gebhart/patrepeval huggingface dataset:
Multimedia content description in the InfoPyramid (2002)

There is a growing need for developing a content description language for multimedia that improves searching, indexing and managing of the multimedia content. The MPEG group established the MPEG-7 effort to standardize the multimedia content interface. The proposed interface will bridge the gap between various types of content meta-data, such as content features, annotations, relationships, and the search engines. We develop a method of handling multimedia content description in a new multi-abstraction, multi-modal content representation framework called the InfoPyramid. The InfoPyramid facilitates the search, retrieval, manipulation, and transmission of multimedia data by providing a hierarchy for content descriptors. We illustrate the suitability of the InfoPyramid multimedia content description to MPEG-7 by examining four multimedia retrieval applications: a Web-image search engine, a satellite image retrieval system, an Internet content delivery system, and a TV news storage and retrieval system.
Scanning for Therapeutic Targets within the Cytokine Network of Idiopathic Inflammatory Myopathies (2015)

The idiopathic inflammatory myopathies (IIM) constitute a heterogeneous group of chronic disorders that include dermatomyositis (DM), polymyositis (PM), sporadic inclusion body myositis (IBM) and necrotizing autoimmune myopathy (NAM). They represent distinct pathological entities that, most often, share predominant inflammation in muscle tissue. Many of the immunopathogenic processes behind the IIM remain poorly understood, but the crucial role of cytokines as essential regulators of the intramuscular build-up of inflammation is undisputed. This review describes the extensive cytokine network within IIM muscle, characterized by strong expression of Tumor Necrosis Factors (TNFα, LTβ, BAFF), Interferons (IFNα/β/γ), Interleukins (IL-1/6/12/15/18/23) and Chemokines (CXCL9/10/11/13, CCL2/3/4/8/19/21). Current therapeutic strategies and the exploration of potential disease modifying agents based on manipulation of the cytokine network are provided. Reported responses to anti-TNFα treatment in IIM are conflicting and new onset DM/PM has been described after administration of anti-TNFα agents to treat other diseases, pointing to the complex effects of TNFα neutralization. Treatment with anti-IFNα has been shown to suppress the IFN type 1 gene signature in DM/PM patients and improve muscle strength. Beneficial effects of anti-IL-1 and anti-IL-6 therapy have also been reported. Cytokine profiling in IIM aids the development of therapeutic strategies and provides approaches to subtype patients for treatment outcome prediction.
Structure of Murine CTLA-4 and Its Role in Modulating T Cell Responsiveness (2000)

The effective regulation of T cell responses is dependent on opposing signals transmitted through two related cell-surface receptors, CD28 and cytotoxic T lymphocyte–associated antigen 4 (CTLA-4). Dimerization of CTLA-4 is required for the formation of high-avidity complexes with B7 ligands and for transmission of signals that attenuate T cell activation. We determined the crystal structure of the extracellular portion of CTLA-4 to 2.0 angstrom resolution. CTLA-4 belongs to the immunoglobulin superfamily and displays a strand topology similar to Vα domains, with an unusual mode of dimerization that places the B7 binding sites distal to the dimerization interface. This organization allows each CTLA-4 dimer to bind two bivalent B7 molecules and suggests that a periodic arrangement of these components within the immunological synapse may contribute to the regulation of T cell responsiveness.
IM2GPS: estimating geographic information from a single image (2008)

Estimating geographic information from an image is an excellent, difficult high-level computer vision problem whose time has come. The emergence of vast amounts of geographically-calibrated image data is a great reason for computer vision to start looking globally - on the scale of the entire planet! In this paper, we propose a simple algorithm for estimating a distribution over geographic locations from a single image using a purely data-driven scene matching approach. For this task, we leverage a dataset of over 6 million GPS-tagged images from the Internet. We represent the estimated image location as a probability distribution over the Earthpsilas surface. We quantitatively evaluate our approach in several geolocation tasks and demonstrate encouraging performance (up to 30 times better than chance). We show that geolocation estimates can provide the basis for numerous other image understanding tasks such as population density estimation, land cover estimation or urban/rural classification.
An efficient route to 5-iodo-1-methylimidazole: synthesis of xestomanzamine A (2001)

