Miracle-dz/UniFAR-FTUs huggingface dataset:
Reappraisal of the Kelvin–Helmholtz problem. Part 2. Interaction of the Kelvin–Helmholtz, superharmonic and Benjamin–Feir instabilities

Several new results on the bifurcation and instability of nonlinear periodic travelling waves, at the interface between two fluids in relative motion, in a parametric neighbourhood of a Kelvin–Helmholtz unstable equilibrium are presented. The organizing centre for the analysis is a canonical Hamiltonian formulation of the Kelvin–Helmholtz problem presented in Part 1. When the density ratio of the upper and lower fluid layers exceeds a critical value, and surface tension is present, a pervasive superharmonic instability is found, and as u → u0, where u is the velocity difference between the two layers and u0 is the Kelvin–Helmholtz threshold, the amplitude at which the superharmonic instability occurs scales like (u0−u)1/2 with u < u0. Other results presented herein include (a) new results on the structure of the superharmonic instability, (b) the discovery of isolated branches and intersecting branches of travelling waves near a critical density ratio, (c) the appearance of Benjamin–Feir instability along branches of waves near the Kelvin–Helmholtz instability threshold and (d) the interaction between the Kelvin–Helmholtz, superharmonic and Benjamin–Feir instability at low amplitude.
A comparative study on extraction method of non-geometry information in engineering drawing

In manufacturing industry, engineering drawing is used to facilitate the process of designing a product. In real situation, the engineering drawing is usually available in a large quantity and not in order. This is due to many drawings are produced in the process of designing a product. Effective access of engineering drawings from various numbers of engineering drawings is very challenging. Engineer can reduce the cost of designing a new product by retrieving the original drawings of components from the database in the CAD software. This paper presents a review on extraction of non-geometry information in engineering drawing. It explores the past studies on the existing extraction methods discovered by numerous researchers in the field of engineering drawing. In this research, the information that will be extracted is non-geometry information such as length, thickness, radius, diameter and labels. The comparative example of extraction in engineering drawing of previous research has been carried out.
Pooled-Peptide Epitope Mapping Strategies Are Efficient and Highly Sensitive: An Evaluation of Methods for Identifying Human T Cell Epitope Specificities in Large-Scale HIV Vaccine Efficacy Trials

The interferon gamma, enzyme-linked immunospot (IFN-γ ELISpot) assay is widely used to identify viral antigen-specific T cells is frequently employed to quantify T cell responses in HIV vaccine studies. It can be used to define T cell epitope specificities using panels of peptide antigens, but with sample and cost constraints there is a critical need to improve the efficiency of epitope mapping for large and variable pathogens. We evaluated two epitope mapping strategies, based on group testing, for their ability to identify vaccine-induced T-cells from participants in the Step HIV-1 vaccine efficacy trial, and compared the findings to an approach of assaying each peptide individually. The group testing strategies reduced the number of assays required by >7-fold without significantly altering the accuracy of T-cell breadth estimates. Assays of small pools containing 7–30 peptides were highly sensitive and effective at detecting single positive peptides as well as summating responses to multiple peptides. Also, assays with a single 15-mer peptide, containing an identified epitope, did not always elicit a response providing validation that 15-mer peptides are not optimal antigens for detecting CD8+ T cells. Our findings further validate pooling-based epitope mapping strategies, which are critical for characterizing vaccine-induced T-cell responses and more broadly for informing iterative vaccine design. We also show ways to improve their application with computational peptide:MHC binding predictors that can accurately identify the optimal epitope within a 15-mer peptide and within a pool of 15-mer peptides.
Extracting 'Significant' Patterns from Musical Stri ngs: Some Interesting Problems.

In this paper a number of issues relating to the application of string processing techniques on musical sequences are discussed. Special attention is given to musical pattern extraction. Firstly, a number of general problems are presented in terms of musical representation and pattern processing methodologies. Then a number of interesting melodic pattern matching problems are presented. Finally, issues relating to pattern extraction are discussed, with special attention being drawn to defining musical pattern ‘significance’. This paper is not intended towards providing solutions to string processing problems but rather towards raising awareness of primarily musicrelated particularities that can cause problems in matching applications and also suggesting some interesting string processing problems that require efficient computational solutions.
Energy- and temperature-dependent transport of integral proteins to the inner nuclear membrane via the nuclear pore

