gebhart/patrepeval huggingface dataset:
Integrated Service Provisioning in an Ipv6 over ATM Research Network (1999)

During the past few years, the worldwide Internet has grown at a phenomenal rate, which has spurred the proposal of innovative network technologies to support the fast, efficient and low-latency transport of a wide spectrum of multimedia traffic types. Existing network infrastructures have been plagued by their inability to provide for real-time application traffic as well as their general lack of resources and resilience to congestion. This work proposes to address these issues by implementing a prototype high-speed network infrastructure consisting of Internet Protocol Version 6 (IPv6) on top of an Asynchronous Transfer Mode (ATM) transport medium. Since ATM is connection-oriented whereas IP uses a connection-less paradigm, the efficient integration of IPv6 over ATM is especially challenging and has generated much interest in the research community. We propose, in collaboration with an industry partner, to implement IPv6 over ATM using a unique approach that integrates IP over fast A TM hardware while still preserving IP's connection-less paradigm. This is achieved by replacing ATM's control software with IP's routing code and by caching IP's forwarding decisions in ATM's VPI/VCI translation tables. Prototype ''VR'' and distributed-parallel-computing applications will also be developed to exercise the realtime capability of our IPv6 over ATM network.
Bioinspired and Biomimetic Functional Hybrids as Tools for Regeneration of Orthopedic Interfaces (2011)

Multidisciplinary approaches in tissue engineering and nanotechnology have resulted in the availability of new materials whose design and fabrication is inspired by the natural constituents of living organisms. This "bioinspired" approach of designing and manufacturing materials is referred to as biomimetism because materials made by this method exhibit the same structural and functional properties that are seen in naturally occurring biological materials. Thus in general terms, biomimetism or biomimetics as it is also called Some examples of such successfully developed products are: (1) commercially important organic compounds that are made by in vitro replication of a specific in vivo metabolic pathway e.g. coloring agents -lycopene,carotene, and astaxanthin
Pristine Surface of Ni-Rich Layered Transition Metal Oxides as a Premise of Surface Reactivity (2022)

The surface reactivity of Ni-rich layered transition metal oxides is instrumental to the performance of batteries based on these positive electrode materials. Most often, strong surface modifications are detailed with respect to a supposed ideal initial state. Here, we study the LiNi<sub>0.8</sub>Mn<sub>0.1</sub>Co<sub>0.1</sub>O<sub>2</sub> (NMC811) cathode material in its pristine state, hence before any contact with electrolyte or cycling, thanks to advanced microscopy and spectroscopy techniques to fully characterize its surface down to the nanometer scale. Scanning transmission electron microscopy-electron energy loss spectroscopy (STEM-EELS), solid-state nuclear magnetic resonance (SS-NMR), and X-ray photoelectron spectroscopy (XPS) are combined and correlated in an innovative manner. The results demonstrate that in usual storage conditions after synthesis, the extreme surface is already chemically different from the nominal values. In particular, nickel is found in a reduced state compared to the bulk value, and a Mn enrichment is determined in the first few nanometers of primary particles. Further exposition to humid air allows for quantifying the formed lithiated species per gram of active material, identifying their repartition and proposing a reaction path in relation with the instability of the surface.
Spatio‐energetic cross‐talk in photon counting detectors: N × N binning and sub‐pixel masking (2018)

We have evaluated the effect of double-counting between PCD sub-pixels with various binning and masking methods. SI values were better with fewer number of binning and larger sub-pixels. The difference among various binning and masking methods, however, was typically less than 0.06, which might result in a dose penalty of 13% if the CT system were linear.
Troxerutin acts on complement mediated inflammation to ameliorate arthritic symptoms in rats (2020)

