gebhart/patrepeval huggingface dataset:
Information Retrieval using a Singular Value Decomposition Model of Latent Semantic Structure (2017)

column Share on Information Retrieval using a Singular Value Decomposition Model of Latent Semantic Structure Authors: George W. Furnas Bellcore BellcoreView Profile , Scott Deerwester University of Chicago University of ChicagoView Profile , Susan T. Durnais Bellcore BellcoreView Profile , Thomas K. Landauer Bellcore BellcoreView Profile , Richard A. Harshman University of Western Ontario University of Western OntarioView Profile , Lynn A. Streeter Bellcore BellcoreView Profile , Karen E. Lochbaum Bellcore BellcoreView Profile Authors Info & Claims ACM SIGIR ForumVolume 51Issue 2July 2017 pp 90–105https://doi.org/10.1145/3130348.3130358Published:02 August 2017Publication History 4citation508DownloadsMetricsTotal Citations4Total Downloads508Last 12 Months79Last 6 weeks7 Get Citation AlertsNew Citation Alert added!This alert has been successfully added and will be sent to:You will be notified whenever a record that you have chosen has been cited.To manage your alert preferences, click on the button below.Manage my AlertsNew Citation Alert!Please log in to your account Save to BinderSave to BinderCreate a New BinderNameCancelCreateExport CitationPublisher SiteGet Access
Imaging of the intracellular topography of copper with a fluorescent sensor and by synchrotron x-ray fluorescence microscopy (2005)

Copper is an essential micronutrient that plays a central role for a broad range of biological processes. Although there is compelling evidence that the intracellular milieu does not contain any free copper ions, the rapid kinetics of copper uptake and release suggests the presence of a labile intracellular copper pool. To elucidate the subcellular localization of this pool, we have synthesized and characterized a membrane-permeable, copper-selective fluorescent sensor (CTAP-1). Upon addition of Cu(I), the sensor exhibits a 4.6-fold emission enhancement and reaches a quantum yield of 14%. The sensor exhibits excellent selectivity toward Cu(I), and its emission response is not compromised by the presence of millimolar concentrations of Ca(II) or Mg(II) ions. Variable temperature dynamic NMR studies revealed a rapid Cu(I) self-exchange equilibrium with a low activation barrier of deltaG++ = 44 kJ.mol(-1) and k(obs) approximately 10(5) s(-1) at room temperature. Mouse fibroblast cells (3T3) incubated with the sensor produced a copper-dependent perinuclear staining pattern, which colocalizes with the subcellular locations of mitochondria and the Golgi apparatus. To evaluate and confirm the sensor's copper-selectivity, we determined the subcellular topography of copper by synchrotron-based x-ray fluorescence microscopy. Furthermore, microprobe x-ray absorption measurements at various subcellular locations showed a near-edge feature that is characteristic for low-coordinate monovalent copper but does not resemble the published spectra for metallothionein or glutathione. The presented data provide a coherent picture with strong evidence for a kinetically labile copper pool, which is predominantly localized in the mitochondria and the Golgi apparatus.
Increased Expression of Hypoxia-Inducible Factor-1α, p48, and the Notch Signaling Cascade During Acute Pancreatitis in Mice (2003)

Acute pancreatitis (AP) is a complex disease that may be linked to acinar cell apoptosis and inadequate acinar cell replacement. Differentiation of acinar cells is regulated by p48, a DNA binding subunit of the transcription factor PTF1, and the Notch signaling pathway. Acinar cell apoptosis is triggered by oxygen deprivation, ie, hypoxia, by activation of hypoxia inducible factor-1alpha (HIF-1alpha). The aim of this study was to characterize by Northern blot analyses expression of HIF-1alpha, HIF-1alpha-inducible genes (GLUT-1, VEGF, p53), p48, and genes involved in the Notch signaling pathway (Notch-1, Dll1, RBP-Jk, HES-1) during cerulein-induced AP in mice. Maximal expression of HIF-1alpha, HIF-1alpha-inducible genes, p48, and Notch signaling genes occurred 8-12 hours after induction of AP. Maximal expression of p53 occurred 12-48 hours after induction of AP. These findings demonstrate that multiple pancreatic genes are activated acutely during AP that support pancreatic cell replenishment, regulation of expression of acinar cell-specific genes, and apoptosis.
RNA Extraction from Formalin-Fixed and Paraffin-Embedded Tissues (1998)

