gebhart/patrepeval huggingface dataset:
On-line Random Forests (2009)

Random Forests (RFs) are frequently used in many computer vision and machine learning applications. Their popularity is mainly driven by their high computational efficiency during both training and evaluation while achieving state-of-the-art results. However, in most applications RFs are used off-line. This limits their usability for many practical problems, for instance, when training data arrives sequentially or the underlying distribution is continuously changing. In this paper, we propose a novel on-line random forest algorithm. We combine ideas from on-line bagging, extremely randomized forests and propose an on-line decision tree growing procedure. Additionally, we add a temporal weighting scheme for adaptively discarding some trees based on their out-of-bag-error in given time intervals and consequently growing of new trees. The experiments on common machine learning data sets show that our algorithm converges to the performance of the off-line RF. Additionally, we conduct experiments for visual tracking, where we demonstrate real-time state-of-the-art performance on well-known scenarios and show good performance in case of occlusions and appearance changes where we outperform trackers based on on-line boosting. Finally, we demonstrate the usability of on-line RFs on the task of interactive real-time segmentation.
Corner detection by local histograms of contourchain code (1997)

A new method for determining the shape of an object by obtaining its dominant points or border corners is presented. The algorithm uses the contour chain code as descriptor and calculates the curvature of each border point, comparing two histograms of the chain code. The method is not only fast, with the detected corners stable to rotations and scaling, but also the curvature function presents a high signal-noise relationship, and thus offers excellent performance for real contours.
Sympercents: symmetric percentage differences on the 100 loge scale simplify the presentation of log transformed data (2000)

The results of analyses on log transformed data are usually back-transformed and interpreted on the original scale. Yet if natural logs are used this is not necessary--the log scale can be interpreted as it stands. A difference of natural logs corresponds to a fractional difference on the original scale. The agreement is exact if the fractional difference is based on the logarithmic mean. The transform y = 100 log(e)x leads to differences, standard deviations and regression coefficients of y that are equivalent to symmetric percentage differences, standard deviations and regression coefficients of x. Several simple clinical examples show that the 100 log(e) scale is the natural scale on which to express percentage differences. The term sympercent or s% is proposed for them. Sympercents should improve the presentation of log transformed data and lead to a wider understanding of the natural log transformation.
Diagnosis and carrier detection of Tay-Sachs disease: direct determination of hexosaminidase A using 4-methylumbelliferyl derivatives of beta-N-acetylglucosamine-6-sulfate and beta-N-acetylgalactosamine-6-sulfate. (1985)

4-Methylumbelliferyl-6-sulfo-2-acetamido-2-deoxy derivatives of beta-D glucopyranoside and beta-D-galactopyranoside were prepared by direct sulfation of the commonly used unsulfated derivatives. Both sulfated substrates were highly specific for hexosaminidase A, and in fractionated serum, cells, and tissue preparations, less than 2.5% of these activities were associated with hexosaminidase B and the intermediate isozyme fractions. Serum and leukocytes from patients with infantile Tay-Sachs disease, including a patient with thermolabile hexosaminidase B, had less than 2% of noncarrier activities. Carrier values were clearly separated from those of noncarriers, and no problems were encountered in utilizing sera from pregnant women. The % hexosaminidase A values as derived from the ratio between the activities toward the sulfated and unsulfated substrates in the same specimen were comparable to those obtained by the heat-inactivation method (except for subjects with thermolabile hexosaminidase B) and may be helpful in genotype determination in borderline cases.
Immunization of mice with recombinant vaccinia virus expressing authentic dengue virus nonstructural protein NS1 protects against lethal dengue virus encephalitis (1990)

