gebhart/patrepeval huggingface dataset:
A Review of Current and Future Molecular Diagnostic Tests for Use in the Microbiology Laboratory (2006)

Nucleic acid-based diagnostics gradually are replacing or complementing culture-based, biochemical, and immunological assays in routine microbiology laboratories. Similar to conventional tests, the first-generation deoxyribonucleic acid assays determined only a single analyte. Recent improvements in detection technologies have paved the way for the development of multiparameter assays using macroarrays or micro-arrays, while the introduction of closed-tube real-time polymerase chain reaction systems has resulted in the development of rapid microbial diagnostics with a reduced contamination risk. The use of these new molecular technologies is not restricted to detection and identification of microbial pathogens but also can be used for genotyping, allowing one to determine antibiotic resistance or to perform microbial fingerprinting.
ELECTROPHYSIOLOGIC AND RETINAL PENETRATION STUDIES FOLLOWING INTRAVITREAL INJECTION OF BEVACIZUMAB (AVASTIN) (2006)

Bevacizumab was found to be nontoxic to the retina of rabbits based on electrophysiologic studies. Full thickness retinal penetration may explain observed clinical effects of intravitreal bevacizumab. Although it is difficult to directly extrapolate to humans, our study supports the safe use of intravitreal bevacizumab injection.
Neutron sub-micrometre tomography from scattering data (2020)

Neutrons are valuable probes for various material samples across many areas of research. Neutron imaging typically has a spatial resolution of larger than 20 µm, whereas neutron scattering is sensitive to smaller features but does not provide a real-space image of the sample. A computed-tomography technique is demonstrated that uses neutron-scattering data to generate an image of a periodic sample with a spatial resolution of ∼300 nm. The achieved resolution is over an order of magnitude smaller than the resolution of other forms of neutron tomography. This method consists of measuring neutron diffraction using a double-crystal diffractometer as a function of sample rotation and then using a phase-retrieval algorithm followed by tomographic reconstruction to generate a map of the sample's scattering-length density. Topological features found in the reconstructions are confirmed with scanning electron micrographs. This technique should be applicable to any sample that generates clear neutron-diffraction patterns, including nanofabricated samples, biological membranes and magnetic materials, such as skyrmion lattices.
Connecdenn, A Novel DENN Domain-Containing Protein of Neuronal Clathrin-Coated Vesicles Functioning in Synaptic Vesicle Endocytosis (2006)

Clathrin-coated vesicles (CCVs) are responsible for the endocytosis of multiple cargo, including synaptic vesicle membranes. We now describe a new CCV protein, termed connecdenn, that contains an N-terminal DENN (differentially expressed in neoplastic versus normal cells) domain, a poorly characterized protein module found in multiple proteins of unrelated function and a C-terminal peptide motif domain harboring three distinct motifs for binding the alpha-ear of the clathrin adaptor protein 2 (AP-2). Connecdenn coimmunoprecipitates and partially colocalizes with AP-2, and nuclear magnetic resonance and peptide competition studies reveal that all three alpha-ear-binding motifs contribute to AP-2 interactions. In addition, connecdenn contains multiple Src homology 3 (SH3) domain-binding motifs and coimmunoprecipitates with the synaptic SH3 domain proteins intersectin and endophilin A1. Interestingly, connecdenn is enriched on neuronal CCVs and is present in the presynaptic compartment of neurons. Moreover, connecdenn has a uniquely stable association with CCV membranes because it resists extraction with Tris and high-salt buffers, unlike most other CCV proteins, but it is not detected on purified synaptic vesicles. Together, these observations suggest that connecdenn functions on the endocytic limb of the synaptic vesicle cycle. Accordingly, disruption of connecdenn interactions with its binding partners through overexpression of the C-terminal peptide motif domain or knock down of connecdenn through lentiviral delivery of small hairpin RNA both lead to defects in synaptic vesicle endocytosis in cultured hippocampal neurons. Thus, we identified connecdenn as a component of the endocytic machinery functioning in synaptic vesicle endocytosis, providing the first evidence of a role for a DENN domain-containing protein in endocytosis.
Layered Unsupervised Learning-based Identification and Quantification of Voids in Package Thermal Interface Materials (2022)