Fixed and paraffin-embedded tissues from pathology department archives can be available for RNA expression analysis. We have already shown that RNA isolated from biopsy, surgical, or autopsy tissue, routinely processed by fixation and paraffin embedding, is not completely degraded. RNA fragments of around 100 bases in length or more are still present even in organs fixed at later stages after removal and very rich in RNase, such as pancreas (1). Analysis of RNA from paraffin-embedded tissues allows us to use a large quantity of human tissues with any type of lesions collected in the pathology departments of any hosprtal. Thus method can be used to study the persistence in tissues of RNA virus genome or cell expression. Some procedures have been proposed to study this type of tissue (1–3). Here is described a general method for RNA extraction from single 6–8 μm human tissue histological sections cut from paraffin blocks that can give constant and reproducible results.
Therapy-resistant anaemia in congenital nephrotic syndrome of the Finnish type--implication of EPO, transferrin and transcobalamin losses (2008)

Congenital nephrotic syndrome of the Finnish type (CNF) is due to NPHS1 mutation and is responsible for a variety of urinary protein losses. We report the case of a 4-month-old girl with a particularly severe form (proteinuria approximately 150 g/l) of CNF. She developed severe non-regenerative anaemia requiring bi-monthly blood transfusions despite daily EPO (600 UI/kg) and iron supplementation. Epoetin pharmacokinetics revealed a urinary loss of 27% of the given dose within the first 24 h after IV injection. However, plasma levels remained increased after 24 h (228 UI/l). Plasma transferrin and transcobalamin levels were undetectable. Atransferrinaemia and atranscobalaminaemia seem to be responsible for disturbed erythropoiesis.
Matching properties of MOS transistors (1989)

The matching properties of the threshold voltage, substrate factor, and current factor of MOS transistors have been analyzed and measured. Improvements to the existing theory are given, as well as extensions for long-distance matching and rotation of devices. Matching parameters of several processes are compared. The matching results have been verified by measurements and calculations on several basic circuits.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
In situ apoptotic cell labeling by the TUNEL method: improvement and evaluation on cell preparations. (1996)

TUNEL (terminal deoxynucleotidyl transferase-mediated dUTP nick end-labeling) is a method of choice for rapid identification and quantification of the apoptotic cell fraction in cultured cell preparations. However, TUNEL application has been restricted to a narrow spectrum of sample conditions, and only detergents have been proposed as labeling enhancers. This study was aimed at extending TUNEL to variously fixed cells and improving TUNEL sensitivity by optimized pretreatments, the specificity being assessed by reference to the apoptotic morphology. Comparative TUNEL was performed with three protocols on CEM-C7 cells, a model of glucocorticoid-induced apoptosis. Samples were submitted to six modalities of fixation and TUNEL was performed after each of the following conditions: no pretreatment; detergent permeabilization; proteolytic digestion; microwave irradiation; and a recently published combination of the latter two. The proportion of TUNEL-stained elements within the cell fraction, with and without apoptotic morphology, was quantified. Our results showed that: (a) with an adequate pretreatment, reliable TUNEL can be obtained after each fixative tested; (b) detergent was inefficient in improving sensitivity; (c) whatever the fixation, microwave pretreatment provided the best TUNEL sensitivity without notable loss of specificity; (d) under adaptive technical conditions, TUNEL can be associated with detection of various proteins by double labeling; and (e) the existence of a limited population of intensely TUNEL-positive cells that lacked apoptotic morphology contributes to the current debate about a preapoptotic state.
Simultaneous Optical and Electrical Recording of a Single Ion-Channel. (2002)

In recent years, the single-molecule imaging technique has proven to be a valuable tool in solving many basic problems in biophysics. The technique used to measure single-molecule functions was initially developed to study electrophysiological properties of channel proteins. However, the technology to visualize single channels at work has not received as much attention. In this study, we have for the first time, simultaneously measured the optical and electrical properties of single-channel proteins. The large conductance calcium-activated potassium channel (BK-channel) labeled with fluorescent dye molecules was incorporated into a planar bilayer membrane and the fluorescent image captured with a total internal reflection fluorescence microscope simultaneously with single-channel current recording. This innovative technology will greatly advance the study of channel proteins as well as signal transduction processes that involve ion permeation processes.
A Power-Efficient Neural Tissue Stimulator With Energy Recovery (2011)