The protective immunity conferred by a set of recombinant vaccinia viruses containing the entire coding sequence of dengue virus type 4 nonstructural glycoprotein NS1 plus various flanking sequences was evaluated by using a mouse encephalitis model. Mice immunized with recombinant vNS1-NS2a, which expresses authentic NS1, were solidly protected against intracerebral dengue virus challenge. However, mice immunized with recombinants vNS1-15%NS2a and vRSVG/NS1-15%NS2a, which express aberrant forms of NS1, were only partially protected (63 to 67% survival rate). Serologic analysis showed that mice immunized with vNS1-NS2a developed high titers of antibodies to NS1 as measured by radioimmunoprecipitation, enzyme-linked immunosorbent assay, and complement-mediated cytolytic assays. In addition, a pool of sera from these animals was protective in a passive transfer experiment. Lower titers of NS1-specific antibodies were detected in sera of animals immunized with vNS1-15%NS2a or vRSVG/NS1-15%NS2a by all three assays. These data support the view that protection against dengue virus infection in mice may be mediated at least in part by NS1-specific antibodies through a mechanism of complement-mediated lysis of infected cells. Additionally, immunization with two recombinant viruses expressing authentic NS1 of dengue virus type 2 conferred partial protection (30-50%) against dengue virus type 2 challenge.
Learning to re-rank web search results with multiple pairwise features (2011)

Web search ranking functions are typically learned to rank search results based on features of individual documents, i.e., pointwise features. Hence, the rich relationships among documents, which contain multiple types of useful information, are either totally ignored or just explored very limitedly. In this paper, we propose to explore multiple pairwise relationships between documents in a learning setting to rerank search results. In particular, we use a set of pairwise features to capture various kinds of pairwise relationships and design two machine learned re-ranking methods to effectively combine these features with a base ranking function: a pairwise comparison method and a pairwise function decomposition method. Furthermore, we propose several schemes to estimate the potential gains of our re-ranking methods on each query and selectively apply them to queries with high confidence. Our experiments on a large scale commercial search engine editorial data set show that considering multiple pairwise relationships is quite beneficial and our proposed methods can achieve significant gain over methods which only consider pointwise features or a single type of pairwise relationship.
Peptides containing glutamine repeats as substrates for transglutaminase-catalyzed cross-linking: Relevance to diseases of the nervous system (1996)

Many proteins contain reiterated glutamine residues, but polyglutamine of excessive length may result in human disease by conferring new properties on the protein containing it. One established property of a glutamine residue, depending on the nature of the flanking residues, is its ability to act as an amine acceptor in a transglutaminase-catalyzed reaction and to make a glutamyl-lysine cross-link with a neighboring polypeptide. To learn whether glutamine repeats can act as amine acceptors, we have made peptides with variable lengths of polyglutamine flanked by the adjacent amino acid residues in the proteins associated with spinocerebellar ataxia type 1 (SCA1), Machado-Joseph disease (SCA3), or dentato-rubral pallidoluysian atrophy (DRPLA) or those residues adjacent to the preferred cross-linking site of involucrin, or solely by arginine residues. The polyglutamine was found to confer excellent substrate properties on any soluble peptide; under optimal conditions, virtually all the glutamine residues acted as amine acceptors in the reaction with glycine ethyl-ester, and lengthening the sequence of polyglutamine increased the reactivity of each glutamine residue. In the presence of transglutaminase, peptides containing polyglutamine formed insoluble aggregates with the proteins of brain extracts and these aggregates contained glutamyl-lysine cross-links. Repeated glutamine residues exposed on the surface of a neuronal protein should form cross-linked aggregates in the presence of any transglutaminase activated by the presence of Ca2+.
Epigenetic patterns in the progression of esophageal adenocarcinoma. (2001)

