gebhart/patrepeval huggingface dataset:
Do antibody responses to malaria vaccine candidates influenced by the level of malaria transmission protect from malaria? (2008)

Antibody levels to the four antigens are affected by the intensity of malaria transmission and associated with protection against clinical malaria. It is worthwhile investing in the development of these antigens as potential malaria vaccine candidates.
A learning algorithm for Markov decision processes with adaptive state aggregation (2002)

We propose a simulation-based algorithm for learning good policies for a Markov decision process with unknown transition law, with aggregated states. The state aggregation itself can be adapted on a slower time scale by an auxiliary learning algorithm. Rigorous justifications are provided for both algorithms.
Prediction of Liver Fibrosis and Cirrhosis in Chronic Hepatitis B Infection by Serum Proteomic Fingerprinting: A Pilot Study (2005)

A unique serum proteomic fingerprint is present in the sera of patients with fibrosis. An ANN fibrosis index derived from this fingerprint could differentiate between different stages of fibrosis and predict fibrosis and cirrhosis in CHB infection.
Human Herpesvirus 6B Genome Sequence: Coding Content and Comparison with Human Herpesvirus 6A (1999)

Human herpesvirus 6 variants A and B (HHV-6A and HHV-6B) are closely related viruses that can be readily distinguished by comparison of restriction endonuclease profiles and nucleotide sequences. The viruses are similar with respect to genomic and genetic organization, and their genomes cross-hybridize extensively, but they differ in biological and epidemiologic features. Differences include infectivity of T-cell lines, patterns of reactivity with monoclonal antibodies, and disease associations. Here we report the complete genome sequence of HHV-6B strain Z29 [HHV-6B(Z29)], describe its genetic content, and present an analysis of the relationships between HHV-6A and HHV-6B. As sequenced, the HHV-6B(Z29) genome is 162,114 bp long and is composed of a 144,528-bp unique segment (U) bracketed by 8,793-bp direct repeats (DR). The genomic sequence allows prediction of a total of 119 unique open reading frames (ORFs), 9 of which are present only in HHV-6B. Splicing is predicted in 11 genes, resulting in the 119 ORFs composing 97 unique genes. The overall nucleotide sequence identity between HHV-6A and HHV-6B is 90%. The most divergent regions are DR and the right end of U, spanning ORFs U86 to U100. These regions have 85 and 72% nucleotide sequence identity, respectively. The amino acid sequences of 13 of the 17 ORFs at the right end of U differ by more than 10%, with the notable exception of U94, the adeno-associated virus type 2 rep homolog, which differs by only 2.4%. This region also includes putative cis-acting sequences that are likely to be involved in transcriptional regulation of the major immediate-early locus. The catalog of variant-specific genetic differences resulting from our comparison of the genome sequences adds support to previous data indicating that HHV-6A and HHV-6B are distinct herpesvirus species.
Stressade femåringar : En kvalitativ studie av föräldrars syn på sina femåringar och stress (2012)

Vi lever i ett samhalle med mycket hogt tempo och manga individer ar idag stressade. Stressen kryper ner i aldrarna, vilket uppmarksammas allt mer. For att forhindra framtida psykisk ohalsa behover ...
Transient power suppression in Raman amplifier with multi-wavelength pumping upon channel add-drop (2006)

Fast gain control method in Raman amplifier with multi-wavelength pumping scheme is presented. Transient power excursion is controlled within 0.2 dB at 6 dB channel add-drop in C-band Raman amplifier with two wavelength pumps.
Subcutaneous Administration of D-Luciferin is an Effective Alternative to Intraperitoneal Injection in Bioluminescence Imaging of Xenograft Tumors in Nude Mice (2013)

