gebhart/patrepeval huggingface dataset:
Wide temperature range operation of micrometer-scale silicon electro-optic modulators (2008)

We demonstrate high bit rate electro-optic modulation in a resonant micrometer-scale silicon modulator over an ambient temperature range of 15 K. We show that low bit error rates can be achieved by varying the bias current through the device to thermally counteract the ambient temperature changes. Robustness in the presence of thermal variations can enable a wide variety of applications for dense on chip electronic photonic integration.
The Lateral Tie-Back System: The Ability to Drill and Case Multiple Laterals (1994)

ABSTRACT A system has been developed for new wells to achieve greater reservoir exposure by allowing multiple lateral wellbores to be drilled and cased from a single primary wellbore. The Lateral Tie-Back System (LTBS™) described in this paper allows all of the laterals to be cased, providing a complex interconnection of individual production liners, with total wellbore integrity. The system increases reservoir exposure even beyond the dramatic improvement offered by a single horizontal well. Multiple laterals may be drilled at virtually any predetermined depth in a new vertical, directional or horizontal wellbore and at any time during the productive life cycle of the well. The system also allows quick re-entry into all laterals for well servicing and workovers. A prototype system was successfully field tested in cooperation with CS Resources Limited in a shallow, unconsolidated sand formation where a definite correlation has been established between horizontal reservoir exposure and increased production. This provided an excellent opportunity to test the advantages of the Lateral Tie-Back System. The system provides a new opportunity to significantly reduce overall drilling and casing costs for the development of entire fields. Its application to date has been in horizontal wells that require slotted liner completions. This paper reviews the development and use of the first Lateral Tie-Back System. Additional developments and future advances of this technology are presented which will adapt to a broader range of applications.
Enumeration and trellis-searched coding schemes for speech LSP parameters (1993)

Speech coders employing forward adaptive predictive coding (APC) and operating at medium-to-low bit rates necessitate efficient encoding of the linear predictive coding (LPC) coefficients. Line spectrum pair (LSP) parameters are currently one of the most efficient choices of transmission parameters for the LPC coefficients. The authors briefly reviews LSP parameters and presents several low-delay coding schemes for the parameters. The coders are simulated using data generated from both the autocorrelation and covariance LPC analysis methods. The performances of the coders are given for a variety of rates and LPC analysis conditions. The most efficient scheme developed uses a uses a predictive form of trellis-coded quantization (TCQ). Its performance is comparable or superior to that of other low-delay LSP coding schemes. An enumeration scheme that reduces the rate of a given scalar quantization structure without decreasing coder performance is also presented.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Loss Functions for Neural Networks for Image Processing (2015)

Neural networks are becoming central in several areas of computer vision and image processing and different architectures have been proposed to solve specific problems. The impact of the loss layer of neural networks, however, has not received much attention in the context of image processing: the default and virtually only choice is L2. In this paper, we bring attention to alternative choices for image restoration. In particular, we show the importance of perceptually-motivated losses when the resulting image is to be evaluated by a human observer. We compare the performance of several losses, and propose a novel, differentiable error function. We show that the quality of the results improves significantly with better loss functions, even when the network architecture is left unchanged.
BumbleBee: a refactoring environment for spreadsheet formulas (2014)

Spreadsheets are widely used in industry. It is estimated that end-user programmers outnumber regular programmers by a factor of 5. However, spreadsheets are error-prone: several reports exist of companies that have lost big sums of money due to spreadsheet errors. In previous work, spreadsheet smells have proven to be the cause of some of these errors. To that end, we have developed a tool that can apply refactorings to spreadsheet formulas, implementing our previous work on spreadsheet refactoring, which showed that spreadsheet formula smells are very common and that refactorings for them are widely applicable and that refactoring them with a tool is both quicker and less error-prone. Our new tool Bumblebee is able to execute refactorings originating from both these papers, by means of an extensible syntax, and can furthermore apply refactorings on entire groups of formulas, thus improving upon the existing tool RefBook. Finally, BumbleBee can also execute transformations other than refactorings.
On importance sampling for linear block codes (2004)