Abstract Troxerutin (TXR), is a phytochemical reported to possess anti-inflammatory and hepatoprotective effects. In this study, we aimed to exploit anti-arthritic properties of TXR using an adjuvant induced arthritic (AIA) rat model. AIA induced rats showed highest arthritis score at disease onset and by oral administration of TXR (50, 100, 200 mg/kg body weight), reduced to basal level in a dose dependent manner. Isobaric tag for relative and absolute quantitative (iTRAQ) proteomics tool was employed to identify deregulated joint homogenate proteins in AIA and TXR treated rats to decipher probable mechanism of the TXR action in arthritis. iTRAQ analysis identified a set of 434 joint homogenate proteins with 65 deregulated proteins (log 2 case/control ≥1.5) in AIA. Expressions of a set of important proteins (AAT, T-kininogen, vimentin, desmin, and nucleophosmin) that could classify AIA from healthy were validated using Western blot analysis. Western blot data corroborated proteomics findings. In silico protein-protein interaction study of joint homogenate proteome revealed that complement component 9, the major building blocks of the membrane attack complex (MAC) responsible for sterile inflammation, gets perturbed in AIA. Our dosimetry study suggests that a TXR dose of 200 mg/kg body weight for 15 days is sufficient to bring the arthritis score to basal levels in AIA rats. We have shown the importance of TXR as an anti-arthritis agent in AIA model and after additional investigation its arthritis ameliorating properties could be exploited for clinical usability.
Transcriptome profiling in preadipocytes identifies long noncoding RNAs as Sam68 targets (2017)

The KH-type RNA binding protein Sam68 is required for adipogenesis. We have previously shown that Sam68-deficient mice have a lean phenotype and are protected against dietary-induced obesity due to defects in mTOR and S6K1 alternative splicing. Herein we profiled the transcriptome of Sam68 wild type and deficient 3T3-L1 mouse preadipocytes. We identified 652 protein-coding genes and 9 ncRNAs that were significantly altered with the loss of Sam68. As expected, downregulated genes were significantly associated with GO terms linked to cell migration, motility, and fat cell differentiation, while upregulated genes were mostly associated with GO terms linked to neurogenesis. Of the lncRNAs, we identified <i>Hotair</i>, <i>Mir155hg</i>, as well as two new lncRNAs (<i>SR-lncRNA-1</i> and <i>SR-lncRNA-2</i>) that were regulated by Sam68, and contained consensus Sam68 binding sites. RNA stability assays showed that Sam68-deficiency decreased the half-life of <i>Hotair,</i> and increased the half-lives of <i>Mir155hg</i> and <i>SR-lncRNA-2</i>, while the stability of <i>SR-lncRNA-1</i> was unaffected. Depletion of <i>Hotair</i> and <i>SR-lncRNA-1</i> in wild type 3T3-L1 cells led to defects in adipogenesis, whereas depletion of <i>SR-lncRNA-2</i> in Sam68-deficient 3T3-L1 cells partially rescued the adipogenesis defect observed in these cells. Collectively, our findings define a new role for Sam68 as a regulator of lncRNAs during adipogenic differentiation.
Global Comparisons of Lectin–Glycan Interactions Using a Database of Analyzed Glycan Array Data (2013)

Lectin-glycan interactions have critical functions in multiple normal and pathological processes, but the binding partners and functions for many glycans and lectins are not known. An important step in better understanding glycan-lectin biology is enabling systematic quantification and analysis of the interactions. Glycan arrays can provide the experimental information for such analyses, and the thousands of glycan array datasets available through the Consortium for Functional Glycomics provide the opportunity to extend the analyses to a broad scale. We developed software, based on our previously described Motif Segregation algorithm, for the automated analysis of glycan array data, and we analyzed the entire storehouse of 2883 datasets from the Consortium for Functional Glycomics. We mined the resulting database to make comparisons of specificities across multiple lectins and comparisons between glycans in their lectin receptors. Of the lectins in the database, viral lectins were the most different from other organism types, with specificities nearly always restricted to sialic acids, and mammalian lectins had the most diverse range of specificities. Certain mammalian lectins were unique in their specificities for sulfated glycans. Simple modifications to a lactosamine core structure radically altered the types of lectins that were highly specific for the glycan. Unmodified lactosamine was specifically recognized by plant, fungal, viral, and mammalian lectins; sialylation shifted the binding mainly to viral lectins; and sulfation resulted in mainly mammalian lectins with the highest specificities. We anticipate that this analysis program and database will be valuable in fundamental glycobiology studies, detailed analyses of lectin specificities, and practical applications in translational research.
Cardiorenal Syndrome: A Complex Series of Combined Heart/Kidney Disorders (2011)