An efficient and practical route to C-5 functionalized N-methylated imidazoles is reported. 5-Iodo-1-methylimidazole was synthesized in four steps from imidazole, with complete regiospecificity, in 73% overall yield. The synthesis of xestomanzamine A, a marine natural product isolated in 1995 from an Okinawan sponge of Xestospongia sp., has been achieved using 5-iodo-1-methylimidazole in a modified Grignard reaction with a β-carboline ester moiety, in an overall yield of 59% based upon imidazole and 53% based upon tryptamine.Key words: xestomanzamine A, 5-iodo-1-methylimidazole, methyl β-carboline-1-carboxylate.
Elevated expression of nuclear Hsp90 in invasive breast tumors (2009)

With the current trend for early breast cancer detection, there is also a growing demand for discovering markers to assist in the patient risk stratification. Molecular chaperones play essential roles in the post-translational maturation of oncogenic client proteins and are strongly associated with carcinogenesis. To better define the role of chaperones in breast cancer, tissue arrays were immunostained for the chaperones Hsp90 and p23 and assessed in terms of reactivity, intensity and cellular localization. Cytoplasmic Hsp90 protein expression was significantly stronger in ductal carcinoma in situ and invasive breast carcinomas as compared to normal breast tissue (p < 0.0001). Importantly, invasive cores also display a significant relationship between nuclear Hsp90 expression and TNM stage (p = 0.0023) as well as estrogen receptor (ER) status (p = 0.0112). Expression of p23 was substantially stronger in normal tissue than in malignant carcinomas (p < 0.0001) with no discernable correlation with TNM stage, which differs from in vitro results. To determine the functional differences between normal and tumor cells, we assessed the bound versus free forms of Hsp90. Contrary to previous results, we find both complexed and free Hsp90 in normal, immortal and tumor cells, suggesting that the differences between normal and immortal/cancer cells in terms of functional Hsp90 levels may be related to either its overall expression level or its subcellular location. Taken together, our data suggest that blocking nuclear Hsp90 function in advanced breast cancers may be a more targeted approach to treating advanced breast cancers that are refractory to traditional therapy.
Sp3 and Sp4 Can Repress Transcription by Competing with Sp1 for the Core cis-Elements on the Human ADH5/FDHMinimal Promoter (1999)

The human alcohol dehydrogenase 5 gene (also known as the formaldehyde dehydrogenase gene, ADH5/FDH) has a GC-rich promoter with many sites at which transcription factors bind. A minimal promoter extending from -34 base pairs (bp) to +61 bp directs high levels of transcription in several different cells, consistent with the ubiquitous expression of the gene. Nearly the entire minimal promoter can be bound by Sp1. We analyzed the transcriptional regulation of ADH5/FDH by members of the Sp1 multigene family. Two core cis-elements (-22 bp to +22 bp) had the highest affinity for Sp1. Mutagenesis revealed that these cis-elements are critical for transcriptional activation. The zinc-finger domains of Sp3 and Sp4 also bind selectively to the core cis-elements. In Drosophila SL2 cells, which lack endogenous Sp1, the minimal promoter cannot drive transcription. Introduction of Sp1 activated transcription over 50-fold, suggesting that Sp1 is critical in the initiation of transcription. Neither Sp3 nor Sp4 was able to activate transcription in those cells, and transcriptional activation by Sp1 was repressed by Sp3 or Sp4. These data suggest that Sp3 and Sp4 can repress transcription by competing with Sp1 for binding to the core cis-elements. The content of Sp1, Sp3, and Sp4 in different cells may be critical factors regulating transcription of the ADH5/FDH gene.
Web Page Personalization Based on Weighted Association Rules (2009)