We introduce an importance sampling scheme for linear block codes with message-passing decoding. This novel scheme overcomes an existing difficulty in the IS practice that requires codebook information. Experiments show large IS gains for single parity-check codes and short-length block codes. For medium-length block codes, IS gains in the order of 10/sup 3/ and higher are observed at high signal-to-noise ratio.
Additivity of mutant effects assessed by binomial mutagenesis. (1993)

Eleven amino acid positions in the helix-turn-helix of lambda repressor have been mutagenized by using a combinatorial method in which alanine is substituted at each position with a probability of 0.5. Approximately 25% of the 2048 proteins in the resulting binomial library are active, including some variants with as many as seven alanine substitutions. The frequency of alanine substitutions in the set of active variants is a measure of the importance of the wild-type residue at each mutagenized position, and comparison of the frequencies of pairwise mutations with those expected based upon the single-position frequencies allows the additivity of mutant effects to be tested. For the positions examined here, we find that the effects of multiple substitutions are largely additive and are able to predict the activity class of the binomial mutants with 90% accuracy by using a model that simply sums penalty scores derived from the alanine substitution frequencies. We also find, however, that several residue pairs, including some that are distant in the three-dimensional structure, do display nonadditive effects that appear to be statistically significant.
The LysR‐like regulator LeuO in Escherichia coli is involved in the translational regulation of rpoS by affecting the expression of the small regulatory DsrA‐RNA (1997)

The translation of rpoS, which encodes the general stress sigma factor, sigmaS, in Escherichia coli, is stimulated by various stress conditions. Regulatory factors involved in this control are the RNA-binding Hfq (HF-I) protein, the histone-like protein H-NS and the small regulatory DsrA-RNA (with the last being specifically required for increased rpoS translation at low temperature). Here, we report the characterization of a transposon insertion mutant (Tn10-8) with reduced sigmaS levels that led to the identification of an additional factor involved in the regulation of rpoS translation, the LysR-like regulator LeuO. Tn10-8 decreases rpoS translation predominantly at low growth temperature. The mutation results in similarly strongly reduced DsrA-RNA expression and does not affect rpoS expression in a dsrA null mutant background, indicating that it affects rpoS translation via DsrA-RNA. Tn10-8 is inserted 26bp upstream of the leuO open reading frame, which encodes a putative LysR-like regulator of unknown function. Instead of being a leuO null mutation, Tn10-8 activates leuO expression as a result of the p(out) promoter on IS10L reading into leuO, indicating that LeuO represses dsrA and thereby reduces rpoS translation at low temperature. LeuO does not contribute to temperature regulation of dsrA since its own expression is rather low and not temperature dependent. In a mutant deficient for H-NS, however, leuO is strongly derepressed. We conclude that rpoS translation is controlled by a regulatory network that includes Hfq, H-NS, LeuO and DsrA-RNA. In this network, H-NS plays a dual role by interfering with rpoS translation in general and, via LeuO, influencing the synthesis of its own low-temperature antagonist, DsrA-RNA.
Identification of CD146 as a component of the endothelial junction involved in the control of cell-cell cohesion (2001)

CD146 is a cell-surface molecule belonging to the immunoglobulin superfamily and expressed in all types of human endothelial cells. Confocal and electron microscopic analysis of confluent human umbilical vein endothelial cells (HUVECs) were used to demonstrate that CD146 is a component of the endothelial junction. Double immunolabeling with vascular endothelial cadherin showed that CD146 is localized outside the adherens junction. Moreover, CD146 expression is not restricted to the junction, since part of the labeling was detectable at the apical side of the HUVECs. Interestingly, cell-surface expression of CD146 increased when HUVECs reached confluence. In addition, the paracellular permeability of CD146-transfected fibroblast cells was decreased compared with that of control cells. Finally, CD146 colocalized with actin, was partly resistant to Triton X-100 extraction, and had its expression altered by actin-disrupting agents, indicating that CD146 is associated with the actin cytoskeleton. These results show the regulated expression of CD146 at areas of cell-cell junction and strongly suggest involvement of CD146 as a mediator of cell-cell interaction.
The Coactivator activator CoAA regulates PEA3 group member transcriptional activity (2011)