Electronics packaging thermal interface materials (TIM) are typically compliant materials with high thermal conductivity placed between a heat-generating chip and package lid or integrated heat spreader, and are used for effective heat dissipation. Shrinking thermal budgets have necessitated effective TIM properties and low-defect assembly. Dispensing TIM is a very exacting process and voids can become trapped during assembly, causing detrimental effects on the thermal resistance, reliability, and adhesion strength of TIM. Accurate detection of the presence of voids, their geometric parameters, and their growth are needed in order to assess TIM quality. Automated identification and measurement of these voids would create standardized tools and metrics that could seamlessly be integrated into the current manufacturing line for faster and more accurate detection of TIM defects. This also lends itself to the creation of large data sets for understanding the parametric space of material properties that can cause voids of certain sizes, in certain locations, and of a certain number.In this paper, a fully automated, artificial intelligence-assisted method of identifying and quantifying voids in confocal scanning acoustic microscopy (CSAM) images of TIM was developed using unsupervised machine learning techniques and implemented as a custom code base in MATLAB. Images are pre-processed using a variety of two-dimensional signal processing methods such as mean/median filtering, Gabor filter banks, pseudo-planarization, and equalization. Modified k-means texture- and intensity-based image segmentation methods were implemented to separate the image iteratively into void and non-void regions. These void regions are each quantified by their absolute area, percent area of chip, major axis length, and minor axis length.
Measurement of the Form-Factor Ratios forD+→K¯*0e+νe (1998)

We present a measurement of the form-factor ratios ${r}_{V}\phantom{\rule{0ex}{0ex}}=\phantom{\rule{0ex}{0ex}}V(0)/{A}_{1}(0)$ and ${r}_{2}{\phantom{\rule{0ex}{0ex}}=\phantom{\rule{0ex}{0ex}}A}_{2}(0)/{A}_{1}(0)$ for the decay ${D}^{+}\ensuremath{\rightarrow}{\overline{K}}^{*0}{e}^{+}{\ensuremath{\nu}}_{e}$. The measurement is based on a signal of approximately 3000 ${D}^{+}\ensuremath{\rightarrow}{\overline{K}}^{*0}{e}^{+}{\ensuremath{\nu}}_{e},$ ${\overline{K}}^{*0}\ensuremath{\rightarrow}{K}^{\ensuremath{-}}{\ensuremath{\pi}}^{+}$ decays reconstructed in data from charm hadroproduction experiment E791 at Fermilab. The results are ${r}_{V}\phantom{\rule{0ex}{0ex}}=\phantom{\rule{0ex}{0ex}}1.84\ifmmode\pm\else\textpm\fi{}0.11\ifmmode\pm\else\textpm\fi{}0.08$ and ${r}_{2}\phantom{\rule{0ex}{0ex}}=\phantom{\rule{0ex}{0ex}}0.71\ifmmode\pm\else\textpm\fi{}0.08\ifmmode\pm\else\textpm\fi{}0.09$.
IC202A, a New Siderophore with Immunosuppressive Activity Produced by Streptoalloteichus sp. 1454-19. II. Physico-chemical Properties and Structure Elucidation. (1999)

IC202A (1) was isolated from the culture filtrate of Streptoalloteichus sp. 1454-19. The structure of 1 was determined by spectral analysis including a variety of two-dimentional NMR and FAB-MS experiments. IC202A is a ferrioxamine-related compound containing a butylidene N-oxide function.
Time Slotted Channel Hopping for smart metering: Measurements and analysis of medium access (2016)

The paper presents an indoor testbed evaluation of a multi-hop IEEE 802.15.4e Time Slotted Channel Hopping (TSCH) sensor network, operating in 2.4 GHz band. First goal of the evaluation is to assess the perspectives of TSCH, as a more reliable version of IEEE 802.15.4, for meter reading applications in a Smart Grid. Secondly, we compare the network performance for two medium access schemes: contention-based and contention-free. We model two automatic meter reading applications, representing regular metering readings and alarm reporting. With this model, we have collected eight measurement data sets for different interference and load conditions. Based on the data sets, link- and end-to-end reliability, and end-to-end delay are analyzed. Our results point out that the delay constraints can be satisfied. However, channel hopping is insufficient for meeting the reliability requirements, and additional mechanisms to couple with high link-layer losses are required.
Network lifetime improvement by relaying node re-selection in the IEEE 802.15.6 BAN (2012)

