gebhart/patrepeval huggingface dataset:
RNA-Sequencing-Based Transcriptomic Score with Prognostic and Theranostic Values in Multiple Myeloma (2021)

Multiple myeloma (MM) is the second most frequent hematological cancer and is characterized by the clonal proliferation of malignant plasma cells. Genome-wide expression profiling (GEP) analysis with DNA microarrays has emerged as a powerful tool for biomedical research, generating a huge amount of data. Microarray analyses have improved our understanding of MM disease and have led to important clinical applications. In MM, GEP has been used to stratify patients, define risk, identify therapeutic targets, predict treatment response, and understand drug resistance. In this study, we built a gene risk score for 267 genes using RNA-seq data that demonstrated a prognostic value in two independent cohorts (n = 674 and n = 76) of newly diagnosed MM patients treated with high-dose Melphalan and autologous stem cell transplantation. High-risk patients were associated with the expression of genes involved in several major pathways implicated in MM pathophysiology, including interferon response, cell proliferation, hypoxia, IL-6 signaling pathway, stem cell genes, MYC, and epigenetic deregulation. The RNA-seq-based risk score was correlated with specific MM somatic mutation profiles and responses to targeted treatment including EZH2, MELK, TOPK/PBK, and Aurora kinase inhibitors, outlining potential utility for precision medicine strategies in MM.
Low cost and secure smart meter communications using the TV white spaces (2010)

We investigate the use of white spaces in the TV spectrum for Advanced Meter Infrastructure (AMI) communications. We provide a design for using white spaces for AMI and show its benefits in terms of bandwidth, deployment, and cost. We also discuss ongoing work on applying machine learning classification techniques to improve the attack resilience of spectrum data fusion in the proposed architecture.
ChemInform Abstract: Fusarin C, (7Z)‐Fusarin C and (5Z)‐Fusarin C; Inhibitors of Dihydroxynaphthalene‐Melanin Biosynthesis from Nectria coccinea ( Cylindrocarpon sp.). (1997)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Analysis of fuel cell based power systems using emtdc electrical power simulator (2004)

Current demands for alternative power generation have expanded beyond the utility industry into advanced transportation. Electrical and hybrid automobiles have long been developed utilizing fuel cell technology, and all-electric aircraft someday becomes a reality. To facilitate such work in electrical power simulators such as PSCAD/EMTDC and later in real-time power simulators like RSCAD/RTDS, accurate models of the transient behavior of all system components must be developed. Although the current state of power system models sufficiently encompasses most conventional systems for detailed simulations, fuel cell models for such studies are underdeveloped for power system analysis. This paper presents the integration of a proton exchange membrane fuel cell model into proposed electrical power system architecture. The fuel cell and support system for power delivery, including the appropriate power electronics and energy storage devices, are simulated and presented. The fuel cell model includes both electrical and thermal components to better capture transient behavior.
Magnetic Pulse Spot Welding: An Innovative Approach (2014)

The magnetic pulse welding is a rapid process (takes place within few micro seconds) that joins both homogeneous and heterogeneous materials in the solid state. The process involves applying variable high current on an inductor to generate Lorentz forces on to the conductive primary part (flyer). To realize the weld it is necessary to accelerate the flyer to impact on to the secondary stationary part (base material) at a very high velocity attained over the distance, called air gap, between the parts. It is typically possible to perform welding of tubes and sheets provided there is an optimized air gap between the parts to be welded. As part of our work we have developed an innovative approach (Magnetic Pulse Spot Welding-MPSW) that eliminates the delicate task of maintaining the aforementioned air gap between the plates. The proposed method opens better viable perspectives for heterogeneous assembly of automotive structures or connecting batteries in a quasi-cold state. The developed approach has been validated on the heterogeneous assembly Al/Fe by tensile tests (quasi-static and dynamic) that attested the quality of welds.
Paper Encryption Technology (2010)

