Miracle-dz/UniFAR-FTUs huggingface dataset:
The very nearby M/T dwarf binary SCR 1845-6357

Context. The recently discovered star SCR 1845-6357 (hereafter SCR 1845) is the first late M/T dwarf binary discovered. SCR 1845 is a particular object due to its tight orbit (currently around 4 AU) and its proximity to the Sun (3.85 pc). Aims. We present spatially resolved VLT/NACO images and low resolution spectra of SCR 1845 in the J, H and K near-infrared bands. Since the T dwarf companion, SCR 1845B, is so close to the primary SCR 1845A, orbital motion is evident even within a year. Following the orbital motion, the binary’s mass can be measured accurately within a decade, making SCR 1845B a key T-dwarf mass-luminosity calibrator. The NIR spectra allow for accurate determination of spectral type and also for rough estimates of the object’s physical parameters. Methods. The spectral type of SCR 1845B is determined by direct comparison of the flux calibratedJHK spectra with T dwarf standard template spectra and also by NIR spectral indices obtained from synthetic photometry. Constrained values for surface gravity, effective temperature and metallicity are derived by comparison with model spectra. Results. Our data prove that SCR 1845B is a brown dwarf of spectral type T6 that is co-moving with and therefore gravitationally bound to the M8.5 primary. Fitting the NIR spectrum of SCR 1845B to model spectra yields an effective temperature of about 950 K and a surface gravity log g = 5.1 (cgs) assuming solar metallicity. Mass and age of SCR 1845B are in the range 40 to 50 Jupiter masses and 1.8 to 3.1 Gyr.
Phase stability in scandia-zirconia nanocrystals

Funding information Fundac ~ao de Amparo a Pesquisa do Estado de S~ao Paulo, Grant/Award Number: 2014/24022-6; National Science Foundation DMR Ceramics, Grant/Award Number: 1055504, 1609781. Abstract Scandia-zirconia system has great technological interest as it has the highest ionic conductivity among doped zirconia ceramics. However, polymorphism is the most important limiting factor for application of this material. Considering that there is a strong grain size dependence on phase transitions in this class of materials, mapping out the stable polymorph as a function of grain size and composition may lead to more efficient compositional design. In this article, the phase stability of zirconia-scandia nanocrystals was investigated based on experimental thermodynamic data. Exploiting recent advances in microcalorimetry, reliable surface energy data for five polymorphs of scandia-zirconia system: monoclinic, tetragonal, cubic, rhombohedral b and c are reported for the first time. Combining surface energy values with bulk enthalpy data obtained from oxide melt drop solution calorimetry allowed us to create a predictive phase stability diagram that shows the stable zirconia polymorph as a function of composition and grain size of the specimen within the range of 0-20 mol% scandia.
Power Control for D2D Underlaid Cellular Networks: Modeling, Algorithms, and Analysis

This paper proposes a random network model for a device-to-device (D2D) underlaid cellular system using stochastic geometry and develops centralized and distributed power control algorithms. The goal of centralized power control is twofold: ensure that the cellular users have sufficient coverage probability by limiting the interference created by underlaid D2D users, while scheduling as many D2D links as possible. For the distributed power control method, the optimal on-off power control strategy is proposed, which maximizes the sum rate of the D2D links. Expressions are derived for the coverage probabilities of cellular, D2D links, and the sum rate of the D2D links in terms of the density of D2D links and the path-loss exponent. The analysis reveals the impact of key system parameters on the network performance. For example, the bottleneck of D2D underlaid cellular networks is the cross-tier interference between D2D links and the cellular user, not the D2D intratier interference when the density of D2D links is sparse. Simulation results verify the exactness of the derived coverage probabilities and the sum rate of D2D links.
Key nodes of a microRNA network associated with the integrated mesenchymal subtype of high-grade serous ovarian cancer

