gebhart/patrepeval huggingface dataset:
A Pitch-Matched Transceiver ASIC With Shared Hybrid Beamforming ADC for High-Frame-Rate 3-D Intracardiac Echocardiography (2022)

In this article, an application-specific integrated circuit (ASIC) for 3-D, high-frame-rate ultrasound imaging probes is presented. The design is the first to combine element-level, high-voltage (HV) transmitters and analog front-ends, subarray beamforming, and in-probe digitization in a scalable fashion for catheter-based probes. The integration challenge is met by a hybrid analog-to-digital converter (ADC), combining an efficient charge-sharing successive approximation register (SAR) first stage and a compact single-slope (SS) second stage. Application in large ultrasound imaging arrays is facilitated by directly interfacing the ADC with a charge-domain subarray beamformer, locally calibrating interstage gain errors and generating the SAR reference using a power-efficient local reference generator. Additional hardware-sharing between neighboring channels ultimately leads to the lowest reported area and power consumption across miniature ultrasound probe ADCs. A pitch-matched design is further enabled by an efficient split between the core circuitry and a periphery block, the latter including a datalink performing clock data recovery (CDR) and time-division multiplexing (TDM), which leads to a 12-fold total channel count reduction. A prototype of <inline-formula xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> <tex-math notation="LaTeX">$8{\times }9$ </tex-math></inline-formula> elements was fabricated in a TSMC 0.18- <inline-formula xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> <tex-math notation="LaTeX">$\mu \text{m}$ </tex-math></inline-formula> HV BCD technology and a 2-D PZT transducer matrix with a pitch of <inline-formula xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> <tex-math notation="LaTeX">$160 \mu \text{m}$ </tex-math></inline-formula> , and a center frequency of 6 MHz was manufactured on the chip. The imaging device operates at up to 1000 volumes/s, generates 65-V transmit pulses, and has a receive power consumption of only 1.23 mW/element. The functionality has been demonstrated electrically as well as in acoustic and imaging experiments.
Indirect and Direct Detection of the 4-(Benzothiazol-2-yl)phenylnitrenium Ion from a Putative Metabolite of a Model Anti-Tumor Drug (2009)

2-(4-Aminophenyl)benzothiazoles related to 1 are potentially important pharmaceuticals. Metabolism apparently involves oxidation and esterification to 3. In water, hydrolysis and photolysis of 3 generates the nitrenium ion 4 that can be detected indirectly by N(3)(-) trapping and directly by UV-vis spectroscopy following laser flash photolysis. The transient, with lambda(max) 570 nm, and a lifetime of 530 ns, reacts with N(3)(-) at a diffusion-controlled rate and generates the quinol 6 by reaction with water.
Power consumption analysis and energy efficient optimization for turbo decoder implementation (2010)

In today's digital baseband implementation, energy efficiency, flexibility, high performance and low power are major requirements for channel decoding. This paper presents low power techniques for turbo decoder implementations. An ASIP for turbo decoding is considered as a case study. Based on the results of power consumption analysis of the case study architecture, low power techniques for the ASIP are proposed and applied. The optimization techniques show an interesting gain in normalized energy efficiency between 4% and 54% compared to the state of the art.
Hierarchical imaging and computational analysis of three-dimensional vascular network architecture in the entire postnatal and adult mouse brain (2020)

ABSTRACT The formation of new blood vessels and the establishment of vascular networks are crucial during brain development, in the adult healthy brain, as well as in various diseases of the central nervous system (CNS). Here, we describe a method that enables hierarchical imaging and computational analysis of vascular networks in postnatal- and adult mouse brains. Resin-based vascular corrosion casting, scanning electron microscopy, synchrotron radiation and desktop µCT imaging, and computational network analysis are used. Combining these methods enables detailed visualization and quantification of the three-dimensional (3D) brain vasculature. Network features such as vascular volume fraction, branch point density, vessel diameter, - length, -tortuosity, and -directionality as well as extravascular distance can be obtained at any developmental stage from the early postnatal to the adult brain. Our method allows characterizing brain vascular networks separately for capillaries and non-capillaries. The entire protocol, from mouse perfusion to vessel network analysis, takes approximately 10 days. Online summary This protocol uses vascular corrosion casting, hierarchical synchrotron radiation µCT imaging, and computational image analysis to assess the three-dimensional vascular network architecture.
Evaluation and compensation of frequency dependent path loss over OFDM subcarriers in UAC (2009)