Resident integral proteins of the inner nuclear membrane (INM) are synthesized as membrane-integrated proteins on the peripheral endoplasmic reticulum (ER) and are transported to the INM throughout interphase using an unknown trafficking mechanism. To study this transport, we developed a live cell assay that measures the movement of transmembrane reporters from the ER to the INM by rapamycin-mediated trapping at the nuclear lamina. Reporter constructs with small (<30 kD) cytosolic and lumenal domains rapidly accumulated at the INM. However, increasing the size of either domain by 47 kD strongly inhibited movement. Reduced temperature and ATP depletion also inhibited movement, which is characteristic of membrane fusion mechanisms, but pharmacological inhibition of vesicular trafficking had no effect. Because reporter accumulation at the INM was inhibited by antibodies to the nuclear pore membrane protein gp210, our results support a model wherein transport of integral proteins to the INM involves lateral diffusion in the lipid bilayer around the nuclear pore membrane, coupled with active restructuring of the nuclear pore complex.
Deterministic parallel graph coloring with repartitioning by auxiliary graph coloring

In this paper we propose a deterministic parallel graph coloring algorithm that enables Multi-Coloring in parallel for sparse undirected graphs by coarse-grained segmentation and auxiliary graph coloring. The proposed algorithm is implemented and tested on standard problem instances from engineering applications and benchmarked against various relevant deterministic graph coloring algorithms. Quantified results show that the proposed algorithm is competitive or better than the sequential Multi-Coloring algorithm with respect to execution time on multi-core architectures. The upper bound on the number of colors is guaranteed to be the same as for the Multi-Coloring algorithm.
Monthly and Quarterly GDP Estimates for Interwar Britain

We derive monthly and quarterly series of UK GDP for the inter-war period from a set of indicators that were constructed at the time. We proceed to illustrate how the new data can contribute to our understanding of the economic history of the UK in the 1930s and have also used the series to draw comparisons between recession profiles in the 1930s and the post-war period.
Voxelwise meta-analysis of gray matter anomalies in progressive supranuclear palsy and Parkinson's disease using anatomic likelihood estimation

Numerous voxel-based morphometry (VBM) studies on gray matter (GM) of patients with progressive supranuclear palsy (PSP) and Parkinson's disease (PD) have been conducted separately. Identifying the different neuroanatomical changes in GM resulting from PSP and PD through meta-analysis will aid the differential diagnosis of PSP and PD. In this study, a systematic review of VBM studies of patients with PSP and PD relative to healthy control (HC) in the Embase and PubMed databases from January 1995 to April 2013 was conducted. The anatomical distribution of the coordinates of GM differences was meta-analyzed using anatomical likelihood estimation. Separate maps of GM changes were constructed and subtraction meta-analysis was performed to explore the differences in GM abnormalities between PSP and PD. Nine PSP studies and 24 PD studies were included. GM reductions were present in the bilateral thalamus, basal ganglia, midbrain, insular cortex and inferior frontal gyrus, and left precentral gyrus and anterior cingulate gyrus in PSP. Atrophy of GM was concentrated in the bilateral middle and inferior frontal gyrus, precuneus, left precentral gyrus, middle temporal gyrus, right superior parietal lobule, and right cuneus in PD. Subtraction meta-analysis indicated that GM volume was lesser in the bilateral midbrain, thalamus, and insula in PSP compared with that in PD. Our meta-analysis indicated that PSP and PD shared a similar distribution of neuroanatomical changes in the frontal lobe, including inferior frontal gyrus and precentral gyrus, and that atrophy of the midbrain, thalamus, and insula are neuroanatomical markers for differentiating PSP from PD.
Hippocampal Neurochemical Changes in Senescent Mice Induced with Chronic Injection of D-Galactose and NaNO2: An In Vitro High-Resolution NMR Spectroscopy Study at 9.4T

Proton magnetic resonance spectroscopy (1H-MRS) has been used to provide useful information about the neurochemical changes reflecting early pathological alterations in Alzheimer's disease (AD) brain. In this study, we have longitudinally measured the hippocampal neurochemical profile in vitro in senescent mice induced with chronic injection of D-Galactose and NaNO2, at different time point from day 30 to day 70 with a 10-day interval. Pathological brain alterations induced by D-Galactose and NaNO2 were monitored through hematoxylin and eosin (HE) staining, Congo red staining and bielschowsky silver staining, and the cognition deficits were assessed via Morris Water Maze (MWM) test. This D-galactose and NaNO2 treated mouse model, characterized by an early-onset memory dysfunction, a robust neuronal loss, amyloid plaques and neurofibrillary tangles in hippocampal subdivision, well mimics a prodromal Alzheimer's phenotype. Consistent with previously published in vivo 1H MRS findings in human AD patients and AD transgenic mice, our in vitro 1H MRS on the perchloric acid extractions of hippocampus in senescent mice observed significant decreases of N-acetylaspartate (NAA) and Glutamate (Glu) but an increase in Myo-inositol (mIns). Elevated mIns occurred prior to the reduction of NAA and Glu during the progression of aging. In addition, changes in mIns, NAA and Glu were found to precede pathological abnormalities. Overall, our in vitro findings in senescent mice validated the concept that hippocampal neurochemical alternations preceded the pathological changes of the brain, and could serve as potential markers of AD progression. Reductions of NAA and Glu can be interpreted in terms of neuronal degeneration and dysfunctions in glutamatergic activity that may contribute to the pathophysiological mechanisms underlying AD. Elevated mIns might be related to glial activation. Further experiments are needed to explore the potential value of mIns in the early diagnosis of AD, to verify whether glial cell proliferation occurs earlier than neuronal changes.
On joint range and velocity estimation in detection and ranging sensors