Currently, intraperitoneal (IP) injection of D-luciferin is the preferred method of providing substrate for bioluminescent imaging (BLI); however it has a failure rate of 3-10% due to accidental intestinal injection. The present study evaluates the quality of BLI after subcutaneous (SC) injection of D-luciferin and demonstrates the effectiveness of SC injection in anatomically disparate tumor models. Mice bearing luciferase-expressing tumors underwent BLI after SC or IP injection of D-luciferin. The average time to maximal luminescence was 6 min (range 5-9 min) after SC injection and 8 min (range 5-8 min) after IP injection. Within 7 minutes of injection, SC and IP routes yielded similar luminescence in subcutaneous, intracranial, tongue, and lung xenograft tumor models. In a model of combined subcutaneous and intracranial xenografts, SC injection resulted in proportional luminescence at all sites, confirming that preferential delivery of substrate does not occur. While tumors were occasionally not visualized with IP injection, all tumors were visualized reliably with SC injection. Thus, SC injection of D-luciferin is a convenient and effective alternative to IP injection for BLI in nude mice. It may be a preferable approach, particularly for tumors with weaker signals and/or when greater precision is required.
Dynamic dependency analysis of ordinary programs (1992)

A quantitative analysis of program execution is essential to the computer architecture design process. With the current trend in architecture of enhancing the performance of uniprocessors by exploiting fine-grain parallelism, first-order metrics of program execution, such as operation frequencies, are not sufficient; characterizing the exact nature of dependencies between operations is essential.
Analysis of long non-coding RNAs highlights tissue-specific expression patterns and epigenetic profiles in normal and psoriatic skin (2015)

Together, our results implicate many lncRNAs in the immunopathogenesis of psoriasis, and our results provide a resource for lncRNA studies in other autoimmune diseases.
Projecting disk usage based on historical trends in a cloud environment (2012)

Provisioning scarce resources among competing users and jobs remains one of the primary challenges of operating large-scale, distributed computing environments. Distributed storage systems, in particular, typically rely on hard operator-set quotas to control disk allocation and enforce isolation for space and I/O bandwidth among disparate users. However, users and operators are very poor at predicting future requirements and, as a result, tend to over-provision grossly.
A search for high-mass resonances decaying to τ+τ− in pp collisions at s=7 TeV with the ATLAS detector (2013)

This Letter presents a search for high-mass resonances decaying into + -final states using protonproton collisions at s = 7 TeV produced by the Large Hadron Collider. The data were recorded with the ATLAS detector and correspond to an integrated luminosity of 4.6 fb -1 . No statistically significant excess above the Standard Model expectation is observed; 95% credibility upper limits are set on the cross section times branching fraction of Z resonances decaying into + -pairs as a function of the resonance mass. As a result, Z bosons of the Sequential Standard Model with masses less than 1.40 TeV are excluded at 95% credibility.
<title>Compression of stereo image pairs and streams</title> (1994)

We exploit the correlations between 3D-stereoscopic left-right image pairs to achieve high compression factors for image frame storage and image stream transmission. In particular, in image stream transmission, we can find extremely high correlations between left-right frames offset in time such that perspective-induced disparity between viewpoints and motion-induced parallax from a single viewpoint are nearly identical; we coin the term `wordline correlation' for this condition. We test these ideas in two implementations, straightforward computing of blockwise cross-correlations, and multiresolution hierarchical matching using a wavelet-based compression method. We find that good 3D-stereoscopic imagery can be had for only a few percent more storage space or transmission bandwidth than is required for the corresponding flat imagery.
RetinaMatch: Efficient Template Matching of Retina Images for Teleophthalmology (2018)