The underwater acoustic communication (UAC) channel presents severe time, space, and frequency selectivity that makes it difficult to achieve high data rate communication. In the recent years OFDM is used to resolve primarily frequency selectivity among these problems. Due to high absorbency of water over small frequency range path loss may be highly variable over OFDM subcarriers. This paper will evaluate this varying path loss and present algorithm to compensate such path loss using adaptive power control, adaptive modulation order, and adaptive BW. To the best knowledge of the authors, evaluation and compensation of varying path loss in the proposed method has not been presented before. Thus this research presents a valuable work in this domain.
Imaging scours in straightened and braided gravel‐bed rivers with ground‐penetrating radar (2019)

ABSTRACT The genesis of alternate gravel bars in straightened rivers and braided rivers is closely coupled to the formation of scours. Scours can lead to riverbank failure, initiate lateral river dynamics and strongly impact the interaction between surface and subsurface flow and transport. It is, therefore, critical to account for scours in the design of flood protection measures. However, there is still little knowledge on the formation and characteristics of such scours, especially on the dynamic relationship between the riverbed morphology and the scours. Bathymetric riverbed surveys conducted at medium to low discharge may underestimate the real scour sizes and shapes if scours filled with sediments during waning discharge. Furthermore, the literature suggests that gravel bars and scours can jointly migrate on the riverbed, resulting in cut‐and‐fill sedimentary structures in the near subsurface. These cut‐and‐fill structures cannot be observed from the surface. We investigate with ground‐penetrating radar the presence of scour fills below the riverbed of two gravel‐bed rivers and study any indications of bar and scour migration. Thus, two ground‐penetrating radar surveys were conducted, one on the emerged part of an alternate bar of the channelized Alpine Rhine River (Switzerland) and the other on a flat gravel surface in a braided reach of the Tagliamento River (Italy) that is near the pristine state. At both sites, a scour fill could be clearly identified below a 2‐m‐thick sediment layer. The imaged part of the scour of the Alpine Rhine River (30 × 100 × 4.5 m) is located at the front end of the gravel bar next to the riverbank. This scour was only partially imaged by ground‐penetrating radar and is in reality significantly deeper and larger. The scour of the Tagliamento River (20 × 30 × 2.5 m) shows a clear internal structure consisting of inclined, planar cross‐beds that merge tangentially with the lower‐bounding erosional surface of the scour. At the light of the literature, we compare these two scours in terms of sedimentary processes resulting from the complex interplay between scours and gravel bars. The study findings offer a promising research avenue on the dynamic relationship between discharge, sediment transport, scour and bar formation and migration.
Structurally Observable Distributed Networks of Agents Under Cost and Robustness Constraints (2017)

In many problems, agents cooperate locally so that a leader or fusion center can infer the state of every agent from probing the state of only a small number of agents. Versions of this problem arise when a fusion center reconstructs an extended physical field by accessing the state of just a few of the sensors measuring the field, or a leader monitors the formation of a team of robots. Given a link cost, the paper presents a polynomial time algorithm to design a minimum cost coordinated network dynamics followed by the agents, under an observability constraint. The problem is placed in the context of structural observability and solved even when up to <inline-formula xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"> <tex-math notation="LaTeX">$k$</tex-math></inline-formula> agents in the coordinated network dynamics fail.
Adrenomedullin in plasma of surgical ICU-patients with sepsis - a pilot study (2015)

Synthesis and liberation of adrenomedullin (ADM) are found in different tissues and endothelial cells and ADM is induced by hypoxia, oxidative stress, and pro-inflammatory cytokines [1]. The prognostic value of ADM is described in general patient populations, in medical patients and in particular recently in patients with suspected sepsis in the emergency department [2, 3]. In surgical patients, the obstacle is to differentiate between postoperative inflammation and sepsis and to assess the patients' prognosis.
In vivo trans‐synaptic tract tracing from the murine striatum and amygdala utilizing manganese enhanced MRI (MEMRI) (2003)