Over the last decade, it has become increasingly clear that the cardiovascular and renal systems are interdependent. Primary disorders of either system have been shown to disturb the other system. As a result, a class of cardiorenal syndrome (CRS) has been identified where in a vicious cycle is established in which acute/chronic dysfunction of either the kidney or the heart exacerbates the loss of function in the other organ. The ADQI organization has proposed a classification derived from a consensus conference held in 2008. CRS is classified as a disorder of the heart and kidneys whereby acute or chronic dysfunction in one organ may induce acute or chronic dysfunction in the other. The general definition has been expanded into five subtypes: CRS type 1 = acute worsening of heart function (acute heart failure-acute coronary syndrome) leading to kidney injury and/or dysfunction; CRS type 2 = chronic abnormalities in heart function (chronic heart failure-chronic heart disease) leading to kidney injury or dysfunction; CRS type 3 = acute worsening of kidney function (acute kidney injury) leading to heart injury and/or dysfunction; CRS type 4 = chronic kidney disease (chronic kidney disease) leading to heart injury, disease and/or dysfunction; and CRS type 5 = systemic conditions leading to simultaneous injury and/or dysfunction of heart and kidney. A major problem with previous terminology was that it did not allow for identification of pathophysiological interactions occurring in the different types of combined heart/kidney disorders. The subdivision into different subtypes seems to provide a better approach to this syndrome.
Point-of-care semiquantitative test for adherence to tenofovir alafenamide or tenofovir disoproxil fumarate (2021)

Synopsis Objective Objective measurement of antiretrovirals may aid clinical interventions for improving adherence to HIV prevention or treatment regimens. A point-of-care urine test could provide real-time information about recent adherence to regimens containing tenofovir disoproxil fumarate (TDF) or tenofovir alafenamide (TAF). We developed a lateral flow immunoassay (LFA) and enzyme-linked immunoassay (ELISA) for urinary tenofovir. Methods Intensity of the LFA test line was quantified using an optical reader and visually scored 0 – 5 by two independent people, using a reference card. The sensitivity and specificity of both the ELISA and LFA were determined for two different tenofovir concentration cutoffs for TDF and TAF adherence—1,500 ng/mL and 150 ng/mL, respectively. To validate the assays, we measured 586 urine samples from 28 individuals collected as part of a study of tenofovir pharmacokinetics in adults, which were also measured by mass spectrometry as ground truth. Results Both the LFA signal and ELISA signal were each strongly correlated to drug concentrations (0.91 and 0.92 respectively). The LFA signal and ELISA were highly sensitive and specific at both thresholds (LFA se/sp TDF 89%/96%, TAF 90%/96%; ELISA se/sp TDF 94%/94%, TAF 92%/84%). Visual scoring of the LFA was also highly sensitive and specific at both the TDF and TAF thresholds (se/sp TDF 91%/94%, TAF 87%/90%). Conclusions Our rapid semi-quantitative test can measure TFV concentrations relevant to both TAF or TDF adherence, which may support adherence-promoting interventions across a range of HIV care settings.
Inducer-tuning: Connecting Prefix-tuning and Adapter-tuning (2022)

Prefix-tuning, or more generally continuous prompt tuning, has become an essential paradigm of parameter-efficient transfer learning. Using a large pre-trained language model (PLM), prefix-tuning can obtain strong performance by training only a small portion of parameters. In this paper, we propose to understand and further develop prefix-tuning through the kernel lens. Specifically, we make an analogy between prefixes and inducing variables in kernel methods and hypothesize that prefixes serving as inducing variables would improve their overall mechanism. From the kernel estimator perspective, we suggest a new variant of prefix-tuning—inducer-tuning, which shares the exact mechanism as prefix-tuning while leveraging the residual form found in adapter-tuning. This mitigates the initialization issue in prefix-tuning. Through comprehensive empirical experiments on natural language understanding and generation tasks, we demonstrate that inducer-tuning can close the performance gap between prefix-tuning and fine-tuning.
Variable regions of chromosome 11 loss in different pathological tissues of a patient with the multiple endocrine neoplasia type I syndrome. (1994)