Retinal template matching and registration is an important challenge in teleophthalmology with low-cost imaging devices. However, the images from such devices generally have a small field of view (FOV) and image quality degradations, making matching difficult. In this work, we develop an efficient and accurate retinal matching technique that combines dimension reduction and mutual information (MI), called RetinaMatch. The dimension reduction initializes the MI optimization as a coarse localization process, which narrows the optimization domain and avoids local optima. The effectiveness of RetinaMatch is demonstrated on the open fundus image database STARE with simulated reduced FOV and anticipated degradations, and on retinal images acquired by adapter-based optics attached to a smartphone. RetinaMatch achieves a success rate over 94\% on human retinal images with the matched target registration errors below 2 pixels on average, excluding the observer variability. It outperforms the standard template matching solutions. In the application of measuring vessel diameter repeatedly, single pixel errors are expected. In addition, our method can be used in the process of image mosaicking with area-based registration, providing a robust approach when the feature based methods fail. To the best of our knowledge, this is the first template matching algorithm for retina images with small template images from unconstrained retinal areas. In the context of the emerging mixed reality market, we envision automated retinal image matching and registration methods as transformative for advanced teleophthalmology and long-term retinal monitoring.
Nucleic acid related compounds. 27. "Virtual coupling" of the anomeric proton of cyclic 2'-deoxynucleoside 3',5'-monophosphates. Reassessment of conformation using praseodymium shifts and assignment of H-2',2 signals by biomimetic deuteration at C-2' (1977)

Exergames provide a challenging opportunity for home-based training and evaluation of postural control in the elderly population, but affordable sensor technology and algorithms for assessment of whole body movement patterns in the home environment are yet to be developed. The aim of the present study was to evaluate the use of Kinect, a commonly available video game sensor, for capturing and analyzing whole body movement patterns. Healthy adults (n=20) played a weight shifting exergame under five different conditions with varying amplitudes and speed of sway movement, while 3D positions of ten body segments were recorded in the frontal plane using Kinect and a Vicon 3D camera system. Principal Component Analysis (PCA) was used to extract and compare movement patterns and the variance in individual body segment positions explained by these patterns. Using the identified patterns, balance outcome measures based on spatiotemporal sway characteristics were computed. The results showed that both Vicon and Kinect capture &amp;gt;90% variance of all body segment movements within three PCs. Kinect-derived movement patterns were found to explain variance in trunk movements accurately, yet explained variance in hand and foot segments was underestimated and overestimated respectively by as much as 30%. Differences between both systems with respect to balance outcome measures range 0.3–64.3%. The results imply that Kinect provides the unique possibility of quantifying balance ability while performing complex tasks in an exergame environment.
HIV-1 capsid interacts with cytoskeletal-associated proteins for intracytoplasmic routing to the nucleus (2013)

International audience
Stable Picodisc Assemblies from Saposin Proteins and Branched Detergents (2021)

Methods for maintaining membrane proteins in their native state after removal from the lipid bilayer are essential for the study of this important class of biomacromolecules. Common solubilization strategies range from the use of detergents to more complex systems that involve a polypeptide working in concert with lipids or detergents, such as nanodiscs, picodiscs, and peptidiscs, in which an engineered protein or synthetic peptide surrounds the membrane protein along with a lipid sheath. Picodiscs employ the protein saposin A, which naturally functions to facilitate lipid degradation in the lysozome. Saposin A-amphiphile complexes therefore tend to be most stable at acidic pH, which is not optimal for most membrane protein applications. In search of new picodisc assemblies, we have explored pairings of saposin A or other saposin proteins with a range of detergents, and we have identified a number of combinations that spontaneously co-assemble at neutral pH. The resulting picodiscs are stable for weeks and have been characterized by size-exclusion chromatography, native mass spectrometry, and small angle X-ray scattering. The new assemblies are formed by double-tail detergents rather than more traditional single-tail detergents; the double-tail detergents can be seen as structurally intermediate between single-tail detergents and common lipids. In addition to saposin A, an engineered variant of saposin B (designated saposin B<sup>W</sup>) forms picodisc assemblies. These findings provide a framework for future efforts to solubilize membrane proteins with multiple picodisc systems that were previously unknown.
Arteriovenous malformation related to the pinna. (2008)

Arteriovenous malformations are rare in the head and neck region and generally arise from intracranial vessels. We present two rare cases with spontaneous arteriovenous malformations related to the ear. The role of magnetic resonance imaging and colour Doppler sonography in the diagnosis and management of such cases is discussed along with a review of the literature.
Compositionally Controlled Polyether Membranes via Mono(μ-alkoxo)bis(alkylaluminum)-Initiated Chain-Growth Network Epoxide Polymerization: Synthesis and Transport Properties (2020)