The PEA3 (polyoma enhancer activator 3) group members [ERM (ETS-related molecule), ER81 (ETS-related 81) and PEA3] of the Ets transcription factor family are involved in migration and dissemination processes during organogenesis and cancer development. In the present study, we report that the hnRNP (heterogeneous nuclear ribonucleoprotein)-like protein CoAA (Coactivator activator) interacts with the PEA3 group members and modulates their transcriptional activity. We also demonstrate that the CoAA YQ domain, containing tyrosine/glutamine-rich hexapeptide repeats, is necessary for the interaction, whereas the two N-terminal RRMs (RNA recognition motifs) of CoAA are required to enhance transcriptional activity. Finally, we show that CoAA is involved in the migration-enhancing action of PEA3 on MCF7 human cancer cells, suggesting that CoAA might be an important regulator of PEA3 group member activity during metastasis.
The Effect of Recombinant Human Platelet‐Derived Growth Factor BB–Coated Sutures on Rotator Cuff Healing in a Sheep Model (2010)

rhPDGF-BB-coated sutures seem to produce a more histologically normal tendon insertion.
A Comparison of Signalling Alphabets (1952)

Two channels are considered; a discrete channel which can transmit sequences of binary digits, and a continuous channel which can transmit band limited signals. The performance of a large number of simple signalling alphabets is computed and it is concluded that one cannot signal at rates near the channel capacity without using very complicated, alphabets.
Comparative Seroprevalence and Immunogenicity of Six Rare Serotype Recombinant Adenovirus Vaccine Vectors from Subgroups B and D (2007)

Recombinant adenovirus serotype 5 (rAd5) vector-based vaccines are currently being developed for both human immunodeficiency virus type 1 and other pathogens. The potential limitations associated with rAd5 vectors, however, have led to the construction of novel rAd vectors derived from rare Ad serotypes. Several rare serotype rAd vectors have already been described, but a detailed comparison of multiple rAd vectors from subgroups B and D has not previously been reported. Such a comparison is critical for selecting optimal rAd vectors for advancement into clinical trials. Here we describe the construction of three novel rAd vector systems from Ad26, Ad48, and Ad50. We report comparative seroprevalence and immunogenicity studies involving rAd11, rAd35, and rAd50 vectors from subgroup B; rAd26, rAd48, and rAd49 vectors from subgroup D; and rAd5 vectors from subgroup C. All six rAd vectors from subgroups B and D exhibited low seroprevalence in a cohort of 200 individuals from sub-Saharan Africa, and they elicited Gag-specific cellular immune responses in mice both with and without preexisting anti-Ad5 immunity. The rAd vectors from subgroup D were also evaluated using rhesus monkeys and were shown to be immunogenic after a single injection. The rAd26 vectors proved the most immunogenic among the rare serotype rAd vectors studied, although all rare serotype rAd vectors were still less potent than rAd5 vectors in the absence of anti-Ad5 immunity. These studies substantially expand the portfolio of rare serotype rAd vectors that may prove useful as vaccine vectors for the developing world.
Cells Transfected with a Non-Neutralizing Antibody Gene Are Resistant to HIV Infection: Targeting the Endoplasmic Reticulum and Trans -Golgi Network (1998)

Plasmids containing single chain Fv (scFv) non-neutralizing human anti-HIV-1 gp41 Ab cDNA, with or without endoplasmic reticulum (ER) or trans-Golgi network (TGN) retention signals, were constructed. Stable transfectants expressing these scFvs then were generated from COS-7 cells and HIV-1-susceptible CD4+ human T cells (Jurkat). scFv without a retention signal was secreted from cells, whereas scFv with an ER or TGN retention signal remained primarily within targeted intracellular compartments. The expression of scFv, scFv-ER, and scFv-TGN did not adversely affect the appearance of uninfected cells, as measured by growth rate or CD4 expression. Pulse-chase experiments revealed that the t(1/2) of scFv-ER and scFv-TGN within cells was greater than 24 h and less than 9 h, respectively. The scFv-ER and scFv-TGN bound HIV gp160, and the scFv-ER-gp160 and the scFv-TGN-gp160 complexes were stable within HIV-infected transfectants. Further studies revealed that the maturation processing of gp160 into gp120 and gp41 was blocked in the scFv-ER transfectants, but not in the scFv-TGN transfectants. Moreover, HIV replication, as measured by p24, was inhibited by up to 99% in cells transfected with scFv-ER or scFv-TGN, but was not inhibited in cells transfected with the secretory form of scFv. It is concluded that the targeting of non-neutralizing anti-HIV-1 Abs to specific intracellular compartments blocks HIV replication and represents a potential therapeutic strategy for protecting uninfected lymphopoietic stem cells from HIV-1-infected patients.
Correlation of clinical and immunological data in a metastatic melanoma patient with heterogeneous tumor responses to ipilimumab therapy. (2010)

