while the vein was unresponsive; the maximum tension of veno-arterial grafts (5.0 +/- 0.7 g) was less than that of arteries (6.9 +/- 0.9 g) and greater than that of veno-venous grafts (1.4 +/- 0.3 g). PGI2 production in veins (3.6 +/- 0.8 ng/ml), veno-arterial grafts (3.9 +/- 0.8 ng/ml), and veno-venous grafts (3.3 +/- 0.9 ng/ml) was comparable and less than that of arteries (6.4 +/- 0.9 ng/ml). Veno-arterial graft intimal thickness (127 +/- 8 microns) and intimal area (15.6 +/- 1.8 x 10(3) microns 2) tended to be greater than that in the veno-venous graft (113 +/- 9 microns and 12.4 +/- 1.8 x 10(3) microns 2); also, the veno-arterial graft medial area (103.0 +/- 7.3 x 10(3) microns 2) was greater than that of the veno-venous graft (80.3 +/- 6.9 x 10(3) microns 2), thereby resulting in a similar relative intimal area (13 +/- 1%). Therefore, some changes associated with arterialization, for example, adrenergic sensitivity, maximum tension to 5-HT, medial thickening, and perhaps intimal hyperplasia, reverted toward venous values when replaced in the venous environment, possibly due to variations in pressure, flow, shear stress, and/or graft preparation techniques. Luminal PGI2 was unchanged in the grafts, implying that graft contractility was not modulated by luminal PGI2.
Percutaneous damage control with self-expanding foam: pre-hospital rescue from abdominal exsanguination (2015)

Non-compressible intra-abdominal hemorrhage results in significant morbidity and mortality in contemporary trauma medicine. Regrettably, many deaths from non-compressible hemorrhage are attributable to potentially survivable injuries. A self-expanding polyurethane foam has been developed for rapid, percutaneous damage control of exsanguinating abdominal hemorrhage, for patients not expected to survive to definitive surgical care. Foam intervention creates a temporary, commensal, hemostatic environment within the abdominal cavity. This tropism away from exsanguination physiology creates a hemostatic bridge such that the patient may reach definitive surgical intervention. This review article summarizes the existing literature characterizing the safety and efficacy of this intervention, along with a study in recently deceased patients that enables dose translation from animal models to human beings.
Stress monitoring using a distributed wireless intelligent sensor system (2003)

We are developing personal health monitors based on a wireless body area network (BAN) of intelligent sensors. Individual monitors will be integrated into a distributed wireless system for synchronized monitoring of a group of subjects. This system could be used during the selection process and as part of a psychophysiological evaluation of military members undergoing intense training. We use measures of heart-rate variability to quantify stress level prior to and during training as well as to predict stress resistance. This task requires reliable, high-precision instrumentation and synchronized measurements from a group of individuals over prolonged periods (days of training).
Secure Software Installation on Smartphones (2010)

This overview of iOS, Android, BlackBerry, and Symbian security frameworks includes a novel classification of third-party-application installation models. It also discusses how controlled app marketplaces fit in the smartphone security ecosystem.
Synthesis of erythro-ω-aminosphingosine and preparation of an affinity column for sphingosine kinase purification (1996)

The de novo synthesis of a C-17 erythro-ω-aminosphingosine homologue using L-serine is described together with its conjugation to Affi-Gel 10.
Effect of Solvents on De-Cross-Linking of Cross-Linked Polyethylene under Subcritical and Supercritical Conditions (2013)

The effect of various solvents on the de-cross-linking reaction of cross-linked polyethylene under subcritical and supercritical conditions was studied. The gel content of the de-cross-linked polyethylene decreased from 60 to 0.8–2.5% at 380 °C within 5 min in all of the solvents tested in this study. When water, ethanol, and 2-propanol were used, the Mw of the de-cross-linked polyethylenes decreased from 349,000 to 200,000–227,000 g/mol, and much lower Mw values of 70,000–90,000 g/mol were observed when acetone and diisopropyl ether were used. The de-cross-linked polyethylenes treated in the different solvents had a very similar chemical structure to raw polyethylene. According to a kinetic study using a first-order reaction model, the de-cross-linking rate in each solvent increased in the order 2-propanol < ethanol < n-hexane < water < methanol ≪ diisopropyl ether ≪ acetone at 350 °C.
Preparation of a novel phosphorus-phosphorus bonded diphosphine (1985)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTPreparation of a novel phosphorus-phosphorus bonded diphosphineThomas V. Harris and Wayne R. PretzerCite this: Inorg. Chem. 1985, 24, 25, 4437–4439Publication Date (Print):December 1, 1985Publication History Published online1 May 2002Published inissue 1 December 1985https://pubs.acs.org/doi/10.1021/ic00219a052https://doi.org/10.1021/ic00219a052research-articleACS PublicationsRequest reuse permissionsArticle Views146Altmetric-Citations14LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Mixed-resolution view synthesis using non-local means refined image merging (2012)