Multiple endocrine neoplasia type 1 (MEN1) is an autosomal dominant inherited disorder characterized by nodular proliferation of the parathyroid glands and tumors of the anterior pituitary gland, the endocrine pancreas, and the neuroendocrine cell system of the gut. Loss of the putative tumor suppressor effect of the MEN1 gene is probably responsible for the development of MEN1-associated tumors. We report here a genetic study of a female MEN1 patient with the association of nodular hyperplasia of two parathyroid glands, an insulinoma, multiple duodenal gastrinomas, a prolactinoma, and a gastric carcinoid. We performed loss of heterozygosity (LOH) studies of chromosome 11 on all affected tissues except the insulinoma. Allelic losses of chromosome 11 were detected in several tumors, but the chromosomal regions of LOH were different, suggesting that different somatic mutational events are involved in the pathogenesis of these tumors. LOH of chromosome 11 was also detected in the prolactinoma of this patient, which indicates that the MEN1 gene has a tumor suppressor effect in the pituitary.
Computation of spectra with unequal resolution using the fast Fourier transform (1971)

The discrete Fourier transform of a sequence, which can be computed using the fast Fourier transform algorithm, represents samples of the z transform equally spaced around the unit circle. In this letter, a technique is discussed and illustrated for transforming a sequence to a new sequence whose discrete Fourier transform is equal to samples of the z transform of the original sequence at unequally spaced angles around the unit circle.
The effect of ApoE ε4 on longitudinal brain region-specific glucose metabolism in patients with mild cognitive impairment: a FDG-PET study (2019)

While the ApoE ε4 allele is a known risk factor for mild cognitive impairment (MCI) and Alzheimer's disease, brain region specific effects remain elusive. In this study, we investigate whether the ApoE ε4 allele exhibits brain region specific effects in longitudinal glucose uptake among patients with MCI from the Alzheimer's Disease Neuroimaging Initiative (ADNI). Preprocessed FDG PET images, MRIs, and demographic information were downloaded from the ADNI database. An iterative reblurred Van Cittertiteration method was used for partial volume correction (PVC) on all PET images. Structural MRIs were used for PET spatial normalization and region of interest (ROI) definition in standard space. Longitudinal changes in ROI FDG standardized uptake value ratio (SUVR) relative to cerebellum in 24 ApoE ε4 carriers and 24 age-matched ApoE ε4 non-carriers were measured for up to 84-months (median 72 months, SD = 11.2 months) and compared using a generalized linear mixed effects model controlling for gender, education, baseline age, and follow-up period. Additionally, voxelwise analysis was performed by implementing a paired t-test comparing matched baseline and 72 month FDG SUVR images in ApoE carriers and non-carriers separately. Results with PVC were compared with ones from non-PVC based analysis. After applying PVC, the superior fontal, parietal, lateral temporal, medial temporal, caudate, thalamus, and post-cingulate, and amygdala regions had greater longitudinal decreases in FDG uptake in ApoE ε4 carriers with MCI compared to non-carriers with MCI. Similar forebrain and limbic clusters were found through voxelwise analysis. Compared to the PVC based analysis, fewer significant ApoE-associated regions and clusters were found in the non-PVC based PET analysis. Our findings suggest that the ApoE ε4 genotype is associated with a longitudinal decline in glucose uptake in 8 forebrain and limbic brain regions in the context of MCI. In conclusion, this 84-months longitudinal FDG PET study demonstrates a novel ApoE ε4-associated brain-region specific glucose metabolism pattern in patients with MCI. Partial volume correction improved FDG PET quantification.
Multi-Cue Exemplar-Based Nonparametric Model for Gesture Recognition. (2004)

This paper presents an approach for a multi-cue, viewbased recognition of gestures. We describe an exemplarbased technique that combines two different forms of exemplars- shape exemplars and motion exemplars- in a unified probabilistic framework. Each gesture is represented as a sequence of learned body poses as well as a sequence of learned motion parameters. The shape exemplars are comprised of pose contours, and the motion exemplars are represented as affine motion parameters extracted using a robust estimation approach. The probabilistic framework learns by employing a nonparametric estimation technique to model the exemplar distributions. It imposes temporal constraints between different exemplars through a learned Hidden Markov Model (HMM) for each gesture. We use the proposed multi-cue approach to recognize a set of fourteen gestures and contrast it against a shape only, singlecue based system. 1.
Biological and conformational study of β‐substituted prolines in MT‐II template: steric effects leading to human MC5 receptor selectivity* (2004)

