gebhart/patrepeval huggingface dataset:
Novel pharmacological strategies for motor complications in Parkinson’s disease (2005)

In advanced Parkinson's disease, the combination of disease progression and levodopa therapy leads to the development of motor problems complicating the therapeutic response, known as motor response complications. The nonphysiological, pulsatile stimulation produced by most currently available dopaminergic therapies triggers a complicated series of responses resulting in the dysregulation of glutamate receptors and many other neurotransmitter systems on striatal neurons. Although a number of novel compounds that provide a more continuous dopaminergic stimulation are becoming available, no practical way to accomplish this in a truly physiological manner currently exists. Novel strategies for pharmacological intervention with the use of nondopaminergic treatments, with drugs targeting selected transmitter receptors expressed on striatal neurons appear more promising. These include NMDA or AMPA antagonists, or drugs acting on 5-hydroxytryptamine subtype 2A, alpha2-adrenergic, adenosine A2A and cannabinoid CB1 receptors. Future strategies may also target pre- and postsynaptic components that regulate firing pattern, like synaptic vesicle proteins, or nonsynaptic gap junction communication mechanisms, or drugs with actions at the signal transduction systems that modulate the phosphorylation state of NMDA receptors. These new therapeutic strategies, alone or in combination, hold the promise of providing effective control or reversal of motor response complications.
Ferrite−Silica−Insulin Nanocomposites (FeSINC) for Glucose Reduction (2009)

Proteins find a more stable environment upon encapsulation in a silica host, because of the polymeric silica frame that grows around the macromolecule and protects them from denaturation. Silica-insulin nanocomposite (SINC) and ferrite-coated SINC (FeSINC) was prepared by polyelectrolytic condensation of silica precursor on insulin and they were studied for their ability to control glucose levels. SINC was prepared by acid-base-catalyzed polymerization in the presence of insulin at room temperature by a modified Stober's process. FeSINC nanoparticles were prepared by coprecipitation of both ferric and ferrous salts on the bovine insulin loaded silica nanoparticle. The presence of ferrite coating in FeSINC was identified using a vibrating sample magnetometer and quantified from XRF study. The intermolecular interactions in these nanocomposites were studied by FTIR and Raman spectroscopy. An in vivo study indicated that FeSINC was biologically active in reducing glucose levels as compared to SINC.
Eye Tracking and Motion Data Predict Endoscopic Sinus Surgery Skill (2022)

N/A Laryngoscope, 133:500-505, 2023.
Development of X-ray facility Baikal based on 900 MJ inductive store and related problems (2002)

Summary form only given. TRINITI develops a project of multiterawatt generator "Baikal" to produce powerful pulses of soft X-rays, using electric pulse power 500-1000 TW. The project is based on unique complex of 3 pulsed electric generators with inductive store and switches, situated in TRINITI. Parameters of proposed X-ray generator are: X-ray pulse energy-5-10 MJ, X-ray pulse duration-10 ns, load current amplitude-50 MA, load current pulse duration-100 ns, method of X-ray generation-Z-pinch and liner implosion. There are 3 stages of power multiplication, using inductive stores and explosive switches, a magnetic compressor on imploding metallic liner and plasma opening switch in "Baikal" scheme. Two main directions of scientific activity for "Baikal" program are developing now. To prove the main problems of the "Baikal" scheme an experimental installation "MOL" is under construction in TRINITI. On this installation the main principles of "Baikal" power multiplication will be tested at /spl sim/1/32 level of total "Baikal" power. The physics of radiating composite Z-pinches and liner implosion is being investigated on "Angara-5-1" for the "Baikal" purpose at 5 MA, 5 TW level. The main problems to solve are: liner implosion at prolonged plasma production conditions in heterogeneous plasma producing substances, dynamics of noncylindrical liner, mechanism of magnetic energy transfer to X-ray radiation.
The design of an output data collection framework for NS-3 (2013)