Esophageal adenocarcinoma (EAC) arises after normal squamous mucosa undergoes metaplasia to specialized columnar epithelium (intestinal metaplasia or Barrett's esophagus), which can then ultimately progress to dysplasia and subsequent malignancy. Epigenetic studies of this model have thus far been limited to the DNA methylation analysis of a few genes. In this study, we analyzed a panel of 20 genes using a quantitative, high-throughput methylation assay, METHYLIGHT: We used this broader approach to gain insight into concordant methylation behavior between genes and to generate epigenomic fingerprints for the different histological stages of EAC. Our study included a total of 104 tissue specimens from 51 patients with different stages of Barrett's esophagus and/or associated adenocarcinoma. We screened 84 of these samples with the full panel of 20 genes and found distinct classes of methylation patterns in the different types of tissue. The most informative genes were those with an intermediate frequency of significant hypermethylation [ranging from 15% (CDKN2A) to 60% (MGMT) of the samples]. This group could be further subdivided into three classes, according to the absence (CDKN2A, ESR1, and MYOD1) or presence (CALCA, MGMT, and TIMP3) of methylation in normal esophageal mucosa and stomach, or the infrequent methylation of normal esophageal mucosa accompanied by methylation in all normal stomach samples (APC). The other genes were less informative, because the frequency of hypermethylation was below 5% (ARF, CDH1, CDKN2B, GSTP1, MLH1, PTGS2, and THBS1), completely absent (CTNNB1, RB1, TGFBR2, and TYMS1), or ubiquitous (HIC1 and MTHFR), regardless of tissue type. Each class undergoes unique epigenetic changes at different steps of disease progression of EAC, suggesting a step-wise loss of multiple protective barriers against CpG island hypermethylation. The aberrant hypermethylation occurs at many different loci in the same tissues, suggestive of an overall deregulation of methylation control in EAC tumorigenesis. However, we did not find evidence for a distinct group of tumors with a CpG island methylator phenotype. Finally, we found that normal and metaplastic tissues from patients with evidence of associated dysplasia or cancer had a significantly higher incidence of hypermethylation than similar tissues from patients with no further progression of their disease. The fact that the samples from these two groups of patients were histologically indistinguishable, yet molecularly distinct, suggests that the occurrence of such hypermethylation may provide a clinical tool to identify patients with premalignant Barrett's who are at risk for further progression.
XRel : A path-based approach to storage and retrieval of XML documents using relational databases (2001)

This article describes XRel, a novel approach for storage and retrieval of XML documents using relational databases. In this approach, an XML document is decomposed into nodes on the basis of its tree structure and stored in relational tables according to the node type, with path information from the root to each node. XRel enables us to store XML documents using a fixed relational schema without any information about DTDs and also to utilize indices such as the B 1 -tree and the R-tree supported by database management systems. Thus, XRel does not need any extension of relational databases for storing XML documents. For processing XML queries, we present an algorithm for translating a core subset of XPath expressions into SQL queries. Finally, we demonstrate the effectiveness of this approach through several experiments using actual XML documents.
Bile Acids: Natural Ligands for an Orphan Nuclear Receptor (1999)

Bile acids regulate the transcription of genes that control cholesterol homeostasis through molecular mechanisms that are poorly understood. Physiological concentrations of free and conjugated chenodeoxycholic acid, lithocholic acid, and deoxycholic acid activated the farnesoid X receptor (FXR; NR1H4), an orphan nuclear receptor. As ligands, these bile acids and their conjugates modulated interaction of FXR with a peptide derived from steroid receptor coactivator 1. These results provide evidence for a nuclear bile acid signaling pathway that may regulate cholesterol homeostasis.
A Late Fusion CNN for Digital Matting (2019)

This paper studies the structure of a deep convolutional neural network to predict the foreground alpha matte by taking a single RGB image as input. Our network is fully convolutional with two decoder branches for the foreground and background classification respectively. Then a fusion branch is used to integrate the two classification results which gives rise to alpha values as the soft segmentation result. This design provides more degrees of freedom than a single decoder branch for the network to obtain better alpha values during training. The network can implicitly produce trimaps without user interaction, which is easy to use for novices without expertise in digital matting. Experimental results demonstrate that our network can achieve high-quality alpha mattes for various types of objects and outperform the state-of-the-art CNN-based image matting methods on the human image matting task.
LIVER REGENERATION AND FUNCTION IN DONOR AND RECIPIENT AFTER RIGHT LOBE ADULT TO ADULT LIVING DONOR LIVER TRANSPLANTATION12 (2000)