To investigate the molecular basis for the interaction of the chi-constrained conformation of melanotropin peptide with the human melanocortin receptors, a series of beta-substituted proline analogs were synthesized and incorporated into the Ac-Nle-C[Asp-His-D-Phe-Arg-Trp-Lys]-NH2 (MT-II) template at the His6 and D-Phe7 positions. It was found that the binding affinities generally diminished as the steric bulk of the p-substituents of the 3-phenylproline residues increased. From (2S, 3R)-3-phenyl-Pro6 to (2S, 3R)-3-(p-methoxyphenyl)-Pro6 analogs the binding affinity decreased 23-fold at the human melanocortin-3 receptor (hMC3R), 17-fold at the hMC4R, and eight-fold at the hMC5R, but selectivity for the hMC5R increased. In addition, the substitution of the D-Phe7 residue with a (2R, 3S)-3-phenyl-Pro resulted in greatly reduced binding affinity (10(3)-10(5)) at these melanocortin receptors. Macromodel's Large Scale Low Mode (LLMOD) with OPLS-AA force field simulations revealed that both MT-II and SHU-9119 share a similar backbone conformation and topography with the exception of the orientation of the side chains of D-Phe7/D-Nal (2')7 in chi space. Introduction of the dihedrally constrained phenylproline analogs into the His6 position (analogs 2-6) caused topographical changes that might be responsible for the lower binding affinities. Our findings indicate that hMC3 and hMC4 receptors are more sensitive to steric effects and conformational constraints than the hMC5 receptor. This is the first example for melanocortin receptor selectivity where the propensity of steric interactions in chi space of beta-modified Pro6 analogs of MT-II has been shown to play a critical role for binding as well as bioefficacy of melanotropins at hMC3 and hMC4 receptors, but not at the hMC5 receptor.
ACCESSING REPLICATED DATA IN AN INTERNETWORK (1990)

When accessing a replicated data object across an internetwork, the time to access different replicas is non-uniform. Further, the probability that a particular replica is inaccessible is much higher in an internetwork than in a local-area network because of partitions and the many intermediate hosts and networks that can fail. We report three replica-accessing algorithms which can be tuned to minimize either the time spent on the access or the number of messages sent. We have obtained performance results for these algorithms by simulation. We find an inverse relationship between the time spent processing an access and the number of messages required to complete the access.
Additional file 29: of Comparative genomics reveals high biological diversity and specific adaptations in the industrially and medically important fungal genus Aspergillus (2017)

Species-specific signal transduction pathway genes in Eurotiomycetes. (XLSX 14 kb)
Review: monoclinic zirconia, its surface sites and their interaction with carbon monoxide (2015)

This review is focused on the surface sites of monoclinic zirconia, especially surface hydroxyls and their manipulation, and the interaction of CO with zirconia to form linearly adsorbed CO and formates.
Rigorous analysis of the axial acoustic radiation force on a spherical object for single-beam acoustic tweezing applications (2022)

Acoustic tweezers are increasingly utilized for the contactless manipulation of small particles. This paper provides a theoretical model demonstrating the acoustic manipulation capabilities of single-beam acoustic transducers. Analytical formulas are derived for the acoustic radiation force on an isotropic spherical object of arbitrary size, centered on a circular piston, simply supported and clamped radiator in an inviscid fluid. Using these results, the existence of a negative axial force pulling the object closer to the radiator is revealed and explored. These findings offer further insight into the feasibility of trapping objects in the near-field of a single-beam acoustic transducer. The calculations illustrate the trapping capabilities of the different emitters as a function of radiator size, particle size, and distance from the source and highlight the impact of radiator boundary conditions. Manipulation of a cell-like fluid sphere in water and an expanded polystyrene sphere in air are studied in more detail with results that are validated through finite element analysis. The developed theoretical model allows fast evaluation of acoustic radiation forces which could aid in the development of relatively simple and inexpensive contactless manipulation solutions.
Anti-Fibrotic Efficacy of Apigenin in a Mice Model of Carbon Tetrachloride-Induced Hepatic Fibrosis by Modulation of Oxidative Stress, Inflammation, and Fibrogenesis: A Preclinical Study (2023)

Finally, these data collectively imply that apigenin may have antifibrotic properties, which may be explained by its anti-inflammatory, antioxidant, and antiangiogenic activities.