In Japan, since the Act on the Protection of Personal Information was fully enforced in April 2005, companies and other parties have developed various measures to prevent leaks of information. Such measures include preventing information leaks by not printing documents whenever possible, keeping logs of people who print documents, and using electronic watermark technology that can embed tracking information such as IDs in printed material. However, not printing documents may not be possible in some services and may be inconvenient. While electronic watermarks are useful for tracking people who have leaked information, they are not effective for preventing the information leaks themselves. To prevent information leaks while allowing documents to be printed, Fujitsu Laboratories has pioneered a paper encryption technology. With this technology, only those who know the password can access information that is encrypted and hidden in printed material. This report introduces an outline of our paper encryption technology together with its uses and areas of application.
Compliance control for a two-link flexible manipulator. (1990)

A new approach to the static analysis of the link compliances is presented for appropriate compliance control of a flexible manipulator. Unlike a rigid manipulator, there exists the interaction between the servo flexibility and link flexibility in a flexible manipulator system. Therefore, it is important for smooth control to understand properties of the link compliances and make good conditions of the system compliances. For this purpose, the authors derived the generalized compliance matrix, compliance ellipsoid and compliance center of the link flexibility. It was found that there was an adequate attitude of a manipulator for excluding the influence of the link compliance and establishing tasks smoothly. The validity of this analytic method was investigated by experiments of the round peg-hole assembly. A two-link flexible SCARA manipulator system was constructed for this purpose. This manipulator was 1.5 m long. The results showed that the smooth and precise assembly was established by selecting adequate attitude and setting servo compliance conditions more flexible than the link compliances.
Cognitive and neuroprotective effects of chlorogenic acid (2014)

Recent research suggests that dietary consumption of CGA could produce a wide range of health benefits and physiological effects. There is also mounting evidence that the consumption of polyphenols, including CGA, in the diet could reduce the risk of developing neurodegenerative conditions. Further studies should be conducted with a focus on the effects of CGA on cognition and the nervous system and employing well-designed clinical studies.
CW and passively Q-switched double-clad planar waveguide lasers (2001)

Greater than 12 W of average output power have been generated from a diode pumped Yb:YAG cladding-pumped planar waveguide laser. The developed laser radiation is linearly polarized and diffraction limited in the guiding dimension. A slope efficiency of 0.5 W/W with a peak optical-optical conversion efficiency of 0.31 W/W is achieved. In a related structure, greater than 8 W of Q-switched average output power has been generated from a Nd:YAG cladding-pumped planar waveguide incorporating Cr:YAG passive Q-switch monolithically into the waveguide structure. Pulse widths of 3 nsec and PRFs as high as 80 kHz have been demonstrated. A slope efficiency of 0.28 W/W with a peak optical-optical conversion efficiency of 0.21 W/W is achieved.
Multi-User Piles Across Space (2005)

We introduce Multi-User Piles Across Space, a technique that allows co-located individuals with PDAs to share and organize information items (e.g., photos, text, sound clips, etc.) by placing these items in shared, imaginary off-screen piles. This technique relies on human capacities to remember spatial layouts, and allows small co-located groups with limited screen real estate to collaboratively manage information. Each participant can use their PDA&amp;apos;s stylus to flick information to shared off-screen piles and view their contents. Connections are implemented through ad hoc WiFi. Optimistic concurrency control provides long term data consistency. We also describe an extension that allows PDA owners to transfer information items and piles to and from a tabletop display.
The Differential Effects of Resveratrol and trans-ε-Viniferin on the GABA-Induced Current in GABAA Receptor Subtypes Expressed in Xenopus Laevis Oocytes (2015)

The results of the present study indicate that both resveratrol and trans-ε-viniferin modulate the GABA-induced current in different ways, and that trans-ε-viniferin may be a lead compound for the discovery of agents which selectively inhibit the GABA-induced current in α1-containing subtypes.This article is open to POST-PUBLICATION REVIEW. Registered readers (see "For Readers") may comment by clicking on ABSTRACT on the issue's contents page.
A Unified Framework for Sparse Non-Negative Least Squares using\n Multiplicative Updates and the Non-Negative Matrix Factorization Problem (2016)