Metastasis is the main cause of cancer mortality. One of the initiating events of cancer metastasis of epithelial tumors is epithelial-to-mesenchymal transition (EMT), during which cells dedifferentiate from a relatively rigid cell structure/morphology to a flexible and changeable structure/morphology often associated with mesenchymal cells. The presence of EMT in human epithelial tumors is reflected by the increased expression of genes and levels of proteins that are preferentially present in mesenchymal cells. The combined presence of these genes forms the basis of mesenchymal gene signatures, which are the foundation for classifying a mesenchymal subtype of tumors. Indeed, tumor classification schemes that use clustering analysis of large genomic characterizations, like The Cancer Genome Atlas (TCGA), have defined mesenchymal subtype in a number of cancer types, such as high-grade serous ovarian cancer and glioblastoma. However, recent analyses have shown that gene expression-based classifications of mesenchymal subtypes often do not associate with poor survival. This “paradox” can be ameliorated using integrated analysis that combines multiple data types. We recently found that integrating mRNA and microRNA (miRNA) data revealed an integrated mesenchymal subtype that is consistently associated with poor survival in multiple cohorts of patients with serous ovarian cancer. This network consists of 8 major miRNAs and 214 mRNAs. Among the 8 miRNAs, 4 are known to be regulators of EMT. This review provides a summary of these 8 miRNAs, which were associated with the integrated mesenchymal subtype of serous ovarian cancer.
NPP-16 / Nup 50 Function and CDK1 Inactivation are Associated with Anoxia-Induced Prophase Arrest in C . elegans

Induced Prophase Arrest in C. elegans Vinita A. Hajeri, Brent A. Little, Mary L. Ladage, Pamela A. Padilla* Department of Biological Sciences, University of North Texas, Denton TX 76203 Running Title: Prophase Arrest in C. elegans *Corresponding Author: P.A. Padilla, Department of Biological Sciences, University of North Texas, Denton TX 76203, Phone: (904) 565-3614, fax (940) 565-3821 ppadilla@unt.edu
Analytical Interference in Serum Iron Determination Reveals Iron Versus Gadolinium Transmetallation With Linear Gadolinium-Based Contrast Agents

ObjectivesThe purposes of this study were to evaluate the risk for analytical interference with gadolinium-based contrast agents (GBCAs) for the colorimetric measurement of serum iron (Fe3+) and to investigate the mechanisms involved. Materials and MethodsRat serum was spiked with several concentrations of all molecular categories of GBCAs, ligands, or “free” soluble gadolinium (Gd3+). Serum iron concentration was determined by 2 different colorimetric methods at pH 4.0 (with a Vitros DT60 analyzer or a Cobas Integra 400 analyzer). Secondly, the cause of interference was investigated by (a) adding free soluble Gd3+ or Mn2+ to serum in the presence of gadobenic acid or gadodiamide and (b) electrospray ionization mass spectrometry. ResultsSpurious decrease in serum Fe3+ concentration was observed with all linear GBCAs (only with the Vitros DT60 technique occurring at pH 4.0) but not with macrocyclic GBCAs or with free soluble Gd3+. Spurious hyposideremia was also observed with the free ligands present in the pharmaceutical solutions of the linear GBCAs gadopentetic acid and gadodiamide (ie, diethylene triamine pentaacetic acid and calcium-diethylene triamine pentaacetic acid bismethylamide, respectively), suggesting the formation of Fe-ligand chelate.Gadobenic acid-induced interference was blocked in a concentration-dependent fashion by adding a free soluble Gd3+ salt. Conversely, Mn2+, which has a lower affinity than Gd3+ and Fe3+ for the ligand of gadobenic acid (ie, benzyloxypropionic diethylenetriamine tetraacetic acid), was less effective (interference was only partially blocked), suggesting an Fe3+ versus Gd3+ transmetallation phenomenon at pH 4.0. Similar results were observed with gadodiamide. Mass spectrometry detected the formation of Fe-ligand with all linear GBCAs tested in the presence of Fe3+ and the disappearance of Fe-ligand after the addition of free soluble Gd3+. No Fe-ligand chelate was found in the case of the macrocyclic GBCA gadoteric acid. ConclusionsMacrocyclic GBCAs induced no interference with colorimetric methods for iron determination, whereas negative interference was observed with linear GBCAs using a Vitros DT60 analyzer. This interference of linear GBCAs seems to be caused by the excess of ligand and/or an Fe3+ versus Gd3+ transmetallation phenomenon.
Effect of a modified, low-dye medial longitudinal arch taping procedure on the subtalar joint neutral position before and after light exercise.