Radar and sonar provide information of both range and radial velocity to unknown objects. This is accomplished by emitting a signal waveform and computing the round trip time and Doppler shift. Estimation of the round trip time and Doppler shift is usually done separately without considering the couplings between these two object related quantities. The purpose of this contribution is to first model the amplitude, time shift and time scale of the returned signal in terms of the object related states range and velocity, and analyse the Cramér-Rao lower bound (CRLB) for the joint range and velocity estimation problem. One of the conclusions is that there is negative correlation between range and velocity. The maximum likelihood (ML) cost function also confirms this strong negative correlation. For target tracking applications, the use of the correct covariance matrix for the measurement vector gives a significant gain in information, compared to using the variance of range and velocity assuming independence. In other words, the knowledge of the correlation tells the tracking filter that a too large range measurement comes most likely with a too small velocity measurement, and vice versa. Experiments with sound pulses reflected in a wall indoors confirm the main conclusion of negative correlation.
Diffusion-weighted imaging in the follow-up of treated high-grade gliomas: tumor recurrence versus radiation injury.

BACKGROUND AND PURPOSE Diffusion-weighted (DW) MR imaging is a means to characterize and differentiate morphologic features, including edema, necrosis, and tumor tissue, by measuring differences in apparent diffusion coefficient (ADC). We hypothesized that DW imaging has the potential to differentiate recurrent or progressive tumor growth from treatment-induced damage to brain parenchyma in high-grade gliomas after radiation therapy. METHODS We retrospectively reviewed follow-up conventional and DW MR images obtained starting 1 month after completion of radiation treatment with or without chemotherapy for histologically proved high-grade gliomas. Eighteen patients with areas of abnormal enhancing tissue were identified. ADC maps were calculated from echo-planar DW images, and mean ADC values and ADC ratios (ADC of enhancing lesion to ADC of contralateral white matter) were compared with final diagnosis. Recurrence was established by histologic examination or by clinical course and a combination of imaging studies. RESULTS Recurrence and nonrecurrence could be differentiated by using mean ADC values and ADC ratios. ADC ratios in the recurrence group showed significantly lower values (mean +/- SD, 1.43 +/- 0.11) than those of the nonrecurrence group (1.82 +/- 0.07, P <.001). Mean ADCs of the recurrent tumors (mean +/- SD, 1.18 +/- 0.13 x 10(-3) mm/s(2)) were significantly lower than those of the nonrecurrence group (1.40 +/- 0.17 x 10(-3) mm/s(2), P <. 006). CONCLUSION Assessment of ADC ratios of enhancing regions in the follow-up of treated high-grade gliomas is useful in differentiating radiation effects from tumor recurrence or progression.
Reconstitution of CD8 T Cells Protective against Cytomegalovirus in a Mouse Model of Hematopoietic Cell Transplantation: Dynamics and Inessentiality of Epitope Immunodominance

Successful reconstitution of cytomegalovirus (CMV)-specific CD8+ T cells by hematopoietic cell transplantation (HCT) gives a favorable prognosis for the control of CMV reactivation and prevention of CMV disease after hematoablative therapy of hematopoietic malignancies. In the transient immunocompromised state after HCT, pre-emptive cytoimmunotherapy with viral epitope-specific effector or memory CD8+ T cells is a promising option to speed up antiviral control. Despite high-coding capacity of CMVs and a broad CD8+ T-cell response on the population level, which reflects polymorphism in major histocompatibility complex class-I (MHC-I) glycoproteins, the response in terms of quantity of CD8+ T cells in any individual is directed against a limited set of CMV-encoded epitopes selected for presentation by the private repertoire of MHC-I molecules. Such epitopes are known as “immunodominant” epitopes (IDEs). Besides host immunogenetics, genetic variance in CMV strains harbored as latent viruses by an individual HCT recipient can also determine the set of IDEs, which complicates a “personalized immunotherapy. ” It is, therefore, an important question if IDE-specific CD8+ T-cell reconstitution after HCT is critical or dispensable for antiviral control. As viruses with targeted mutations of IDEs cannot be experimentally tested in HCT patients, we employed the well-established mouse model of HCT. Notably, control of murine CMV (mCMV) after HCT was comparably efficient for IDE-deletion mutant mCMV-Δ4IDE and the corresponding IDE-expressing revertant virus mCMV-Δ4IDE-rev. Thus, antigenicity-loss mutations in IDEs do not result in loss-of-function of a polyclonal CD8+ T-cell population. Although IDE deletion was not associated with global changes in the response to non-IDE epitopes, the collective of non-IDE-specific CD8+ T-cells infiltrates infected tissue and confines infection within nodular inflammatory foci. We conclude from the model, and predict also for human CMV, that there is no need to exclusively aim for IDE-specific immunoreconstitution.
Live and Non-Live Pregnancy Outcomes among Women with Depression and Anxiety: A Population-Based Study