We study the sparse non-negative least squares (S-NNLS) problem. S-NNLS\noccurs naturally in a wide variety of applications where an unknown,\nnon-negative quantity must be recovered from linear measurements. We present a\nunified framework for S-NNLS based on a rectified power exponential scale\nmixture prior on the sparse codes. We show that the proposed framework\nencompasses a large class of S-NNLS algorithms and provide a computationally\nefficient inference procedure based on multiplicative update rules. Such update\nrules are convenient for solving large sets of S-NNLS problems simultaneously,\nwhich is required in contexts like sparse non-negative matrix factorization\n(S-NMF). We provide theoretical justification for the proposed approach by\nshowing that the local minima of the objective function being optimized are\nsparse and the S-NNLS algorithms presented are guaranteed to converge to a set\nof stationary points of the objective function. We then extend our framework to\nS-NMF, showing that our framework leads to many well known S-NMF algorithms\nunder specific choices of prior and providing a guarantee that a popular\nsubclass of the proposed algorithms converges to a set of stationary points of\nthe objective function. Finally, we study the performance of the proposed\napproaches on synthetic and real-world data.\n
The Challenges of Developing an Antiviral Agent for the Treatment of Smallpox Using the Animal Efficacy Rule (2006)

Smallpox, eradicated in the late 1970s, is considered a serious worldwide threat because of its potential use as a biological weapon. Attempts to develop an antiviral drug for the prophylaxis and treatment of the disease are complicated by the need to demonstrate effective antiviral activity and propose human dosing paradigms based on data generated in animals infected with related orthopoxviruses. This perspective article reviews the difficulties associated with developing an antiviral agent using animal models and the ‘animal efficacy rule’: a FDA regulation designed for situations where human clinical trials are not an option.
GAMMA-RAY PENETRATION EXPERIMENTS FOR A LIGHT AIRCRAFT CARRIER USING DISTANT SOURCES AND SOURCES SIMULATING CONTAMINATION OF THE HULL (1961)

The penetration of gamma rays into compartments of an aircraft carrier from two different radioisotopes was measured in 2 experiments. In 1 experiment, cobalt-60 and cesium-137 point isotropic sources were exposed near the hull of the ship to simulate hull contamination. Measurements of dose were made in the forward part of the ship at 4 different deck levels. Dose distribtuion data are presented for the 2 sources used and for the different source points considered. In the 2nd experiment, a nominal 500curie collimated cobalt-60 source was exposed at a distance of roughly 100 feet from designated points to irradiate 2 general regions of the ship. Dose distributions are presented for each of 18 source positions used. Five decks were instrumented in each of the 2 general regions considered. Diagrams indicating source positions, detector positions, and hull-plating thicknesses are presented. (Author)
Structure and function of a hexameric copper-containing nitrite reductase (2007)

Dissimilatory nitrite reductase (NIR) is a key enzyme in denitrification, catalyzing the first step that leads to gaseous products (NO, N(2)O, and N(2)). We have determined the crystal structure of a Cu-containing NIR from a methylotrophic denitrifying bacterium, Hyphomicrobium denitrificans, at 2.2-A resolution. The overall structure of this H. denitrificans NIR reveals a trigonal prism-shaped molecule in which a monomer consisting of 447 residues and three Cu atoms is organized into a unique hexamer (i.e., a tightly associated dimer of trimers). Each monomer is composed of an N-terminal region containing a Greek key beta-barrel folding domain, cupredoxin domain I, and a C-terminal region containing cupredoxin domains II and III. Both cupredoxin domains I and II bind one type 1 Cu and are combined with a long loop comprising 31 amino acid residues. The type 2 Cu is ligated at the interface between domain II of one monomer and domain III of an adjacent monomer. Between the two trimeric C-terminal regions are three interfaces formed by an interaction between the domains I, and the type 1 Cu in the domain is required for dimerization of the trimer. The type 1 Cu in domain II functions as an electron acceptor from an electron donor protein and then transfers an electron to the type 2 Cu, binding the substrate to reduce nitrite to NO. The discussion of the intermolecular electron transfer process from cytochrome c(550) to the H. denitrificans NIR is based on x-ray crystallographic and kinetic results.
Enhanced energy detection for multi-band spectrum sensing under RF imperfections (2013)