STUDY DESIGN Single-group repeated measures design pre- and postintervention. OBJECTIVES To determine if the modified low-Dye medial longitudinal arch (MLA) taping procedure places the subtalar joint into the neutral position and maintains the subtalar joint neutral (STJN) position following 10 minutes of walking. BACKGROUND Subtalar malalignment in excessive pronation is commonly accepted as a contributing factor to a variety of musculoskeletal pathologies. The modified low-Dye MLA taping procedure is often used on the plantar surface of the foot as a short-term corrective tool for excessive foot pronation. However, research that evaluates the efficacy of this taping technique during light exercise is lacking. Measurement of navicular height is commonly used as a measure of subtalar position. METHODS AND MEASURES Prior to the study, one tester-established reliability in the navicular drop technique measurement by initially practicing the measurements on 400 feet, followed by a reliability study performed on 29 subjects. In this study, a screening procedure excluded subjects with ankle or foot pathology, supinated feet, or neutral feet, and included only subjects with pronated feet. The study, which included 40 subjects, involved four steps: (1) measuring navicular height in the relaxed position; (2) measuring navicular height in the STJN position; (3) measuring navicular height after application of the modified low-Dye MLA taping procedure; and (4) measuring navicular height after subjects had walked for 10 minutes with the taping. RESULTS Results indicated an intrarater intraclass correlation coefficient (ICC) for measuring navicular height of 0.96 for the right foot and 0.94 for the left foot. Repeated measures ANOVA revealed that significant differences existed (P < 0.05) among the 4 measures. A Bonferroni post hoc analysis showed a difference between relaxed stance measurements and all other measurements, and between taped-prewalking measurements and taped-postwalking measurements. In addition, no significant difference was observed between navicular height measured in STJN and the taped-prewalking and taped-postwalking conditions. The average navicular height for the taped-prewalking condition was 1.6 mm higher than that for the STJN position. For the taped-postwalking condition, the average height of the navicular was 1.2 mm lower than that of the STJN position. CONCLUSION These results demonstrate that the modified low-Dye MLA taping procedure places the subtalar joint near the neutral position. Despite a significant reduction in the height of the navicular after the subjects walked for 10 minutes with the tape on, the height of the navicular was still not significantly different than that of the STJN position.
Centralized "big science" communities more likely generate non-replicable results

Growing concern that most published results, including those widely agreed upon, may be false are rarely examined against rapidly expanding research production. Replications have only occurred on small scales due to prohibitive expense and limited professional incentive. We introduce a novel, high-throughput replication strategy aligning 51,292 published claims about drug-gene interactions with high-throughput experiments performed through the NIH LINCS L1000 program. We show (1) that unique claims replicate 19% more frequently than at random, while those widely agreed upon replicate 45% more frequently, manifesting collective correction mechanisms in science; but (2) centralized scientific communities perpetuate claims that are less likely to replicate even if widely agreed upon, demonstrating how centralized, overlapping collaborations weaken collective understanding. Decentralized research communities involve more independent teams and use more diverse methodologies, generating the most robust, replicable results. Our findings highlight the importance of science policies that foster decentralized collaboration to promote robust scientific advance.
Nucleic Acid-Based Cross-Linking Assay for Detection and Quantification of Hepatitis B Virus DNA