An important design decision in the construction of a simulator is how to enable users to access the data generated in each run of a simulation experiment. As the simulator executes, the samples of performance metrics that are generated beg to be exposed either in their raw state or after having undergone mathematical processing. Also of concern is the particular format this data assumes when externalized to mass storage, since it determines the ease of processing by other applications or interpretation by the user. In this paper, we present a framework for the ns-3 network simulator for capturing data from inside an experiment, subjecting it to mathematical transformations, and ultimately marshaling it into various output formats. The application of this functionality is illustrated and analyzed via a study of common use cases. Although the implementation of our approach is specific to ns-3, this design presents lessons transferrable to other platforms.
ChemInform Abstract: 2‐Chloro‐1,4‐benzodithiin 1,1,4,4‐Tetraoxide — A Conjunctive Dienophile for the Preparation of Tetrasubstituted Polycyclic Olefins. (1999)

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.
Safety-Critical Adaptive Control with Nonlinear Reference Model Systems (2020)

In this paper, a model reference adaptive control architecture is proposed for uncertain nonlinear systems to achieve prescribed performance guarantees. Specifically, a general nonlinear reference model system is considered that captures an ideal and safe system behavior. An adaptive control architecture is then proposed to suppress the effects of system uncertainties without any prior knowledge of their magnitude and rate upper bounds. More importantly, the proposed control architecture enforces the system state trajectories to evolve within a user-specified prescribed distance from the reference system trajectories, satisfying the safety constraints. This eliminates the ad-hoc tuning process for the adaptation rate that is conventionally required in model reference adaptive control to ensure safety. The efficacy of the proposed control architecture is also demonstrated through an illustrative numerical example.
Prospective Follow‐Up of Patients with Acute Hepatitis C Virus Infection in Brazil (2010)

Our data suggest that low levels of anti-HCV antibodies during the acute phase of HCV infection are independently related to spontaneous viral clearance.
Transition between flux liquid and flux solid in high-Tcsuperconductors (1990)

We have studied flux melting near the ${\mathit{H}}_{\mathit{c}1}$ line in T-Ba-Cu-O using a variational Monte Carlo method. The existence of a flux-liquid phase has been observed and the transition line between flux liquid and flux solid in the H-T phase diagram has been determined. The width of the liquid phase increases with temperature as ${\mathit{T}}^{2}$ at low temperatures, as predicted by Nelson, and faster than ${\mathit{T}}^{2}$ at higher temperatures, eventually crossing over to the high-field melting curve.
Polymer grafted layered double hydroxides (LDHs-g-POEGMA): a highly efficient reusable solid catalyst for the synthesis of chromene incorporated dihydroquinoline derivatives under solvent-free conditions (2016)

Chromene incorporated dihydroquinolines are synthesized using highly active air stable and recyclable LDHs-<italic>g</italic>-POEGMA as catalyst in green procedure.
Method for Processing Liver Spheroids Using an Automatic Tissue Processor (2016)

In support of the Ex vivo Console of Human Organoids ECHO program, the personnel at the Molecular Toxicology Branch of the U.S. Army Edgewood Chemical Biological Center developed a specialized method for paraffin-embedding liver organoids. Processing the organoids in this manner enables subsequent microtome sectioning to observe the internal structures. Because the tissues that are usually processed by an automatic tissue processor are far larger than organoids, which are typically only 1 mm in diameter, an alternate method from that described in the instrument manual was required. The key step that enabled processing of organoids was to first increase their size by embedding them in a plug of agarose gel. This tissue-processing method, which was developed for the preparation of organoids, is described in this report.
Caecomyces sympodialis sp. nov., a new rumen fungus isolated from Bos indicus (2007)

A new anaerobic rumen fungus was isolated from the rumen fluid of a yellow cow (Bos indicus). This fungus appears to be a previously undescribed species of the genus Caecomyces, it possessing uniflagellate zoospores, a spherical holdfast, tubular sporangiophores and bulbous rhizoids. This new fungus also features distinctive multisporangiate thallus sympodially distributed on sporangiophores. The fungus resembles Caecomyces communis and C. equi in that it characterizes bulbous rhizoids and uniflagellate zoospores but differs from C. communis and C. equi in that it possesses multisporangiate and sympodial sporangia. This new fungus and Cyllamyces aberensis both reveal similar morphology during early thallus development in having a spherical holdfast, but they vary from unbranched sporangiophores and additional bulbous rhizoids. In addition, the molecular phylogenetic analyses ITS1 (internal transcribed spacer 1) also conform to the results of the morphological examinations of Caecomyces. For the mentioned reasons, this new species of fungus is described as Caecomyces sympodialis sp. nov. The genera of Neocallimasticaceae and species of Caecomyces are also keyed out.
Obesity and Cardiovascular Disease (2006)