In this paper, we study simultaneous multi-channel spectrum sensing in cognitive radio context. The sensing receiver RF front-end is assumed to deploy wideband multi-channel IQ down-conversion which is well-suited for highly-integrated circuit implementations. Such RF front-end is, however, also prone to several RF impairments, such as IQ imbalance, which leads to mirror-frequency cross-talk and can thus considerably degrade the sensing performance. Assuming that the individual channel sensing is building on energy detection, we first analyze the spectrum sensing performance of the multichannel sensing receiver in terms of false alarm and detection probabilities. The analysis shows that IQ imbalance is especially harmful in terms of false alarms stemming from the mirror-channel crosstalk, and is greatly emphasized when the overall down-converted signal has high dynamic range. Motivated by this, we present an efficient digital compensation scheme, called energy correction method, where the sensing statistics of any particular channel are properly adjusted based on the corresponding mirror-channel statistics such that the effect of the crosstalk is minimized. Optimum minimum mean-squared error (MMSE) solution for the energy correction processing is first derived, complemented then with a practical low-complexity sample estimator. Extensive computer simulations demonstrate that under various parameter settings for IQ imbalance and receiver dynamic range, the proposed scheme yields sensing performance practically identical to the IQ imbalance free reference performance. Thus the proposed method offers feasible RF impairment-aware energy detection solution for practical multichannel sensing receivers.
The hunt for gene dopers (2009)

Gene doping, the abuse of gene therapy for illicit athletic enhancement, is perceived as a coming threat and is a prime concern to the anti-doping community. This doping technique represents a significant ethical challenge and there are concerns regarding its safety for athletes. This article presents the basics of gene doping, potential strategies for its detection and the role of promising new technologies in aiding detection efforts. These include the use of lab-on-a-chip techniques as well as nanoparticles to enhance the performance of current analytical methods and to develop new doping detection strategies.
Simultaneous nonlinear absorption and index effects in the propagation of intense tea CO_2 laser pulses through CDF_3 (1985)

Changes in the beam profile of the CO2 laser 10R(26) line, caused by transmission through, and absorption by, CDF3 were studied using an array of pyroelectric detectors. During the propagation of the laser beam through CDF3, nonlinear absorption and self-defocusing of the beam have both been determined from measurements of the effect on the exit beam of fluence, radiant energy, CDF3 pressure, transmission cell length, and distance from the exit of the cell to the detector array.
Top-of-Line Corrosion Mechanism for Sour Wet Gas Pipelines (2009)

Abstract Large diameter subsea pipelines operating mainly in stratified flow are being used across the world for wet gas transportation over significant distances from offshore fields to onshore facilities. Understanding corrosion mechanism occurring at the top of the line under dewing conditions is a key component of operations corrosion management strategy to ensure long-term pipeline integrity. The challenge in predicting corrosion in sour systems is due to the varied nature of iron sulfide scales formed over the expected subsea pipeline temperature ranges and condensation rates that result in different corrosion mechanisms. Current industry practice is to use sweet corrosion prediction methodologies to establish the risk of top of line corrosion in sour systems. This paper will demonstrate through field validated laboratory results that this approach may be inadequate and propose operational practices to manage the risk of top of line corrosion in large diameter subsea wet gas pipelines.
Neonatal gene therapy restores breathing in a rat model of Pompe disease (2023)