MRI accurately determines right lobe mass. Most liver regeneration occurs in the 1st week after resection or transplantation, and the time course does not differ significantly in donors or recipients. The mass of the graft or remnant segment affects the duration of the regeneration process, with a smaller initial liver mass prolonging the course. Steatosis of <30% had no bearing on liver function or regeneration and, therefore, should not be an absolute criterion for exclusion of donors. A calculated graft to recipient body weight ratio of 0.8% is adequate for right lobe living donor liver transplantation.
In vivo production of human factor VII in mice after intrasplenic implantation of primary fibroblasts transfected by receptor-mediated, adenovirus-augmented gene delivery. (1994)

Hemophilia A is caused by defects in the factor VIII gene. This results in life-threatening hemorrhages and severe arthropathies. Today, hemophiliacs are treated with human blood-derived factor VIII. In the future, it may be possible to use gene therapy to avoid long-term complications of conventional therapy and to improve the quality of life. However, initial gene therapy models using retroviral vectors and nonviral gene transfer techniques to introduce factor VIII gene constructs have been hampered by low expression levels of factor VIII. We show here that high expression levels of the B-domain-deleted human factor VIII in primary mouse fibroblasts and myoblasts are obtained by using receptor-mediated, adenovirus-augmented gene delivery (transferrinfection). We demonstrate that, presumably owing to the high molecular weight of factor VIII or its metabolic instability, secretion into the blood and attainment of therapeutic in vivo levels of factor VIII is achieved only if transfected autologous primary fibroblasts or myoblasts are delivered to the liver or spleen, but not if myoblasts are implanted into muscle, a strategy known to be successful for factor IX delivery.
Cytokine regulation of IL-12 receptor β2 expression: differential effects on human T and NK cells (2000)

The biological activities of IL-12 are mediated through a specific, high-affinity receptor composed of IL-12 receptor(R)beta1 and IL-12Rbeta2 subunits that exist primarily on T and NK cells. Remarkably, the expression of IL-12Rbeta2 on CD4(+) T cells in mouse and humans appears to be differentially regulated by IFN-gamma and IFN-alpha, respectively. Using an antibody specific for the human IL-12Rbeta2 subunit, the effect of IFN-gamma, IFN-alpha, IL-12 and IL-2 on the regulation of IL-12R expression and IL-12 responsiveness of human T and NK cells was assessed. The presence of IFN-alpha or IFN-gamma in cultures enhanced IL-12Rbeta2 expression of CD4(+) and CD8(+) T cells. The enhancing effect of IFN-alpha and IFN-gamma was independent of endogenous IL-12. Furthermore, the clearest effects of IFN-alpha and IFN-gamma on IL-12Rbeta2 expression on T cells were seen by abrograting the inhibition induced by the presence of IL-4 in cultures. In contrast to T cells, IFN-alpha and IFN-gamma had little effect on regulating IL-12Rbeta2 expression on human NK cells. Taken together, these data show that there is differential regulation of IL-12Rbeta2 expression by IFN-alpha and IFN-gamma on human T and NK cells.
Bandwidth-controlled Mott transition inκ−(BEDT−TTF)2Cu[N(CN)2]BrxCl1−x: Optical studies of correlated carriers (2009)

In the two-dimensional organic charge-transfer salts $\ensuremath{\kappa}\text{\ensuremath{-}}{(\mathrm{BEDT}\text{\ensuremath{-}}\mathrm{TTF})}_{2}\mathrm{Cu}[\mathrm{N}{(\mathrm{CN})}_{2}]{\mathrm{Br}}_{x}{\mathrm{Cl}}_{1\ensuremath{-}x}$ a systematic variation in the Br content from $x=0$ to 0.9 allows us to tune the Mott transition by increasing the bandwidth. At temperatures below $50\phantom{\rule{0.3em}{0ex}}\mathrm{K}$, an energy gap develops in the Cl-rich samples and grows to approximately $1000\phantom{\rule{0.3em}{0ex}}{\mathrm{cm}}^{\ensuremath{-}1}$ for $T\ensuremath{\rightarrow}0$. With increasing Br concentration spectral weight shifts into the gap region and eventually fills it up completely. As the samples with $x=0.73$, 0.85, and 0.9 become metallic at low temperatures, a Drude-type response develops due to the coherent quasiparticles. Here, the quasiparticle scattering rate shows a ${\ensuremath{\omega}}^{2}$ dependence and the effective mass of the carriers is enhanced in agreement with the predictions for a Fermi liquid. These typical signatures of strong electron-electron interactions are more pronounced for compositions close to the critical value ${x}_{c}\ensuremath{\approx}0.7$, where the metal-to-insulator transition occurs.
Synthesis, Characterization and Properties of Polyisobutylene-Based Polyurethanes (1985)