Obesity is becoming a global epidemic in both children and adults, and it is associated with numerous co-morbidities such as cardiovascular diseases (CVD), type 2 diabetes, hypertension, certain cancers, and sleep apnea/sleep-disordered breathing. In fact, is an independent risk factor for CVD and CVD risks have been also documented in obese children, and is associated with reduced life expectancy. A variety of adaptations/alterations in cardiac structure and function occur in the individual as adipose tissue accumulates in excess amount. As a whole, overweight/obesity predispose or is associated with numerous cardiac complications such as coronary heart disease, heart failure, and sudden death through its impact on the cardiovascular system.
Workload characterization and its impact on multicore platform design (2010)

Networks-on-chip (NoCs) have been proposed as a scalable solution to solving the communication problem in multicore systems. Although the queuing-based approaches have been traditionally used for performance analysis purposes, they cannot properly account for many of the traffic characteristics (e.g., non-stationary, self-similarity, higher order statistics) that are crucial for multicore platform design when communication happens via the NoC approach. To overcome this limitation, we propose a mean field approach to analyze the traffic dynamics in multicore systems and show how the non-stationary effects of the NoC workload can be effectively captured; this is of fundamental significance for re-thinking the very basis of multicore systems design. Moreover, our experimental results demonstrate that both network architecture and application characteristics are the main sources of power law behavior observed in network traffic. Our findings open new research directions into NoC optimization which require accurate models of time- and space-dependent traffic behavior.
SIMD-scan (2009)

The availability of huge system memory, even on standard servers, generated a lot of interest in main memory database engines. In data warehouse systems, highly compressed column-oriented data structures are quite prominent. In order to scale with the data volume and the system load, many of these systems are highly distributed with a shared-nothing approach. The fundamental principle of all systems is a full table scan over one or multiple compressed columns. Recent research proposed different techniques to speedup table scans like intelligent compression or using an additional hardware such as graphic cards or FPGAs. In this paper, we show that utilizing the embedded Vector Processing Units (VPUs) found in standard superscalar processors can speed up the performance of mainmemory full table scan by factors. This is achieved without changing the hardware architecture and thereby without additional power consumption. Moreover, as on-chip VPUs directly access the system's RAM, no additional costly copy operations are needed for using the new SIMD-scan approach in standard main memory database engines. Therefore, we propose this scan approach to be used as the standard scan operator for compressed column-oriented main memory storage. We then discuss how well our solution scales with the number of processor cores; consequently, to what degree it can be applied in multi-threaded environments. To verify the feasibility of our approach, we implemented the proposed techniques on a modern Intel multi-core processor using Intel® Streaming SIMD Extensions (Intel® SSE). In addition, we integrated the new SIMD-scan approach into SAP® Netweaver® Business Warehouse Accelerator. We conclude with describing the performance benefits of using our approach for processing and scanning compressed data using VPUs in column-oriented main memory database systems.
Secondary bile acids as a mechanism of intestinal injury (2013)

Papillon, Stephanie C. MD; Frey, Mark R. PhD; Ford, Henri R. MD, MHA, FACS; Gayer, Christopher P. MD, PhD Author Information
Variation of transferrin mRNA concentration in the rabbit mammary gland during the pregnancy–lactation–weaning cycle and in cultured mammary cells. A comparison with the other major milk protein mRNAs (1994)