The addition of a diglycidyl-ether to a mono(μ-alkoxo)bis(alkylaluminum)-initiated epoxide polymerization presents a strategy for amorphous polyether-based membrane synthesis. In situ kinetic 1H NMR spectroscopy was used to monitor model network copolymerizations of epichlorohydrin (ECH) with 1,4-butanediol-diglycidyl ether (Butyl-dGE) or poly(ethylene oxide)-diglycidyl ether (PEO-dGE). Reactivity ratios were extracted from the evolution of polymer composition from the monomer feed during copolymerization. Quantitative conversion and nearly random comonomer incorporation was achieved. The generality of this synthetic technique was supported by the polymerization of Butyl-dGE and a range of epoxide monomers such as n-butyl glycidyl ether (nBGE), allyl glycidyl ether, ECH, and glycidol. The copolymerizations produced optically clear, flexible films in all cases. We investigated the potential for this synthetic platform to provide compositional control of structure–property relationships within the context of industrially relevant membrane separations for CO2. Given the affinity of PEO for CO2 and water, we explored using nBGE as a hydrophobic diluent, which was copolymerized with varying incorporations of PEO-dGE. The resultant cross-linked polyether membranes exhibited high CO2 permeabilities (150–300 barrer) and selectivity over N2 (αCO2/N2 = 20–30) and H2 (αCO2/H2 ≈ 6). CO2 sorption isotherms could be described by Henry’s law and did not vary across the series of nBGE/PEO-dGE films. The similar sorption coefficients suggested that differences in permeability among these samples were driven by differences in diffusion coefficients. The diffusivity of CO2 increased with cross-link density, and permeability was unaffected by humidity for this series of hydrophobic cross-linked polyether membranes.
An ANT-based Sensor Measurement Data Gathering System (2013)

Large-scale industries involved with a great amount of sensor measurements in their work are facing many challenges in data collection. Sensors are not on the same network; therefore each measurement has to be managed separately. Gathering all the measurement data to one terminal could be difficult. Once a measurement is obtained, it takes significant amount of time to process the data.The approaches our group takes here is to build a giant ANT wireless network that holds all the sensors’ measurements. To be more specific, every sensor has an ANT chip set up on its side. Each ANT chip is as a single node. And on PC terminal, there is also a ANT chip which is collecting data from all the nodes. Microsoft Visual C++ and Keil uVision are used to program the program on PC and the program on ANT chip, respectively. Sending a “start measurement operation code” from ANT USB stick on PC terminal to the embedded ANT board starts the measurement. During the development, acknowledged data transfer type was found to be most effective, out of three data transfer types: broadcast, burst, acknowledged. This generalized solution can be easily applied to all kinds of sensor application.
Plasmonic filters with IR windows of transparency (2008)

Plasmonic filters were fabricated based on gold fractal nanostructures grown on silica microspheres. The fractal nanostructures were modified using laser irradiation, resulting in decreased extinction in the mid-infrared range.
PROTON CONDUCTION IN THERMALLY TREATED ANTIMONIC ACID SAMPLES (1982)

Abstract Antimonic acid samples thermally treated up to 893 K exhibited high proton conductivities of order of 10−1 S·m−1 at room temperature when the relative humidity was high. The humidity dependence of the conductivities changed with the heat treatment temperature, in coincidence with the changes in fine structure of the antimonic acid samples.
Amberlite IR-120H Catalyzed Synthesis of 1,3-Diphenylpyrazolechromenoquinolin-6-one Compounds and Their Biological Evaluation (2020)