In this paper, we study a relaying node re-selection problem in the IEEE 802.15.6 body area network (BAN) protocol, which requires to alleviate energy consumption burden of a relaying node and enhance the network life time. To this end, we develop a procedure for wake-up schedule control for a node that can be accommodated in the IEEE 802.15.6 standard. Numerical results show that by allowing a node to re-select its relaying node with our procedure, we can improve the network lifetime.
Locating non-line-of-sight features and recovering imagery conveyed through parallax in passive plenoptic imaging (2021)

We present a method for recovering the perspective image of a non-line-of-sight scene based on plenoptic observations of indirect photons scattered from a flat homogeneous surface. The plenoptic information is used to ascertain locations of non-line-of-sight features in a hidden scene. This latent knowledge is then used for the partial reconstruction of the scene by extracting the imagery perceived by the non-line-of-sight features from the scattered light field measured along the surface. We demonstrate the efficacy of our technique by applying it to synthetic and measured light field data to retrieve the locations of multiple knife-edge occlusions in a test scene along with their perceived imagery.
Palladium-Catalyzed Packed-Bed Continuous-Flow C-N Cross-Coupling (2011)

Conditions have been developed for the palladium-catalyzed C-N cross-coupling in a continuous-flow fashion, using microreactors packed with stainless steel spheres (packed-bed reactors). The reaction proceeds in a biphasic ­reaction medium (KOH-toluene) in the presence of palladium-phosphine catalyst systems and tetra-butylammonium bromide as a phase-transfer catalyst.
A mathematical model of the four cardinal acid-base disorders (2020)

Precise maintenance of acid-base homeostasis is fundamental for optimal functioning of physiological and cellular processes. The presence of an acid-base disturbance can affect clinical outcomes and is usually caused by an underlying disease. It is, therefore, important to assess the acid-base status of patients, and the extent to which various therapeutic treatments are effective in controlling these acid-base alterations. In this paper, we develop a dynamic model of the physiological regulation of an HCO<sub>3</sub><sup>-</sup>/CO<sub>2</sub> buffering system, an abundant and powerful buffering system, using Henderson-Hasselbalch kinetics. We simulate the normal physiological state and four cardinal acidbase disorders: Metabolic acidosis and alkalosis and respiratory acidosis and alkalosis. We show that the model accurately predicts serum pH over a range of clinical conditions. In addition to qualitative validation, we compare the in silico results with clinical data on acid-base homeostasis and alterations, finding clear relationships between primary acid-base disturbances and the secondary adaptive compensatory responses. We also show that the predicted primary disturbances accurately resemble clinically observed compensatory responses. Furthermore, via sensitivity analysis, key parameters were identified which could be the most effective in regulating systemic pH in healthy individuals, and those with chronic kidney disease and distal and proximal renal tubular acidosis. The model presented here may provide pathophysiologic insights and can serve as a tool to assess the safety and efficacy of different therapeutic interventions to control or correct acid-base disorders.
1071: Alterations of the Corpora Cavernosa Associated with Aging and Veno-Oclussive Dysfunction in the Rat (2005)

You have accessJournal of UrologyDiscussed Poster, Tuesday, May 24,2005, 8:00 am - 12:00 pm1 Apr 20051071: Alterations of the Corpora Cavernosa Associated with Aging and Veno-Oclussive Dysfunction in the Rat Hugo H. Davila, Rafael E. Carrion, Raoul Salup, Jacob Rajfer, and Nestor F. Gonzalez-Cadavid Hugo H. DavilaHugo H. Davila More articles by this author , Rafael E. CarrionRafael E. Carrion More articles by this author , Raoul SalupRaoul Salup More articles by this author , Jacob RajferJacob Rajfer More articles by this author , and Nestor F. Gonzalez-CadavidNestor F. Gonzalez-Cadavid More articles by this author View All Author Informationhttps://doi.org/10.1016/S0022-5347(18)35227-3AboutPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissionsReprints ShareFacebookLinked InTwitterEmail "1071: Alterations of the Corpora Cavernosa Associated with Aging and Veno-Oclussive Dysfunction in the Rat." The Journal of Urology, 173(4S), pp. 290–291 © 2016 by American Urological AssociationFiguresReferencesRelatedDetails Volume 173Issue 4SApril 2005Page: 290-291 Advertisement Copyright & Permissions© 2016 by American Urological AssociationMetricsAuthor Information Hugo H. Davila More articles by this author Rafael E. Carrion More articles by this author Raoul Salup More articles by this author Jacob Rajfer More articles by this author Nestor F. Gonzalez-Cadavid More articles by this author Expand All Advertisement PDF DownloadLoading ...
An Information-Theoretic Approach to Analog-to-Digital Compression (2021)