Web personalization is the process of customizing a web site to the needs of each specific user or set of users, taking advantage of the knowledge acquired through the analysis of the userpsilas navigational behavior. Personalized recommendation by predicting user-browsing behavior using association-mining technology has gained much attention in web personalization research area. However, the resulting association patterns did not perform well in prediction of future browsing patterns due to the low matching rate of the resulting rules and userspsila browsing behavior. In this paper, we extend the traditional association rule problem by allowing a weight to be associated with each item in a transaction to reflect the interest/intensity of each item within the transaction. In turn, this provides us with an opportunity to associate a weight parameter with each item in a resulting association rule. We assign a significant weight to each page based on the time spent by user on each page and visiting frequency of each page, taking in to account the degree of interest instead of binary weighting. We present new personalized recommendation method base on the proposed weighted association-mining technique. We show, through experimentation on real data set that this approach results in more objective and representative predictions and shows a significant improvement in the recommendation effectiveness in comparison to the traditional association rule approaches.
Basal and UV‐induced MMP‐1 expression are inhibited by p53 in human dermal fibroblasts (2008)

Ultraviolet (UV) triggers induction of matrix metalloproteinase-1 (MMP-1) and also induces the rapid appearance of p53 protein in the epidermis and dermal fibroblasts. However, little is known about the role of p53 on MMP-1 expression in human skin. Here, we investigated the effects of p53 on basal and UV-induced MMP-1 in human dermal fibroblasts. To verify the role of p53 on MMP-1 expression, adenoviral p53 (Ad-p53) gene was infected to human dermal fibroblasts. Our results showed that basal and UV-induced MMP-1 expression was prevented by Ad-p53. In contrast, p53 inhibitor, pifithrin-alpha augmented the UV-induced MMP-1 expression. On the other hand, p53 activator, etoposide, decreased the MMP-1 expression in both normal and p53-overexpressed cells. In addition, MMP-1 expression was not changed by etoposide and/or pifithrin-alpha in HaCaT cells, which have mutation of p53. Taken together, we suggest that p53 inhibits basal and UV-induced MMP-1 expression in human dermal fibroblasts.
Sequence and properties of pIM13, a macrolide-lincosamide-streptogramin B resistance plasmid from Bacillus subtilis (1986)

We initiated a study of pIM13, a multicopy, macrolide-lincosamide-streptogramin B (MLS) plasmid first isolated from a strain of Bacillus subtilis and described by Mahler and Halvorson (J. Gen. Microbiol. 120:259-263, 1980). The copy number of this plasmid was about 200 in B. subtilis and 30 in Staphylococcus aureus. The MLS resistance determinant of pIM13 was shown to be highly homologous to ermC, an inducible element on the S. aureus plasmid pE194. The product of the pIM13 determinant was similar in size to that of ermC and immunologically cross-reactive with it. The MLS resistance of pIM13 was expressed constitutively. The complete base sequence of pIM13 is presented. The plasmid consisted of 2,246 base pairs and contained two open reading frames that specified products identified in minicell extracts. One was a protein of 16,000 molecular weight, possibly required for replication. The second was the 29,000-molecular-weight MLS resistance methylase. The regulatory region responsible for ermC inducibility was missing from pIM13, explaining its constitutivity. The remainder of the pIM13 MLS determinant was nearly identical to ermC. The ends of the region of homology between pIM13 and pE194 were associated with hyphenated dyad symmetries. A segment partially homologous to one of these termini on pIM13 and also associated with a dyad was found in pUB110 near the end of a region of homology between that plasmid and pBC16. The entire sequence of pIM13 was highly homologous to that of pE5, an inducible MLS resistance plasmid from S. aureus that differs from pIM13 in copy control.
A putative vacuolar cargo receptor partially colocalizes with AtPEP12p on a prevacuolar compartment in Arabidopsis roots (1998)

Targeting of protein cargo to the vacuole/lysosome is a multistep process that appears to have conserved features between mammalian, yeast, and plant cells. In each case, some soluble vacuolar/lysosomal proteins are believed to be bound by transmembrane cargo receptors in the trans-Golgi network (TGN) that redirect these proteins into clathrin-coated vesicles. These vesicles then appear to be transported to the prevacuole/endosome by a trafficking machinery that requires components identified in other vesicle-targeting steps such as N-ethylmaleimide-sensitive factor (NSF), soluble NSF attachment protein (SNAP), SNAP receptors (SNAREs), rab-type GTPases, and Sec1p homologs. Two likely members of this trafficking machinery have been characterized from Arabidopsis thaliana: AtPEP12p, a t-SNARE that resides on a what we now call a prevacuolar compartment, and AtELP, a protein that shares many common features with mammalian and yeast transmembrane cargo receptors. Here, we have further investigated the intracellular distribution of AtELP. We have found that AtELP is located at the trans-Golgi of Arabidopsis root cells, and that its C terminus can preferentially interact in vitro with the mammalian TGN-specific AP-1 clathrin-adapter complex, suggesting a likely role in clathrin-coated, vesicle-directed trafficking at the TGN. Further, consistent with a role in trafficking of vacuolar cargo, we have found that AtELP partially colocalizes with AtPEP12p on a prevacuolar compartment.
Studies on absorption, distribution, excretion and metabolism of ginseng saponins. V. The decomposition products of ginsenoside Rb2 in the large intestine of rats. (1990)