Melanoma patients treated with anti-CTLA-4 have shown a range of anti-tumor responses. In this report, we describe the response of a single patient to anti-CTLA-4, with individual lesions disappearing, others stabilizing, and others progressing. These responses can be viewed as a clear manifestation of cancer immunoediting and its three phases of elimination, equilibrium and escape, with each tumor in this patient being at a discrete stage in the process. The patient's course and associated immunological monitoring and other laboratory data are presented in an immunogram, a way to visualize temporal associations between the multiple clinical and laboratory parameters.
Capacitative calcium entry channels (1999)

In the phospholipase C signaling system, Ca(2+) is mobilized from intracellular stores by an action of inositol 1,4,5-trisphosphate. The depletion of intracellular calcium stores activates a calcium entry mechanism at the plasma membrane called capacitative calcium entry. The signal for activating the entry is unknown but likely involves either the generation or release, or both, from the endoplasmic reticulum of some diffusible signal. Recent research has focused on mammalian homologues of the Drosophila TRP protein as potential candidates for capacitative calcium entry channels. This review summarizes current knowledge about the nature of capacitative calcium entry signals, as well as the potential role of mammalian TRP proteins as capacitative calcium entry channel molecules.
Development of an Effective Polyvalent Vaccine against both Marek's and Newcastle Diseases Based on Recombinant Marek's Disease Virus Type 1 in Commercial Chickens with Maternal Antibodies (2000)

An earlier report (M. Sakaguchi et al., Vaccine 16:472-479, 1998) showed that recombinant Marek's disease virus type 1 (rMDV1) expressing the fusion (F) protein of Newcastle disease virus (NDV-F) under the control of the simian virus 40 late promoter [rMDV1-US10L(F)] protected specific pathogen-free chickens from NDV challenge, but not commercial chickens with maternal antibodies against NDV and MDV1. In the present study, we constructed an improved polyvalent vaccine based on MDV1 against MDV and NDV in commercial chickens with maternal antibodies. The study can be summarized as follows. (i) We constructed rMDV1 expressing NDV-F under the control of the MDV1 glycoprotein B (gB) promoter [rMDV1-US10P(F)]. (ii) Much less NDV-F protein was expressed in cells infected with rMDV1-US10P(F) than in those infected with rMDV1-US10L(F). (iii) The antibody response against NDV-F and MDV1 antigens of commercial chickens vaccinated with rMDV1-US10P(F) was much stronger and faster than with rMDV1-US10L(F), and a high level of antibody against NDV-F persisted for over 80 weeks postvaccination. (iv) rMDV1-US10P(F) was readily reisolated from the vaccinated chickens, and the recovered viruses were found to express NDV-F. (v) Vaccination of commercial chickens having maternal antibodies to rMDV1-US10P(F) completely protected them from NDV challenge. (vi) rMDV1-US10P(F) offered the same degree of protection against very virulent MDV1 as the parental MDV1 and commercial vaccines. These results indicate that rMDV1-US10P(F) is an effective and stable polyvalent vaccine against both Marek's and Newcastle diseases even in the presence of maternal antibodies.
Ready Detection of Donor-Specific Single-Nucleotide Polymorphisms in the Urine of Renal Transplant Recipients by Matrix-Assisted Laser Desorption/Ionization Time-of-Flight Mass Spectrometry (2005)

Several studies have reported that transplant-derived cell-free DNA (CF-DNA) can be detected in the urine of renal transplant recipients (1)(2)(3)(4)(5). These studies have indicated that the increased excretion of CF-DNA is associated with acute graft rejection but not with drug-induced kidney dysfunction (1)(2)(3)(5).