A series of 1,3-diphenylpyrazole-chromenoquinolin-6-one compounds were designed and synthesized by using a greener and recyclable heterogeneous Amberlite IR-120H resin as a catalyst, in the presence of ethanol reflux conditions. Interestingly, the catalyst can be recovered after completion of the reaction and can be reused without loss of catalytic property. Therefore, this method provides a green and environmentally benign much improved protocol for the synthesis of 1,3-diphenylpyrazolechromenoquinolin-6-one compounds. The synthesized library of thirty compounds were tested against their cytotoxicity; moreover, the compounds 5s and 5t exhibited potential cytotoxic activity with IC50 values of 1.22 and 1.64 µM, respectively, on MCF-7 cancer cells. The biophysical studies such as UV-visible, fluorescence and circular dichroism studies indicate that these compounds possess good DNA intercalation ability. In addition, these compounds efficiently inhibit topoisomerase I activity. Molecular docking and viscosity studies support that these compounds exhibited intercalative mode of binding with DNA.
Multi-User Dynamic (Re)transmission Scheduler for OFDMA Systems (2009)

The challenge of our work is to enhance the effectiveness of packet retransmission in multi-user OFDMA based communication systems. Based on information theory, we propose a retransmission scheduler (re-scheduler) that recomputes the allocation of chunks for negatively acknowledged packets only when correct packet decoding is impossible or it requires a too large number of retransmissions. Our proposal is compatible with any classical priority packet scheduling algorithms. Simulation results show that our solution permits to avoid useless retransmission scheduler activations and to enhance the overall resource allocation performance in terms of both residual PER and maximum achievable cell capacity.
Apoptosis and Human Diseases: Molecular Mechanisms (2007)

Diabetes is a world wide epidemic with a growing rate of incidence in the United States. Diabetes is characterized by chronic hyperglycemia, leading to oxidative stress and diabetic complications such as diabetic neuropathy. The role of oxidative stress in diabetes is pervasive and complex. Oxidative stress stimulated by diabetic conditions is involved in many pathways that end in cell damage and programmed cell death. Considering the importance of oxidative stress in diabetic complications, it is important to explore antioxidant therapies as ways in which to protect cells. In this chapter, the conditions that lead to oxidative stress, the effects of such stress, and the importance of antioxidants as a major potential treatment of diabetic neuropathy will be explored in detail.
A Modified High-Efficiency LLC Converter With Two Transformers for Wide Input-Voltage Range Applications (2012)

This paper proposed a modified LLC converter with two transformers in series, which has four operation configurations, covering the range of four times the minimum input voltage. To optimize the proposed LLC converter in an attempt to achieve good efficiency, a numerical method is developed based on the LLC converter's steady-state equations. In order to minimize the magnetizing current and thus minimize the conduction and core losses, an optimal objective is proposed to find the maximum magnetizing inductance. An optimization procedure and a design example are given. A 250-W 210-V output prototype with input voltage ranging from 25 to 100 V is built to verify the developed numerical model and optimal design method. The dc gain obtained from experimental data agrees pretty well with that from the developed numerical model. Two conventional LLC converters are designed using fundamental harmonic approximation and the proposed optimal design, respectively, to make comparison with the proposed LLC converter and validate the proposed optimal design. Experimental results show that the proposed converter with proposed optimal design can achieve the peak efficiency up to 98%, while maintaining a very wide input voltage range.
Robust receiver algorithms to mitigate partial-band and partial-time interference in ldpc-coded OFDM systems (2012)

Orthogonal frequency division multiplexing (OFDM) systems are vulnerable to narrow-band jamming signals. We jointly tackle two problems: channel estimation in the presence of unknown interference, and decoding with imperfect channel knowledge. In this paper, we propose robust, yet simple, receiver algorithms consisting of both channel estimation and information decoding. The receiver conducts threshold tests to detect interference followed by pilot erasure and channel estimation. Then, channel estimation error and unknown interference statistics are dealt with by the robust log-likelihood ratio (LLR) calculations for soft iterative decoding. The proposed receiver algorithm does not require any statistical knowledge of interference and its complexity is linear against the length of codewords. Simulation results show that the bit-error-rate (BER) performance of the proposed system is only 2~3 dB away from a genie system where channel information and interference parameters are perfectly known. We also demonstrate that soft decision feedback from a decoder to enhance channel estimation achieves additional 0.5 ~ 1dB improvement.