Pompe disease is a neuromuscular disorder resulting from mutations in the gene for acid a-glucosidase (GAA) – an enzyme necessary to degrade lysosomal glycogen. Early-onset disease occurs in the absence of functional GAA, which leads to cardiorespiratory failure early in life. Late-onset disease is associated with reduced GAA activity and gradual respiratory failure with preserved cardiac function. The standard of care – intravenous enzyme replacement therapy (ERT) using recombinant GAA does not effectively target the central nervous system, and can delay but not prevent respiratory failure. We used a Pompe rat model ( Gaa null) to test the hypothesis that a single intravenous AAV-GAA dose in neonate Pompe rats can drive persistent and widespread GAA expression and prevent respiratory decline over the lifespan. Male Gaa -/- rats received a single intravenous administration of AAV9-DES-hGAA (1x1014 vector genomes/kg; n=6), temporal vein injection) or sham injection (1xPBS; n=6) on post-natal day one. Ventilation was measured using a whole-body plethysmograph at age 3-, 6-, and 9-months. Rats treated with the gene therapy vector showed a striking increase in body mass over the duration of the study (2-way repeated measures analyses of variance, treatment effect, p&lt;0.001). At age 9 mo, treated rats weighed 402±25 g and sham rats weighed 293±27 g. As rats progressed from 3- to 9-months age, tidal volume, minute ventilation, and the ratio of minute ventilation to CO2 production (i.e., V E /VCO 2 ) were all greater in the gene therapy treated rats as compared to sham (each of these variables showed an age x treatment interaction, all p&lt;0.001). We conclude the neonatal gene therapy with AAV9-DES-hGAA can prevent decline in body mass and preserve breathing ability over the lifespan of a Pompe rat model. Gene therapy is a promising approach for treating Pompe disease. Funding: R01HD052682 This is the full abstract presented at the American Physiology Summit 2023 meeting and is only available in HTML format. There are no additional versions or additional content available for this abstract. Physiology was not involved in the peer review process.
Dysregulated TRAF3 and BCL2 Expression Promotes Multiple Classes of Mature Non-hodgkin B Cell Lymphoma in Mice (2019)

TNF-Receptor Associated Factor (TRAF)-3 is a master regulator of B cell homeostasis and function. TRAF3 has been shown to bind and regulate various proteins involved in the control of innate and adaptive immune responses. Previous studies showed that TRAF3 overexpression renders B cells hyper-reactive to antigens and Toll-like receptor (TLR) agonists, while TRAF3 deficiency has been implicated in the development of a variety of B cell neoplasms. In this report, we show that transgenic mice overexpressing TRAF3 and BCL2 in B cells develop with high incidence severe lymphadenopathy, splenomegaly and lymphoid infiltrations into tissues and organs, which is the result of the growth of monoclonal and oligoclonal B cell neoplasms, as demonstrated by analysis of V<sub>H</sub>DJ<sub>H</sub> gene rearrangement. FACS and immunohistochemical analyses show that different types of mature B cell neoplasms arise in <i>TRAF3/BCL2</i> double-transgenic (tg) mice, all of which are characterized by the loss of surface IgM and IgD expression. However, two types of lymphomas are predominant: (1) mature B cell neoplasms consistent with diffuse large B cell lymphoma and (2) plasma cell neoplasms. The Ig isotypes expressed by the expanded B-cell clones included IgA, IgG, and IgM, with most having undergone somatic hypermutation. In contrast, mouse littermates representing all the other genotypes (<i>TRAF3</i>-/<i>BCL2</i>-; <i>TRAF3</i>+/<i>BCL2</i>-, and <i>TRAF3</i>-/<i>BCL2</i>+) did not develop significant lymphadenopathy or clonal B cell expansions within the observation period of 20 months. Interestingly, a large representation of the HCDR3 sequences expressed in the <i>TRAF3</i>-tg and <i>TRAF3/BCL2</i>-double-tg B cells are highly similar to those recognizing pathogen-associated molecular patterns and damage-associated molecular patterns, strongly suggesting a role for TRAF3 in promoting B cell differentiation in response to these antigens. Finally, allotransplantation of either splenocytes or cell-containing ascites from lymphoma-bearing TRAF3/BCL2 mice into SCID/NOD immunodeficient mice showed efficient transfer of the parental expanded B-cell clones. Altogether, these results indicate that TRAF3, perhaps by promoting exacerbated B cell responses to certain antigens, and BCL2, presumably by supporting survival of these clones, cooperate to induce mature B cell neoplasms in transgenic mice.