The decomposition of ginsenoside Rb2 (Rb2) in the rat large intestine after oral administration was investigated in detail. A part of Rb2 was decomposed and six decomposition products (I-VI) were observed on thin-layer chromatogram. Among them, five products (I-V) were isolated, and identification of these compounds was done by carbon-13 nuclear magnetic resonance (13C-NMR).On the basis of 13C-NMR analysis, these compounds were identified as ginsenoside Rd (I), 3-O-β-D-glucopyranosyl-20-O-[α-L-arabinopyranosyl(1→6)-β-D-glucopyranosyl]-20(S)-proto-panaxadiol (II), ginsenoside F2 (III), 20-O-[α-L-arabinopyranosyl(1→6)-β-D-glucopyranosyl]-20(S)-protopanaxadiol (IV), and compound K (V), respectively.
Different clinical behaviors of acute hepatitis C virus infection are associated with different vigor of the anti-viral cell-mediated immune response. (1996)

The anti-viral T cell response is believed to play a central role in the pathogenesis of hepatitis C virus infection. Since chronic evolution occurs in > 50% of HCV infections, the sequential analysis of the T cell response from the early clinical stages of disease may contribute to define the features of the T cell response associated with recovery or chronic viral persistence. For this purpose, 21 subjects with acute hepatitis C virus infection were sequentially followed for an average time of 44 wk. Twelve patients normalized transaminase values that remained normal throughout the follow-up period; all but two cleared hepatitis C virus-RNA from serum. The remaining nine patients showed persistent viremia and elevated transaminases. Analysis of the peripheral blood T cell proliferative response to core, E1, E2, NS3, NS4, and NS5 recombinant antigens and synthetic peptides showed that responses to all hepatitis C virus antigens, except E1, were significantly more vigorous and more frequently detectable in patients who normalized transaminase levels than in those who did not. By sequential evaluation of the T cell response, a difference between the two groups of patients was already detectable at the very early stages of acute infection and then maintained throughout the follow-up period. The results suggest that the vigor of the T cell response during the early stages of infection may be a critical determinant of disease resolution and control of infection.
Treatment of Narcolepsy and Sleep Apnea with Gammahydroxybutyrate: A Clinical and Polysomnographic Case Study (1981)

Gammahydroxybutyrate was administered to a patient who experienced narcolepsy associated with central sleep apnea. The treatment relieved the major symptoms of narcolepsy, and significantly decreased the number of apneic periods. Gammahydroxybutyrate did not cause the prolonged and potentially fatal apneic periods associated with the use of other hypnotic agents.
Tolls and Beyond — Many Roads to Vaccine Immunity (2007)

Some adjuvants contain ligands that bind to a specific class of dendritic-cell receptors called toll-like receptors. Binding of ligand to toll-like receptors was thought to initiate the immune response and underlie the adjuvant effect. A recent study questions this assumption.
Fast simulated annealing inversion of surface waves on pavement using phase-velocity spectra (2006)

Abstract The conventional inversion of surface waves depends on modal identification of measured dispersion curves, which can be ambiguous. It is possible to avoid mode-number identification and extraction by inverting the complete phase-velocity spectrum obtained from a multichannel record. We use the fast simulated annealing (FSA) global search algorithm to minimize the difference between the measured phase-velocity spectrum and that calculated from a theoretical layer model, including the field setup geometry. Results show that this algorithm can help one avoid getting trapped in local minima while searching for the best-matching layer model. The entire procedure is demonstrated on synthetic and field data for asphalt pavement. The viscoelastic properties of the top asphalt layer are taken into account, and the inverted asphalt stiffness as a function of frequency compares well with laboratory tests on core samples. The thickness and shear-wave velocity of the deeper embedded layers are resolved within 10% deviation from those values measured separately during pavement construction. The proposed method may be equally applicable to normal soil site investigation and in the field of ultrasonic testing of materials.
Calibration and verification of the pure-mode vector network analyzer (1998)