Synthesizing novel views from originally available camera perspectives via depth maps is a key issue in the 3D video domain. Up to now, several high-resolution cameras are needed to obtain high-quality intermediate synthesized views. One possibility to reduce costs with regard to the used camera array is to replace some cameras by low-resolution cameras, which are cheaper on the one hand, but provide a much poorer image quality on the other hand. Unfortunately, some of the information inside the desired intermediate view may only be available in the low-resolution reference. Thus, the image quality of the low-resolution reference has a big influence on the visual quality of the synthesized view. This paper proposes a postprocessing step for the synthesized view, based on the non-local means algorithm. Thereby, all areas inserted from the low-resolution reference get efficiently adapted to their high-resolution environment. It is shown, that the non-local means refined image merging leads to a PSNR gain of up to 0.90 dB compared to an unrefined mixed-resolution setup. The approach can be easily extended to a hole-filling algorithm and yields a PSNR gain of up to 0.81 dB for hole areas compared to a reference hole-filling algorithm. The subjective image quality also increases convincingly in both applications.
THE MOLECULAR STRUCTURE OF CIS-2-t-BUTYLAMINO-2-SELENO-4,4,6-TRIMETHYL-1,3,2-DIOXAPHOSPHORINANE C10H22NO2PSe, AN EXAMPLE OF THE TWIST-BOAT CONFORMATION (1978)

Abstract Diastereoisomeric 2-t-butylamino-2-seleno-4,4,6-trimethyl-1,3,2-dioxaphosphorinans have been prepared and separated into pure cis- and trans-isomers. The minor isomer (cis) was investigated by means of x-ray crystallography and its has been demonstrated, that in solid state is possesses twist-boat conformation.
Circular RNAs With Efficacy in PreclinicalIn VitroandIn VivoModels of Esophageal Squamous Cell Carcinoma (2022)

Esophageal cancer is associated with a dismal prognosis. The armamentarium of approved drugs is focused on chemotherapy with modest therapeutic benefit. Recently, checkpoint inhibitory monoclonal antibody Pembrolizumab was approved. In order to identify new targets and modalities for the treatment of esophagus squamous cell carcinoma (ESCC) we searched the literature for circRNAs involved in the pathogenesis of ESCC. We identified two down-regulated and 17 up-regulated circRNAs as well as a synthetic circRNA with efficacy in preclinical in vivo systems. Down-regulated circRNAs sponge microRNAs directed against tumor suppressor genes. Up-regulated circRNAs sponge microRNAs directed against mRNAs, which encode proteins with pro-tumoral functions. We discuss issues such as reconstitution of down-regulated circRNAs and inhibition of up-regulated circRNAs with short interfering RNA (siRNA)- related entities. Also, we address druggability issues of the identified targets.
877-P: Limits of Correlation Coefficient Analysis in Determining the Minimal Duration of CGM Data Needed to Estimate Time Below Range (2020)