This paper presents a power-efficient neural stimulator integrated circuit, designed to take advantage of our understanding of iridium-oxide electrode impedance. It efficiently creates a programmable set of voltage supplies directly from a secondary power telemetry coil, then switches the target electrode sequentially through the voltage steps. This sequence of voltages mimics the voltage of the electrode under the constant current drive, resulting in approximately constant current without the voltage drop of the more commonly used linear current source. This method sacrifices some precision, but drastically reduces the series losses seen in traditional current sources and attains power savings of 53%-66% compared to these designs. The proof-of-concept circuit consumes 125 μW per electrode and was fabricated in a 1.5-μm CMOS process, in a die area of 4.76 mm(2).
Tissue distribution of silibinin, the major active constituent of silymarin, in mice and its association with enhancement of phase II enzymes: implications in cancer chemoprevention (1999)

Polyphenolic antioxidants are being identified as cancer preventive agents. Recent studies in our laboratory have identified and defined the cancer preventive and anticarcinogenic potential of a polyphenolic flavonoid antioxidant, silymarin (isolated from milk thistle). More recent studies by us found that these effects of silymarin are due to the major active constituent, silibinin, present therein. Here, studies are done in mice to determine the distribution and conjugate formation of systemically administered silibinin in liver, lung, stomach, skin, prostate and pancreas. Additional studies were then performed to assess the effect of orally administered silibinin on phase II enzyme activity in liver, lung, stomach, skin and small bowel. For tissue distribution studies, SENCAR mice were starved for 24 h, orally fed with silibinin (50 mg/kg dose) and killed after 0.5, 1, 2, 3, 4 and 8 h. The desired tissues were collected, homogenized and parts of the homogenates were extracted with butanol:methanol followed by HPLC analysis. The column eluates were detected by UV followed by electrochemical detection. The remaining homogenates were digested with sulfatase and beta-glucuronidase followed by analysis and quantification. Peak levels of free silibinin were observed at 0.5 h after administration in liver, lung, stomach and pancreas, accounting for 8.8 +/- 1.6, 4. 3 +/- 0.8, 123 +/- 21 and 5.8 +/- 1.1 (mean +/- SD) microg silibinin/g tissue, respectively. In the case of skin and prostate, the peak levels of silibinin were 1.4 +/- 0.5 and 2.5 +/- 0.4, respectively, and were achieved 1 h after administration. With regard to sulfate and beta-glucuronidate conjugates of silibinin, other than lung and stomach showing peak levels at 0.5 h, all other tissues showed peak levels at 1 h after silibinin administration. The levels of both free and conjugated silibinin declined after 0.5 or 1 h in an exponential fashion with an elimination half-life (t((1/2))) of 57-127 min for free and 45-94 min for conjugated silibinin in different tissues. In the studies examining the effect of silibinin on phase II enzymes, oral feeding of silibinin at doses of 100 and 200 mg/kg/day showed a moderate to highly significant (P < 0.1-0.001, Student's t-test) increase in both glutathione S-transferase and quinone reductase activities in liver, lung, stomach, skin and small bowel in a dose- and time-dependent manner. Taken together, the results of the present study clearly demonstrate the bioavailability of and phase II enzyme induction by systemically administered silibinin in different tissues, including skin, where silymarin has been shown to be a strong cancer chemopreventive agent, and suggest further studies to assess the cancer preventive and anticarcinogenic effects of silibinin in different cancer models.
Anti-gravity meets fantasy football (1998)

Those reading this magazine will pay absolute homage to the so-called of physics. There may be interesting divisions over the exact interpretation of quantum paradoxes, but classical would find us mostly united. There is, however, one area of human endeavour in which the laws of physics come under routine and flagrant violation. I refer to sport, and in particular the football field.
Studies on reverse transcriptase of RNA tumor viruses III. Properties of purified Moloney murine leukemia virus DNA polymerase and associated RNase H (1975)