In this paper, the calibration of a pure-mode vector network analyzer (PMVNA) is presented in detail. The analyzer is intended for the measurement of mixed-mode scattering parameters (s-parameters) of differential circuits, but is also suitable for measurement of general microwave networks with up to four ports. The theory of calibration of the analyzer is developed in terms of a general n-port analyzer, including the correction of port-to-port crosstalk. The type of the standards used in calibration is examined, and the minimum number of standards are summarized for various levels of crosstalk correction. A new standard for all multiport network analyzer calibrations is introduced. A calibration is performed from 0.25 to 25.25 GHz based on standards with coaxial connectors, and verification standards are measured. The measured data is compared with National Institute of Standards and Technology (NIST) traceable measurements, and errors are found to be generally less than /spl plusmn/1 dB in transmission. In many cases, the error is less than the uncertainty of the NIST traceable measurements.
Expression of fascin-1 protein in basal cell carcinoma and squamous cell carcinoma (2009)

Objective To investigate the relationship of fascin-1 protein expression with the metastasis of basal cell carcinoma and squamous cell carcinoma. Methods Skin specimens were obtained from 10 normal human controls, 13 patients with basal cell carcinoma (8 nodular variant and 5 superficial variant) and 24 patients with SCC (11 SCC in situ and 13 invasive SCC). Immunohistochemical staining was performed to analyze the expression of fascin-1 protein. The staining results were quantitatively assessed with computer image analysis system (Image-pro Plus 6.0). Results The optical density of fascin-1 averaged 0.1152±0.04574 in SCC in situ, 0.1257±0.03096 in invasive SCC, and 0.0293±0.00981 in normal controls; the expression of fascin-1 was significantly higher in SCC tissue than in normal control skin (both P<0.05). Increased optical density was also observed for fascin-1 in nodular variant of SCC (0.0808 ±0.05642) and superficial variant of SCC (0.0806±0.04346) compared with the normal controls, whereas no statistical difference was observed between nodular and superficial variant of SCC. Conclusion In BCC and SCC, there is an over expression of fascin-1, which may be linked to the local invasion of carcinoma,

Key words: 
Carcinoma, squamous cell;  Carcinoma, basal cell;  Fascin-1;  Immunohistochemistry
The Molecular and Cellular Biology of Tau (1993)

Tau protein was a well-studied molecule before it was discovered in the Alzheimer neurofibrillary tangles. As a microtubule-associated protein (MAP), it continues to be of interest to microtubule biologists who have provided a rather rich knowledge about this protein. Recent work suggests that tau, a neuronal MAP, is capable of generating some features of an axonal shape and an axon-like organization of the cytoskeleton. The importance of tau in pathology stems from its relationship to Alzheimer paired helical filaments and dystrophic neurites. Tau was first believed to be a component of paired helical filaments based upon immunocytochemical grounds (1-6) and then conclusively demonstrated by protein chemical techniques (7-9). Most recently it was shown that bacterially expressed tau fragments from the microtubule-binding domain can self-assemble into paired helical filaments that resemble those from the Alzheimer brain (10).
A four-element fiber grating sensor array with phase-sensitive detection (1994)

A four-element, time-division multiplexed, fiber grating sensor array operating between the wavelengths of 1280 and 1310 nm was constructed and tested. The array consists of a 1300-nm edge-emitting LED that illuminates four gratings spaced five meters apart. Each grating in the array reflects a spectrally narrow-band (0.3-0.5 mn) wavelength region. Measurand-induced changes in the grating period change the wavelength of the light reflected by each grating. The wavelength shifts are converted to phase changes by routing the reflected signal through a nearly path balanced fiber Mach Zehnder interferometer. The minimum detectable strain was measured to be as low as 2 nanostrain//spl radic/(Hz) for frequencies greater than 10 Hz.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>