Preparation par reaction de polyisobutylene diols liquides lineaire et de polyisobutylenes triols avec respectivement du triisocyanate et du diisocyanate. Proprietes
Humidity‐sensitive properties of new polyelectrolytes based on the copolymers containing phosphonium salt and phosphine function (2003)

Abstract A simple strategy was developed based on a new reactive function‐ and a salt‐containing new monomer, 4‐vinylbenzyl dimethyl 2‐(dimethylphosphino)ethyl phosphonium chloride (VDEPC), to obtain stable humidity‐sensitive membranes. The major ingredient of a humid membrane is crosslinked polyelectrolytes obtained from copolymers of VDEPC/2‐ethylhexyl acrylate (2‐EHA) = 1/0, 4/1, and 2/1. Isothermal humidity absorption experiments were performed for the estimation of humidity‐sensing materials. The crosslinked copolymers prepared from the reaction of VDEPC/2‐EHA = 4/1 with 1,4‐dichlorobutane showed an average impedance of 595, 39.1, and 3.9 KΩ at 30, 60, and 90% RH, respectively. Their hysteresis, temperature dependence, frequency dependence, and response time were measured. The reliability including water resistance and a long‐term stability were estimated for the application of the common humidity sensor. © 2003 Wiley Periodicals, Inc. J Appl Polym Sci 89: 1062–1070, 2003
Structure of a dicationic monoimidazole lexitropsin bound to DNA (1995)

An X-ray crystal structure has been solved of the complex of a dicationic lexitropsin with a B-DNA duplex of sequence CGCGAATTCGCG. The lexitropsin is identical to netropsin except for replacement of the first methylpyrrole ring by methylimidazole, converting a =CH- to =N-. Crystals are isomorphous with those of the DNA dodecamer in the absence of drug. Although the =N- for =CH- substitution was intended to make that locus on the drug molecule compatible with a G.C base pair, electrostatic attraction for the two cationic ends of the drug predominates, and this lexitropsin binds to the same central AATT site as does the parent netropsin. But unlike netropsin, this lexitropsin exhibits end-for-end disorder in the crystal. Both orientations were refined separately to completion. Final residual errors at 2.25 A resolution for the 2358 reflections above 2 sigma in F are R = 0.165 for one orientation (LexA) with 37 water molecules and 0.164 for the inverted drug orientation (LexB) with 40 water molecules. This molecular disorder is probably attributable to a weakening of binding to the AATT site occasioned by the imidazole-for-pyrrole substitution.
Analysis of daily precipitation data by positive matrix factorization (1994)

Abstract A new factor analysis method called positive matrix factorization (PMF) has been applied to daily precipitation data from four Finnish EMEP stations. The aim of the analysis was to investigate the structure of the data matrices in order to find the apparent source profiles from which the precipitation samples are constituted. A brief description of PMF is given. PMF utilizes the known uncertainty of data values. The standard deviations were derived from the results of double sampling at one station during one year. A goodness‐of‐fit function Q was calculated for factor solutions with 1–8 factors. The shape of the residuals was useful in deciding the number of factors. The strongest factor found was that of sea‐salt. The most dominant ions in the factor were sodium, chloride and magnesium. At the coastal stations the ratio Cl/Na of the mean concentrations in the factor was near the ratio found in sea water but at the inland stations the ratio was smaller. For most ions more than 90 per cent of the weighted variation was explained. The worst explained was potassium (at worst c. 60 per cent) which is possibly due to contamination problems in the laboratory. In most factors of different factorizations the anions and cations were fairly well balanced.