DNA polymerase was purified from a cloned isolate of Moloney murine leukemia virus (M-MuLV). Purified M-MuLV DNA polymerase, upon analysis by polyacrylamide gel electrophoresis, showed one major polypeptide of mol wt 80,000. Estimation of molecular weight from the sedimentation rate of the purifed enzyme in a glycerol gradient was consistent with a structure containing one polypeptide. M-MuLV DNA polymerase could transcribe ribopolymers, deoxyribopolymers, and heteropolymers as efficiently as did purified DNA polymerase from avian myeloblastosis virus (AMV). M-MuLV DNA polymerase, however, transcribed native 70S viral RNA less efficiently than did AMV DNA polymerase. Addition of oligo(dT) enhanced five to tenfold the transcription of 70S viral RNA by M-MuLV DNA polymerase. Purified enzyme also exhibited nuclease activity (RNase H) that selectively degraded the RNA moiety of the RNA-DNA hybrid. It did not degrade single-stranded RNA, single-stranded DNA, double-stranded RNA, and double-stranded DNA. M-MuLV DNA polymerase-associated RNase H acted as a random exonuclease. When [3-H]poly(A)-poly(dT) was used as a substrate, the size of the M-MuLV DNA polymerase-associated RHase H digested product was larger than the size of the digestion products by AMV DNA polymerase. The oligonucleotide digestion products could be further digested to 5'-AMP by snake venom phosphodiesterase, indicating that the products were terminated by 3'-OH groups. Alkaline hydrolysis of the oligonucleotide digestion products generated pAp, suggesting that M-MuLV DNA polymerase-associated RNase H cleaves at the 3' side of the 3',5'-phosphodiester bond. The ratios of the rates of DNA polymerase activity and RNase H activity were not significantly different in the murine and avian enzymes.
Intracellular activation signal requirements for the induction of IL-2 responsiveness in resting T cell subsets in humans. (1988)

Activation signal requirements for the induction of the IL-2 responsiveness in purified subsets of human resting T cells, T4+ or T8+, have been investigated under the monocyte-depleted conditions. Substantial levels of IL-2 responsiveness were induced in T8+ cells by lectin, Con A, mAb directed against the CD3 Ag, OKT3, Ca2+ ionophore, ionomycin or phorbol ester, PMA. In contrast, none of these stimuli was by itself sufficient for the induction of IL-2 responsiveness in the T4+ subset. The latter cells could, however, be induced to respond to IL-2 by combinations of PMA plus either of Con A, OKT3, or ionomycin (but not any combination of Con A, ionomycin, and OKT3). These data indicate that induction of IL-2 responsiveness in the resting T4+ subset is more complex, possibly requiring two intracellular activation signals, increase in the concentration of intracellular Ca2+ and activation of protein kinase C, whereas either signal may directly trigger IL-2 responsiveness in the resting T8+ cells. The data further suggest that under optimal conditions, growth of both resting T4+ and T8+ subsets may be independent of monocytes.
Kinetic studies on the cleavage of adenovirus DNA by restriction endonuclease Eco RI (1976)

The kinetics of cleavage of DNA from Adenovirus Type 1 (Ad1), Type 5 (Ad5) and Type 6 (Ad6) by restriction endonuclease EcoRI was investigated by quantitative evaluation of the fluorescence from ethidium stained DNA fragments separated on agarose gels. The apparent rate constants of cleavage at different cleavage sites have been determined and large differences in the cleavage rates of the individual sites within one type of DNA were found. From the kinetics of cleavage information on the sequence of the DNA fragments can be obtained. The order of the fragment A, B, C, D of Ad6 DNA obtained after complete cleavage by restriction endonuclease Eco RI was found to be A-D-C-B; the order of the corresponding fragments A, B, C of Ad1 and Ad5 DNA was found to be A-C-B.
First Principles Calculation of Ground State and Electronic Properties of C and Si (1987)

In this article several ground state properties of diamond and Si are calculated and compared with the existing experimental values. All these properties are derived from the total crystal energy or from the one-particle electron energy. Both quantities are evaluated in the local density approximation using a norm-conserving non-local ionic pseudopotential. The calculated values for the lattice constant, bulk modulus and its pressure derivative, first and second pressure derivatives of the indirect band gap and X-ray structure factors are in good agreement with experiment. Several quantities which have not been measured as yet are predicted.
Regeneration of begonia plantlets by direct organogenesis (2009)