A limitation of these studies was that they frequently relied on the detection of Y-chromosome–specific sequences in sex-disparate donor–recipient pairs (1)(2)(5). Although the use of specific human lymphocyte antigens mismatches was examined, this approach is reliably useful only when donor and recipient are unrelated (5). We previously reported that the analysis of highly …
Passively modelocked diode-pumped erbium-ytterbiumglass laser using a semiconductor saturable absorber mirror (1999)

A diode-pumped bulk Er3+:Yb3+:glass laser has been passively CW modelocked for the first time. Reliable, self-starting passive modelocking using semiconductor saturable absorber mirrors (SESAMs) is demonstrated, with pulses as short as 2.5 ps being obtained with an average output power of 68 mW at the telecommunications wavelength of ~1.5 µm.
A joint fit to the cosmological model and the T-M and Lx-T relations using cluster data (2001)

In this work we show how well can the cosmological parameters be constrained using galaxy cluster data. We also show how in the process of fitting the model which attempts to describe the data it is possible to get some information about the cluster scaling relations T − M and Lx −T. Among other conclusions we found that only low density universes (Ω ≈ 0.3 with or without Λ) are compatible with recent data sets. These constraints will be improved with future SZ data.
Purification and properties of extracellular lipase from Pseudomonas aeruginosa EF2 (1991)

Extracellular lipase was purified from a Tween 80-limited continuous culture of Pseudomonas aeruginosa EF2 by ultrafiltration of the culture supernatant followed by anion-exchange and gel-filtration FPLC. The lipase was composed of a single subunit (Mr 29,000, pI 4.9), which was capable of a variable degree of aggregation, and which exhibited both lipase activity, measured with the insoluble substrate olive oil (predominantly triolein), and esterase activity, measured with the soluble substrates p-nitrophenyl acetate and Tween 80. Lipase activity was approximately eight times higher than either type of esterase activity (kcat approximately 3000 s-1 for the hydrolysis of olive oil). The enzyme showed a marked regiospecificity for the 1,3-oleyl residues of radiolabelled triolein, was relatively stable at moderate temperatures (exhibiting a biphasic loss of activity with an initial t1/2 of 17.5 min at 60 degrees C) and was very stable to freezing and thawing. Lipase activity was only weakly inhibited by the serine-active reagent 3,4-dichloroisocoumarin, and was not inhibited by the chelating agent EDTA (1 mM). The N-terminal amino acid sequence of the Ps. aeruginosa EF2 lipase showed a marked similarity to those of several other bacterial lipases.
Absorptance of powder materials suitable for laser sintering (2000)

Abstract The normal spectral absorptance of a number of metal, ceramic and polymer powders susceptible to be utilised for selective laser sintering (SLS) technique was experimentally determined. The measurements were performed with two laser wavelengths of 1.06μm and 10.6μm obtained by using two lasers – Nd‐YAG and CO2 respectively. The change in the powder absorptance with time during laser processing was also investigated. The effect of the absorptance characteristics on the sintering process is discussed.
Immunomodulating activity of meningococcal antigens (1983)

A preparation of meningococcal antigens (MA) extracted in CaCl2, and containing mostly outer membrane proteins, was strongly mitogenic for murine B lymphocytes. Given to mice in vitro, MA markedly impaired subsequent in vivo T-cell responses of splenocytes. Suppression of normal T splenocytes in vitro occurred with both adherent (Ad) and nonadherent (NA) splenocytes from MA-sensitized mice. B cells were much less affected by the suppression induced by MA, and only Ad cells could convey in vitro the low level impairment of B-cell proliferation. Strong T-cell suppression associated with a B-cell mitogen is also produced by bacillus Calmette-Guérin (BCG) and Corynebacterium parvum. The possible role of these phenomena in meningococcal disease is discussed.
A non-contact mouse for surgeon-computer interaction (2004)

We have developed a system that uses computer vision to replace standard computer mouse functions with hand gestures. The system is designed to enable non-contact human-computer interaction (HCI), so that surgeons will be able to make more effective use of computers during surgery. In this paper, we begin by discussing the need for non-contact computer interfaces in the operating room. We then describe the design of our non-contact mouse system, focusing on the techniques used for hand detection, tracking, and gesture recognition. Finally, we present preliminary results from testing and planned future work.