The concentration of transferrin mRNA was evaluated during pregnancy and lactation in rabbit mammary gland and liver using northern blot and dot blot assays. Transferrin mRNA was present in the virgin rabbit mammary gland and its concentration increased as pregnancy proceeded, with a major enhancement after day 15. A high concentration was reached 3 days after parturition, with no additional increase during lactation and with a marked decline after weaning. During the same period, the concentration of transferrin mRNA showed only a very weak variation in liver. This mRNA was six times more abundant in mammary gland than in liver of lactating rabbit. The accumulation of transferrin mRNA in the mammary gland was concomitant with the accumulation of alpha s1-, beta-, kappa-casein and WAP (whey acidic protein) mRNAs. The concentration of glyceraldehyde 3-phosphate dehydrogenase mRNA, taken as a non-inducible control mRNA, declined progressively during pregnancy to reach its lower level in lactation. These observations suggest that casein, WAP and transferrin mRNAs are subjected to a similar control mechanism in vivo, at least in the second half of pregnancy and during lactation. Experiments carried out in vitro using isolated rabbit epithelial mammary cells cultured on collagen I gel indicated that transferrin mRNA was abundant and only weakly inducible by the lactogenic hormones insulin, cortisol and prolactin, as opposed to caseins and WAP mRNAs. R5020, an analogue of progesterone, inhibited at most very slightly the accumulation of alpha s1-casein mRNA in the presence of prolactin and it did not reduce the expression of transferrin gene.(ABSTRACT TRUNCATED AT 250 WORDS)
Hospital-based Patient-specific Templates for Total Knee Arthroplasty: A Proof of Concept Clinical Study (2017)

Hospital-based PST was feasible and it was facilitated by the introduction of desktop 3-dimensional printers. This technique was less expensive and more time saving than commercially available PSTs as well as the conventional TKA.
Decoding algorithm with Fast Hadamard Transform for channel quality indication (CQI) in 3GPP-LTE (2010)

Channel quality indication (CQI) report is an important element of LTE and has significant impact on the system performance. The encoding method for CQI in 3GPP-LTE is Reed-Muller (RM) code and the transmission quality of CQI can be improved by channel coding with RM code. On the receiver, the contradiction between low latency which is one of goals of LTE and reliability of communication system can be eased up by fast decoding algorithms, among which Fast Hadamard Transform (FHT) is described in this paper. Performance analysis as well as computer simulation of the whole process of CQI coding is also presented.
Stable sulfur ylides. VIII. The reactions of 1,3-oxazin-4-one derivatives. (1980)

6-Methyl-5-methylthio-2-[2(1H)-quinolylidene] methyl-1, 3-oxazin-4-one (1) was treated with acid to give 4-methyl-5-methylthio-3-[2(1H)-quinolylidene] pyridine-2, 6 (1H, 3H)-dione (2) in good yield. Similarly, 2-aminopyridine derivatives (7a-e) were obtained by the reaction of 1 with various amines. On the thermolysis of 1, 3-methylthio-2-[2 (1H)-quinolylidene]-3, 5-dioxohexanitrile (12) was obtained. When 1 was treated with trifluoroacetic anhydride, a trifluoroacetyl group was introduced at the active methine moiety of 1. No ring conversion occurred in the reaction of 6-methyl-5-methylthio-2-[2 (1H)-quinolylidene-2-quinolyl] methyl-1, 3-oxazin-4-one (13) with various reagents, whereas ring cleavage of the 1, 3-oxazine ring of 13 was observed. Dimethylsulfonium acetyl-N-phenylcarbamoylmethylide (18) was treated with quinoline 1-oxide and acetyl chloride to give 4-methyl-3-methylthio-1-phenyl-5-[2 (1H)-quinolylidene] pyridine-2, 6 (1H, 5H)-dione (20) instead of the 1, 3-oxazin-4-one derivative (19).
Hardware approaches to cache coherence in shared-memory multiprocessors. 2 (1994)

Improving performance and scalability in shared-memory multiprocessors requires an appropriate solution to the well-known cache coherence problem. Hardware schemes-highly convenient because of their transparency for software-offer fully dynamic solutions, with an ability to achieve high performance. In Part 1 of this two-part series, we discussed the principles of the two major groups of hardware protocols and summarized relevant representatives. Here, we also briefly consider the coherence problem in multilevel cache hierarchies and large-scale, shared-memory multiprocessors.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
A Full Cooperative Diversity Beamforming Scheme In Two-Way Amplify-And-Forward Relay Systems (2014)