To design a clinical trial it is important to know for how long CGM data should be collected to accurately assess time in different glucose ranges (time in ranges). Several studies approached this problem through the computation of the correlation coefficient (R2) between a metric computed in a month-long trial and in several shorter windows of increasing duration. The minimal duration (MD) granting R2&amp;gt;threshold (e.g., 0.9) is then used to estimate the long-term metric. Here, we focus on time below range (TBR), defined as time &amp;lt;70 mg/dl [%]. We first implemented the R2-based analysis on trials of different duration: A1, A2, A3, lasting 100, 200, 300 days (d), respectively, obtained selecting portions of the same Study A (n=45, duration=360 d, sensor=Abbott Freestyle Libre). Table 1 shows that the longer the trial duration, the larger the resulting MD. Notably, all the obtained trial duration fractions are similar. Then, the analysis was repeated for other two trials of equal duration: Study B (n=85, duration=240 d, sensor=Dexcom G5) and A4, obtained selecting 240 d from Study A. Although B and A4 refer to different T1D populations and different sensors, the resulting trial duration fraction is the same. In conclusion, the R2-based analysis yields different results based on the duration of the considered dataset, and seems to identify only the fraction of data needed to match the reference TBR. Disclosure N. Camerlingo: None. M. Vettoretti: None. M. Cigler: None. A. Facchinetti: None. G. Sparacino: None. J.K. Mader: Advisory Panel; Self; Becton, Dickinson and Company, Eli Lilly and Company, Medtronic, Prediktor Medical, Sanofi-Aventis. Speaker’s Bureau; Self; Abbott, Eli Lilly and Company, Medtronic, Novo Nordisk A/S, Roche Diabetes Care, Sanofi-Aventis. P. Choudhary: Advisory Panel; Self; Abbott, Eli Lilly and Company, Insulet Corporation, Medtronic. Research Support; Self; European Union, JDRF. Speaker’s Bureau; Self; Dexcom, Inc., Novartis AG, Novo Nordisk A/S, Sanofi-Aventis. S. Del Favero: Research Support; Self; Dexcom, Inc. Funding Innovative Medicines Initiative 2 Joint Undertaking (777460); European Union; European Federation of Pharmaceutical Industries and Associations; T1D Exchange; JDRF; International Diabetes Federation; The Leona M. and Harry B. Helmsley Charitable Trust
Smith predictor based control in teleoperated image-guided beating-heart surgery (2013)

Surgery on a freely beating-heart is extremely difficult as the surgeon must perform the procedure while following the heart's fast motion. However, by controlling a teleoperated robot to continuously follow the heart's motion, the surgeon can operate on a seemingly stationary heart. The heart's motion is calculated from ultrasound images and thus involves a non-negligible delay estimated to be 100 ms that, if not compensated for, can cause the robot end-effector (i.e., the surgical tool) to collide with and puncture the heart. This research proposes the use of a Smith predictor to compensate for this time delay. The results suggest that this improves heart motion tracking as the mean absolute error, the difference between the surgeon's motion and the distance between the heart and surgical tool, and the mean integrated square error decreased.
Influence of Season and Refrigerated Storage on Campylobacter SPP. Contamination of Broiler Carcasses (1995)

The frequency and levels of Campylobacter spp. associated with processed broiler chicken carcasses were monitored quarterly over a two-year period because poultry has been implicated as a significant source of foodborne Campylobacter infections in humans. At three-month intervals, carcasses were collected from a local processing plant which had been in continuous operation for at least 12 hr previously. Ten of these carcasses were monitored initially and ten each were monitored after holding for 1, 3, 7, and 10 days of storage at 4°C. Prior to refrigerated storage, the levels detected on individual carcasses ranged from 0 to over 600,000 CFU of Campylobacter spp. in the 400 carcasses examined during the study. Detection of Campylobacter spp. was lowest after 10 days of storage at 4°C. We observed the lowest frequency of detection in spring and the highest frequency in summer and fall.
Clearing resist from alignment mark areas using an excimer laser (1988)

An increasingly important problem in various lithographies is accurate alignment. Detection of alignment marks can be obscured by different resist coatings covering the marks. To circumvent this problem, a technique has been developed to clear resist from alignment mark areas. The technique uses ablative photodecomposition (APD) with an excimer laser to clear the resist thereby facilitating alignment. A potential problem using APD for semiconductor processing is the well-known phenomenon of debris formation. It has already been shown that only a small percentage of the products derived from ablation are volatile and that large amounts of solid debris are formed under a variety of ablation conditions. Though some postablation wafer cleaning techniques may be possible, these involve extra process steps and are therefore undesirable. The technique described here uses a localized vacuum system to collect the debris. A marked improvement in debris containment has been demonstrated using this system. The alignment mark clearing technique has been implemented in a prototype tool consisting of an automated x,y stage driven by linear motors for wafer positioning, a personal computer driven laser shutter to control the number of laser pulses, alignment optics, and the vacuum system for debris containment. The wafer is loaded on the stage after which alignment is performed using an off-axis alignment system. The software removes wafer rotation and controls stage positioning and laser output to ablate the desired number of alignment marks. The prototype tool has been used to clear alignment marks for both optical and electron beam alignment systems.
Phage-Antibiotic Synergy (PAS): beta-lactam and quinolone antibiotics stimulate virulent phage growth (2007)

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