The economic importance of ornamentals worldwide suggests a bright future for ornamental breeding. Rapid progress in plant molecular biology has great potentials to contribute to the breeding of novel ornamental plants utilizing recombinant DNA technology. The plant cell, tissue or organ culture of many ornamental species and their regeneration are essential for providing the material and systems for their genetic manipulation, and this is therefore the first requirement of genetic engineering. In this research, different concentration of BA (0.0, 0.5, 1.0, 2.0 mgl-¹ with NAA (0.0, 0.5, 1.0 mgl-¹) and BA (0.0, 0.5, 1.0, 2.0 mgl-¹) with IAA (0.0, 0.5, 1.0, mgl-¹) were investigated to optimize regeneration of Begonia elatior cv. Toran orange. The best regeneration and growth were obtained from the media containing 2.0 mgl-¹ BA and 1.0 mgl-¹ NAA (70%) followed by 1.0 mgl-¹ BA and 0.5 mgl-¹ NAA (50%), 1.0 mgl-¹ BA and 1.0 mgl-¹ NAA (20%) in BA - NAA combination. The media with BA - IAA combination showed that the best regeneration was 0.5 mgl-¹ BA and 0.5 mgl-¹ IAA (43%) followed by 0.5 mgl-¹ BA and 1.0 mgl-¹ IAA (23%).
Visual image retrieval by elastic matching of user sketches (1997)

Effective image retrieval by content from database requires that visual image properties are used instead of textual labels to properly index and recover pictorial data. Retrieval by shape similarity, given a user-sketched template is particularly challenging, owing to the difficulty to derive a similarity measure that closely conforms to the common perception of similarity by humans. In this paper, we present a technique which is based on elastic matching of sketched templates over the shapes in the images to evaluate similarity ranks. The degree of matching achieved and the elastic deformation energy spent by the sketch to achieve such a match are used to derive a measure of similarity between the sketch and the images in the database and to rank images to be displayed. The elastic matching is integrated with arrangements to provide scale invariance and take into account spatial relationships between objects in multi-object queries. Examples from a prototype system are expounded with considerations about the effectiveness of the approach and comparative performance analysis.
Assessment of upper airway stabilizing forces with the use of phrenic nerve stimulation in conscious humans (2003)

Phrenic nerve stimulation (PNS) applied at end-expiration allows the investigation of passive upper airway (UA) dynamic during wakefulness. Assuming that phasic UA dilating/stabilizing forces should modify the UA properties when twitches are applied during inspiration, we compared the UA dynamic responses to expiratory and inspiratory twitches (2 s and 200 ms after expiratory and inspiratory onset, respectively) in nine men (mean age 28 yr). This procedure was repeated with a 2-cm mouth opening provided with a closed mouthpiece. The percentage of flow-limited (FL) twitches was significantly higher when PNS was realized during expiration than during inspiration. Maximal inspiratory flow (Vi(max)) of FL twitches was significantly higher for inspiratory twitches (1,383 +/- 42 and 1,185 +/- 40 ml/s). With mouth aperture, Vi(max) decreased with an increase in the corresponding pharyngeal resistance values, and the percentage of twitch with a FL regimen increased but only for inspiratory twitches. We conclude that 1) UA dynamics are significantly influenced by the inspiratory/expiratory timing at which PNS is applied, 2) the improvement in UA dynamic properties observed from expiratory to inspiratory PNS characterizes the overall inspiratory stabilizing effects, and 3) mouth aperture alters the stability of UA structures during inspiration.
Control of bone formation and resorption: Biological and clinical perspective (1998)

Bone is subject to continuous breakdown (resorption) by osteoclasts and rebuilding (formation) by osteoblasts in order to fulfill its functions. Most bone diseases including osteoporosis are due to excessive bone resorption relative to formation. Recent research has generated new insights into the regulation of osteoclast and osteoblast differentiation and function and the interaction between the two cell types. There is increased awareness of the role of mechanical stimuli in bone homeostasis and by inference the function of bone cells. This information can lead to new therapeutic modalities for maintaining a healthy skeleton into old age.