Processing, storing, and communicating information that originates as an analog phenomenon involve conversion of the information to bits. This conversion can be described by the combined effect of sampling and quantization. The digital representation in this procedure is achieved by first sampling the analog signal so as to represent it by a set of discrete-time samples and then quantizing these samples to a finite number of bits. Traditionally, these two operations are considered separately. The sampler is designed to minimize information loss due to sampling based on prior assumptions about the continuous-time input. The quantizer is designed to represent the samples as accurately as possible, subject to the constraint on the number of bits that can be used in the representation. The goal of this chapter is to revisit this paradigm by considering the joint effect of these two operations and to illuminate the dependence between them.
Global Communications Newsletter (2022)

Presents information and current topics of interest to the global communications industry.
Polyvalent Oligonucleotide Gold Nanoparticle Conjugates as Delivery Vehicles for Platinum(IV) Warheads* (2020)

The clinical success of cisplatin [1, 2] has been a major impetus for the evolution of a family of platinum anticancer drugs. Cisplatin and its analogue, carboplatin, are among the most commonly used antitumor drugs today [3]. Cisplatin is highly effective in the 1586treatment of testicular and ovarian cancers and is widely employed for managing bladder, cervical, head and neck, esophageal, and small-cell lung cancer. Like other chemotherapeutic agents, cisplatin has side effects including kidney toxicity, nausea, hearing impairment, and irreversible peripheral nerve damage [4–6]. Synthetic delivery systems have great potential for overcoming problems associated with systemic toxicity that accompanies chemotherapy, including platinum-based treatment [7]. Finding successful candidates and strategies for the delivery of platinum anticancer drugs has been a subject of extensive research. To reduce side effects and target tumor tissue, we [8–10] and others [11, 12] have been investigating a variety of nanoparticulate delivery vehicles over the past several years. Polyvalent oligonucleotide gold nanoparticle conjugates (DNA-AuNPs) have appealing properties for drug delivery applications, including high cellular uptake in a variety of cell types, no demonstrated toxicity inherent to the conjugate, and resistance to enzymatic degradation [13–15].
Neuroplasticity of language in left‐hemisphere stroke: Evidence linking subsecond electrophysiology and structural connections (2017)

The understanding of neuroplasticity following stroke is predominantly based on neuroimaging measures that cannot address the subsecond neurodynamics of impaired language processing. We combined behavioral and electrophysiological measures and structural-connectivity estimates to characterize neuroplasticity underlying successful compensation of language abilities after left-hemispheric stroke. We recorded the electroencephalogram from patients with stroke lesions to the left temporal lobe and from matched controls during context-driven word retrieval. Participants heard lead-in sentences that either constrained the final word ("He locked the door with the") or not ("She walked in here with the"). The last word was shown as a picture to be named. Individual-participant analyses were conducted, focusing on oscillatory power as a subsecond indicator of a brain region's functional neurophysiological computations. All participants named pictures faster following constrained than unconstrained sentences, except for two patients, who had extensive damage to the left temporal lobe. Left-lateralized alpha-beta oscillatory power decreased in controls pre-picture presentation for constrained relative to unconstrained contexts. In patients, the alpha-beta power decreases were observed with the same time course as in controls but were lateralized to the intact right hemisphere. The right lateralization depended on the probability of white-matter connections between the bilateral temporal lobes. The two patients who performed poorly behaviorally showed no alpha-beta power decreases. Our findings suggest that incorporating direct measures of neural activity into investigations of neuroplasticity can provide important neural markers to help predict language recovery, assess the progress of neurorehabilitation, and delineate targets for therapeutic neuromodulation. Hum Brain Mapp 38:3151-3162, 2017. © 2017 Wiley Periodicals, Inc.
Reduction of 1 lf Noise in Multiplexed Linear Detector Arrays via Epitaxial Doping (1993)