ABSTRACT A nucleic acid photo-cross-linking technology was used to develop a direct assay for the quantification of hepatitis B virus (HBV) DNA levels in serum. Cross-linker-modified DNA probes complementary to the viral genomes of the major HBV subtypes were synthesized and used in an assay that could be completed in less than 6 h. The quantification range of the assay, as determined by testing serial dilutions of Eurohep HBV reference standards and cloned HBV DNA, was 5 × 105 to 3 × 109 molecules of HBV DNA/ml of serum. Within-run and between-run coefficients of variation (CVs) for the assay were 4.3 and 4.0%, respectively. The assay was used to determine HBV DNA levels in 302 serum samples, and the results were compared to those obtained after testing the same samples with the Chiron branched-DNA (bDNA) assay for HBV DNA. Of the samples tested, 218 were positive for HBV DNA by both assays and 72 gave results below the cutoff for both assays. Of the remaining 12 samples, 10 were positive for HBV DNA by the cross-linking assay only; the 2 other samples were positive by the bDNA assay only. Twenty-eight samples had to be retested by the bDNA assay (CV, >20% between the results obtained from the testing of each sample in duplicate), whereas only three samples required retesting by the cross-linking assay. The correlation between the HBV DNA levels, as measured by the two tests, was very high (r = 0.902; P = 0.01). We conclude that the cross-linking assay is a sensitive and reproducible method for the detection and quantification of HBV DNA levels in serum.
Robust stabilization of non-minimum phase nonlinear systems using extended high gain observers

A robust, stabilizing output feedback controller for systems in the normal form, which could potentially include systems with unstable zero dynamics, is presented. The control scheme adopted herein incorporates "smoothed" sliding mode control-chosen for its robustness properties as well as its ability to prescribe or constrain the motion of trajectories in the sliding phase-and an extended high gain observer to estimate one of the unknown functions. Stabilization in the case of an unknown control coefficient and uncertain constant parameters is shown.
High performance generalized cylinders visualization

This paper studies the problem of real-time rendering of highly deformable generalized cylinders. Some efficient schemes for high axis curvature detection are presented, as well as an incremental non-uniform sampling process. We also show how the recent 3D card "skinning" feature, classical in character animation, can be derived in order to allow for very high frame-rate when rendering such generalized cylinders. Finally, an algorithm is presented, that permits the object to dynamically adapt its display process, for guaranteed frame-rate purposes. This algorithm dynamically modifies the different sampling parameters in order to achieve optimal quality visualization for a given pre-imposed frame-rate.
Factorized Graph Matching

Graph matching (GM) is a fundamental problem in computer science, and it plays a central role to solve correspondence problems in computer vision. GM problems that incorporate pairwise constraints can be formulated as a quadratic assignment problem (QAP). Although widely used, solving the correspondence problem through GM has two main limitations: (1) the QAP is NP-hard and difficult to approximate; (2) GM algorithms do not incorporate geometric constraints between nodes that are natural in computer vision problems. To address aforementioned problems, this paper proposes factorized graph matching (FGM). FGM factorizes the large pairwise affinity matrix into smaller matrices that encode the local structure of each graph and the pairwise affinity between edges. Four are the benefits that follow from this factorization: (1) There is no need to compute the costly (in space and time) pairwise affinity matrix; (2) The factorization allows the use of a path-following optimization algorithm, that leads to improved optimization strategies and matching performance; (3) Given the factorization, it becomes straight-forward to incorporate geometric transformations (rigid and non-rigid) to the GM problem. (4) Using a matrix formulation for the GM problem and the factorization, it is easy to reveal commonalities and differences between different GM methods. The factorization also provides a clean connection with other matching algorithms such as iterative closest point; Experimental results on synthetic and real databases illustrate how FGM outperforms state-of-the-art algorithms for GM. The code is available at <;monospace><;uri xlink:type="simple">http://humansensing.cs. cmu.edu/fgm<;/uri><;/monospace>.
Actin in the preprophase band of Allium cepa

F-actin has been identified in the preprophase band of Allium cepa. Cells attached to subbed slides were obtained from formaldehyde-fixed root tips digested in EGTA and Cellulysin. The air-dried cells were extracted in Triton X-100, treated with rhodamine-phalloidin, rinsed briefly in PBS, and viewed in the fluorescence microscope. Interphase cells contain a network of actin fibers that extends into all areas of the cytoplasm. During preprophase, the network is replaced by a band of fibers aligned in the position of the preprophase band. Colocalization of F-actin with rhodamine-phalloidin and microtubules with tubulin immunocytochemistry confirms that the two bands are coincident. The actin appears to comprise a thin layer of fibers next to the plasmalemma. Like the microtubule preprophase band, the actin band narrows as preprophase progresses and disappears by midprophase. Fluorescent actin bands are not seen in fixed cells pretreated with excess unlabeled phalloidin before staining. They are also absent in roots exposed to cytochalasins B and D before fixation, but preprophase band microtubules at all stages of aggregation are still present. Colchicine treatment leads to the loss of both preprophase band microtubules and actin. The possible function of preprophase band actin is discussed.
Agreement between community echocardiography and hospital echocardiography in patients suspected of having left ventricular systolic dysfunction