Publication in the conference proceedings of EUSIPCO, Lisbon, Portugal, 2014
A hand pose tracking benchmark from stereo matching (2017)

In this paper we establish a long-term 3D hand pose tracking benchmark <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">1</sup> . It contains 18,000 stereo image pairs as well as the ground-truth 3D positions of palm and finger joints from different scenarios. Meanwhile, to accurately segment hand from stereo images, we propose a novel stereo-based hand segmentation and depth estimation algorithm specially tailored for hand tracking here. The experiments indicate the effectiveness of the proposed algorithm by demonstrating that its tracking performance is comparable to the use of an active depth sensor under various of challenging scenarios.
Abstract 5226: Understanding single cell variability in oncogene induced pathway aberration in lung cancer. (2013)

Abstract Progression of normal epithelial cells towards malignancy is marked by alteration in signaling pathways involved in cellular growth and development. However, at any given stage of oncogenic progression, it is unknown to what extent different signaling pathways are altered and whether the degree of signaling change is similar from cell to cell. A quantitative survey of signaling alterations that are associated with common oncogenic changes will allow us to connect the widely observed signaling heterogeneity in cancer to the genetic changes leading to its disease states. Here, we study an isogenic series of human bronchial epithelial cells (HBECs) that have been oncogenically transformed with the sequential addition of common lung cancer mutations (p53null, p53null+KRASV12, p53null+KRASV12+c-myc). To quantify the degree of signaling alteration, we performed immuno-fluorescence assays and acquired images of HBECs stained with signaling markers representing important lung cancer pathways including WNT, JAK/STAT, TGFβ, IFNγ, MAPK, AKT and TNFα pathways. We extracted intensity-based features from individual cells using our in-house image analysis platform. This single-cell analysis revealed a high degree of signaling change within each of our HBEC populations, suggesting that signaling alteration can be different from cell to cell and from pathway to pathway. We further quantified the degree of pathway alteration along our sequential oncogenic manipulations by using standard machine learning techniques. Our analysis revealed significant changes in the WNT, TGFβ and MAPK pathways upon oncogenic progression. Loss of p53 alone caused a major shift in TGFβ signaling; addition of mutant KRASV12 altered the MAPK, TNFα and JAK/STAT pathways; Addition of a third genetic manipulation, C-MYC, induced dramatic shifts in the WNT and IFNγ pathways. We are currently in the process of inferring crosstalk among multiple pathways in HBECs and a panel of ten lung cancer cell lines. Taken together, our results suggest that the degree of signaling alteration across diverse signaling pathways can be correlated with a specific oncogenic state in lung cancer. Citation Format: Dhruba Deb, Satwik Rajaram, Jill Larsen, John Minna, Lani Wu, Steven Altschuler. Understanding single cell variability in oncogene induced pathway aberration in lung cancer. [abstract]. In: Proceedings of the 104th Annual Meeting of the American Association for Cancer Research; 2013 Apr 6-10; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2013;73(8 Suppl):Abstract nr 5226. doi:10.1158/1538-7445.AM2013-5226
Grouped-coordinate ascent algorithms for penalized-likelihood transmission image reconstruction (1997)

This paper presents a new class of algorithms for penalized-likelihood reconstruction of attenuation maps from low-count transmission scans. We derive the algorithms by applying to the transmission log-likelihood a version of the convexity technique developed by De Pierro for emission tomography. The new class includes the single-coordinate ascent (SCA) algorithm and Lange's convex algorithm for transmission tomography as special cases. The new grouped-coordinate ascent (GCA) algorithms in the class overcome several limitations associated with previous algorithms. 1) Fewer exponentiations are required than in the transmission maximum likelihood-expectation maximization (ML-EM) algorithm or in the SCA algorithm. 2) The algorithms intrinsically accommodate nonnegativity constraints, unlike many gradient-based methods. 3) The algorithms are easily parallelizable, unlike the SCA algorithm and perhaps line-search algorithms. We show that the GCA algorithms converge faster than the SCA algorithm, even on conventional workstations. An example from a low-count positron emission tomography (PET) transmission scan illustrates the method.