Background Women taking antidepressant or anti-anxiety medications during early pregnancy have high risks of non-live pregnancy outcomes, although the contribution of the underlying illnesses to these risks remains unclear. We examined the impacts of antenatal depression and anxiety and of commonly prescribed treatments on the risks of non-live pregnancy outcomes. Methods We identified all pregnancies and their outcome (live birth, perinatal death, miscarriage or termination) among women aged 15–45 years between 1990 and 2009 from a large primary care database in the United Kingdom. Women were grouped according to whether they had no history of depression and anxiety, a diagnosis of such illness prior to pregnancy, illness during pregnancy and illness during pregnancy with use of medication (stratified by medication type). Multinomial logistic regression models were used to compare risks of non-live outcomes among these groups, adjusting for major socio-demographic and lifestyle characteristics. Results Among 512,574 pregnancies in 331,414 women, those with antenatal drug exposure showed the greatest increased risks for all non-live pregnancy outcomes, relative to those with no history of depression or anxiety, although women with prior (but not currently medicated) illness also showed modest increased risks. Compared with un-medicated antenatal morbidity, there was weak evidence of an excess risk in women taking tricyclic antidepressants, and stronger evidence for other medications. Conclusions Women with depression or anxiety have higher risks of miscarriage, perinatal death and decisions to terminate a pregnancy if prescribed psychotropic medication during early pregnancy than if not. Although underlying disease severity could also play a role, avoiding or reducing use of these drugs during early pregnancy may be advisable.
A molecular determinant of human immunodeficiency virus particle assembly located in matrix antigen p17

We report single-point mutations that are located in the matrix protein domain of the gag gene of human immunodeficiency virus type 1 and that prevent Gag particle formation. We show that mutations of p17 that abolish human immunodeficiency virus particle assembly also prevent the dimerization of p17 protein, as measured directly by a protein-protein binding assay. In the three-dimensional structure of p17, mutations that abolish dimerization are located in a single alpha helix that forms part of a fingerlike projection from one side of the molecule. Peptides derived from this region of p17 also reduce the level of p17 dimer when they are added to p17-expressing cells and compete for p17 self-association when present in protein-protein binding assays. We propose that the dimerization of the Gag precursor that occurs by the interdigitation of alpha helices on adjacent matrix molecules is a key stage in virion assembly and that the prevention of such an interaction is the molecular basis of particle misassembly.
Biomedical Ontologies: Toward Scientific Debate

Summary Objectives: Biomedical ontologies have been very successful in structuring knowl edge for many different applications, receiving widespread praise for their utility and potential. Yet, the role of computational ontologies in scientific research, as opposed to knowledge management applications, has not been extensively discussed. We aim to stimulate further discussion on the advantages and challenges presented by biomedical ontologies from a scientific perspective. Methods: We review various aspects of biomedical ontologies going beyond their practical successes, and focus on some key scientific questions in two ways. First, we analyze and discuss current approaches to improve biomedical ontologies that are based largely on classical, Aristotelian ontological models of reality. Second, we raise various open questions about biomedical ontologies that require further research, analyzing in more detail those related to visual reasoning and spatial ontologies. Results: We outline significant scientific issues that biomedical ontologies should consider, beyond current efforts of building practical consensus between them. For spatial ontologies, we suggest an approach for building “morphospatial” taxonomies, as an example that could stimulate research on fundamental open issues for biomedical ontologies. Conclusions: Analysis of a large number of problems with biomedical ontologies suggests that the field is very much open to alternative interpretations of current work, and in need of scientific debate and discussion that can lead to new ideas and research directions.
Mathematical Foundation of Statistical Parallelism

Washinton DC, March 31 { April 3, 1997 Mathematical Foundation of Statistical Parallelism1 Song Yan and Jim Austin Department of Computer Science, University of York York YO1 5DD, UK March 10, 1997 Abstract: Statistical Parallelism (SP), is new e cient method of parallel recalling from correlation matrix memories (CMMs). In this paper, we shall rst provide a matrix-algebraic base for SP, and then we shall study two types of error measures (namely probabilistic errors and Hamming distance) in SP.