A significant (2-5 X) reduction in I /f noise was ob- served in the Ino.53Gao.47As photodetector arrays read out by a PMOS multiplexer, when the epitaxial InP layer doping was changed from undoped (i.e., n-type -5 x l0l4 to sulfur-doped n type of about 3 X 1016 CII-~. A further decrease was observed when the InP layer was also changed from undoped to sulfur-doped n type of about 5 x ~m-~. Data are also presented for the variation of 1 /f noise, within a temperature range of 18°C to -40°C. Surface states at the InP cap/SiN interface appear to be the primary source of 1 /f noise, with the bulk states at the n- Ino,53Gao~47As/InP buffer hetero- interface being a secondary source of 1 /f noise. Increased n-type doping in the high-bandgap InP cap and buffer layers may reduce electron trapping, and thus I/f noise. The mea- sured noise spectrum of InGaAs photodetectors varies asf' with y being approximately -0.45 for device structures with doped and undoped InP layers. For a doped InP layer, this value of y is -0.3. We observed no change in expo- nent y for temperatures between 18°C and -40°C for any de- vice structure.
ChemInform Abstract: Enantiospecific Synthesis of (3S‐Hydroxy‐2S‐methyl)butyltriphenylphosphonium Iodide, a Precursor for the Chiral Side Chain of Pseudomonic Acid C. Enantiospecific Total Synthesis of Pseudomonic Acids from Arabinose. (1983)

Abstract Aus L‐Arabinose (I) erhält man in der skizzierten Weise enantiospezifisch das Phosphoniumsulz (VIIb).
Epitaxial single-crystalline inorganic nanowires and nanowalls: growth morphogenesis and applications in nano-optoelectronics (2004)

Inorganic single crystal nanowires and nanowalls which exhibit rich growth morphogenesis are shown. More specifically, these were grown on lattice-matched substrates, which facilitate their specific growth directions with respect to the substrates' planes. Structural and optical characterizations suggest high single crystallinity of these nanostructures and possible applications in nano-optoelectronics are discussed.
Effects of carnitine and taurine on fatty acid metabolism and lipid accumulation in the liver of cats during weight gain and weight loss (2003)

The primary mechanism leading to hepatic lipidosis in cats appears to be decreased fatty acid oxidation. Carnitine may improve fatty acid oxidation but will not ameliorate hepatic lipidosis in cats fed a diet low in n-3 fatty acids.
Direct Laser-writing in photosensitive glasses: Correlative microscopy of fluorescent silver aggregates and the associated space charge separation (2012)

International audience
Compact broadband resistance model for microstrip transmission lines (2005)

This work presents a closed form broadband resistance model for microstrip transmission lines. The proposed model is compact and scalable, and is within 7% of experimental values. The model uses a non-discontinuous analytical function valid in all bands ranging from DC to microwave frequencies.
Euglycaemic glucose clamp: what it can and cannot do, and how to do it (2016)

The hyperinsulinaemic-euglycaemic glucose clamp has always been regarded as the "gold standard" for the assessment of pharmacodynamic (PD) properties of insulin preparations; however, there has been controversy over a variety of methodogical details, such as study population, dosing time and the initial stabilization of blood glucose (BG) concentrations at the clamp target level, among clamp groups. As the impact of these details on PD results is unclear, the present review provides an overview of different methodological approaches for both the manual and the automated hyperinsulinaemic-euglycaemic glucose clamp. The advantages and limitations of several methodological details are discussed as well as the relevance of clamp results for the prediction of clinical outcomes. Overall, the best method strongly depends on the exact objective of the trial. If, for instance, duration of action is the primary objective, studies should be carried out in patients with type 1 diabetes to avoid any interference of endogenous insulin. This is less important for variables such as onset of action or early metabolic activity. The hyperinsulinaemic-euglycaemic glucose clamp has a high sensitivity to detect even minor differences between different insulin preparations. The practical relevance of potential differences, however, needs to be investigated in clinical studies. A major prerequisite for obtaining reliable glucose clamp results is the attainment of high clamp quality (i.e. keeping BG concentrations close to the clamp target throughout the experiments). Unfortunately, measures of clamp quality are often under-reported, as is the variability in PD profiles, although these might explain some unconfirmed extreme results obtained in a few clamp studies.