Background: Smaller echocardiography machines, when used in hospitals, are accurate for detecting left ventricular dysfunction and valvular disease. This paper assessed the detection of left ventricular dysfunction and of valvular disease in the community setting by a smaller machine. Aims: To measure the agreement in patients with suspected heart failure between community echocardiography and traditional echocardiography in the hospital in detecting left ventricular dysfunction and significant valve disease. Methods: Suspected heart failure patients were referred to one of the authors (SJ) for community echocardiography using a Siemens Cypress machine. The patients had a second echocardiogram in the hospital by another sonographer who was blinded to the results of the first echocardiogram. The reports of the two sonographers were assessed for agreement using κ statistics. Results: 458 patients had a community echocardiogram and 136 agreed to a second echocardiogram in the hospital. There was excellent agreement, κ = 0.87 (0.06 SE), for the detection of left ventricular dysfunction between community echocardiography and the hospital machine. The detection of significant valvular disease was good, κ = 0.75 (0.06) between the community echocardiogram and hospital machines. Conclusions: In suspected heart failure patients, community echocardiography gives comparable results to traditional hospital echocardiography for left ventricular dysfunction detection and for significant valvular disease detection.
Enumeration and Molecular Characterisation of Circulating Tumour Cells in Endometrial Cancer

Background: This is a feasibility study to determine whether circulating tumour cells (CTCs) are detectable and suitable for molecular profiling in advanced endometrial cancer (aEC). Method: Between October 2012 and February 2014, 30 patients with aEC had baseline and up to 3 follow-up samples. CTCs and stathmin expression were evaluated using the CellSearch platform. Epithelial cell adhesion molecule (EpCAM) and stathmin immunohistochemistry were performed on FFPE tumour tissue. Results: Eighteen from 30 (60%) patients had detectable CTCs during study [1 CTC (n = 7), 2 (n = 4), 3 (n = 1), 4 (n = 2), 7 (n = 1), 8 (n = 1), 22 (n = 1), 172 (n = 1) in 7.5 ml blood]. Ten from 18 patients had between 50 and 100% of detectable CTCs that were stathmin positive. More CTC-positive than CTC-negative patients had non-endometrioid versus endometrioid histology, tumour size ≥5 versus <5 cm, higher-stage disease and worse survival [hazard ratio 3.3, p > 0.05, 95% confidence interval 0.7-16.2]. Twenty-one tumour blocks were tested for EpCAM and stathmin immunohistochemistry (IHC). Stathmin tumour immunostaining scores (TIS) on IHC were higher in CTC-positive patients. Conclusion: CTC enumeration and molecular profiling with stathmin on the CellSearch platform is feasible in aEC. Stathmin TIS on IHC, a known prognostic marker in EC, was associated with CTC positivity.
Software maintenance management: Changes in the last decade

Compared to a decade ago, when the first comprehensive study was done in software maintenance, many changes have occurred in the practice of system development. Longitudinal data were obtained by using the same survey instrument, updated to reflect current practices, and sampling the same population. Comparing the current with 1977 results has helped to identify the persistent problems and issues as well as the emerging problems and issues. One of the important, but somewhat disturbing, conclusions is that maintenance problems are pretty much the same as during the 1970s (except for minor changes), despite advances made in structured methodologies and techniques. In terms of specific problems, personnel problems of maintenance programmers, i.e. turnover and availability, and programmer effectiveness problems, i.e. skills, motivation and productivity, have shown a rise, while problems associated with users' knowledge of computer systems have declined.