Small focal injections of manganese ion (Mn(2+)) deep within the mouse central nervous system combined with in vivo high-resolution MRI delineate neuronal tracts originating from the site of injection. Previous work has shown that Mn(2+) can be taken up through voltage-gated Ca(2+) channels, transported along axons, and across synapses. Moreover, Mn(2+) is a paramagnetic MRI contrast agent, causing positive contrast enhancement in tissues where it has accumulated. These combined properties allow for its use as an effective MRI detectable neuronal tract tracer. Injections of low concentrations of MnCl(2) into either the striatum or amygdala produced significant contrast enhancement along the known neuronal circuitry. The observed enhancement pattern is different at each injection site and enhancement of the homotopic areas was observed in both cases. Ten days postinjection, the Mn(2+) had washed out, as evidenced by the absence of positive contrast enhancement within the brain. This methodology allows imaging of neuronal tracts long after the injection of the ion because Mn(2+) concentrates in active neurons and resides for extended periods of time. With appropriate controls, differentiation of subsets of neuronal pathways associated with behavioral and pharmacological paradigms should be feasible.
Amorphous phenolphthalein-based poly(arylene ether)- modified cyanate ester networks: Effect of thermal cure cycle on morphology and toughenability (1997)

Reactive functional thermoplastic poly(arylene ether) toughness modifiers were demonstrated to enhance toughness of brittle thermosetting cyanate ester networks and also allowed retention of a highly desirable stability to solvent stress cracking and a moderately high modulus. Careful control of the heterophase morphological structure was necessary to achieve significant toughening. In contrast to the well-defined morphologies of the reactive thermoplastic-modified networks, the use of nonreactive simple physical blend modifiers of the same molecular weight and backbone chemistry produced a macrophase separation and no apparent control over the sizes of the phase-separated domains. Macrophase-separated morphologies are inherently process-sensitive and less desirable from the point of performance control and prediction. Generation of controlled microphase-separated morphologies can be achieved by systematically varying thermal cure cycles in the case of the reactive thermoplastic-modified systems. Such a cure cycle dependence of the morphology was particularly demonstrated for the case of the 25 wt % 15,000 (Mn) (15K) phenolphthalein-based hydroxy-functionalized poly(arylene ether sulfone) (PPH-PSF-OH)-modified networks. Morphologies that exhibit finer textures of the phase separated domains usually result in lower fracture toughness values. © 1997 John Wiley & Sons, Inc. J Appl Polym Sci 64: 167–178, 1997
Graph analysis (2013)

The problem of efficiently analyzing graphs of various shapes and sizes has been recently enjoying an increased level of attention both in the academia and in the industry. This trend prompted creation of specialized graph databases that have been rapidly gaining popularity of late. In this paper we argue that there exist alternatives to graph databases, providing competitive or superior performance, that do not require replacement of the entire existing storage infrastructure by the companies wishing to deploy them.
<title>Wavelength stabilization of an erbium-doped fiber source with a fiber Bragg grating for high-accuracy FOG</title> (1996)

We present a method of stabilization of the mean wavelength of a superluminescent erbium-doped-fiber source which is obtained with a fiber Bragg grating acting as a broad spectral filter. This allows one to get 10 ppm stability over temperature. Excess intensity noise is reduced with a biasing phase modulation of the FOG about +/- (pi) radian instead of the usual +/- (pi) /2 radian.
Visible light reduces C. elegans longevity (2018)

The transparent nematode Caenorhabditis elegans can sense UV and blue-violet light to alter behavior. Because high-dose UV and blue-violet light are not a common feature outside of the laboratory setting, we asked what role, if any, could low-intensity visible light play in C. elegans physiology and longevity. Here, we show that C. elegans lifespan is inversely correlated to the time worms were exposed to visible light. While circadian control, lite-1 and tax-2 do not contribute to the lifespan reduction, we demonstrate that visible light creates photooxidative stress along with a general unfolded-protein response that decreases the lifespan. Finally, we find that long-lived mutants are more resistant to light stress, as well as wild-type worms supplemented pharmacologically with antioxidants. This study reveals that transparent nematodes are sensitive to visible light radiation and highlights the need to standardize methods for controlling the unrecognized biased effect of light during lifespan studies in laboratory conditions.
Electron transport in a starburst oxadiazole (1997)

In this article we report on the electron mobility of a starburst oxadiazole, 1,3,5 -[(4-tert.-butylphenyl)-2-oxadiazolyl] benzene. For direct evidence of the electron transport capability the charge drift mobility and its field dependence have been measured by the time-of-flight technique. The electron mobility showed a square root dependence of the electric field and was somewhat larger than that for PBD. In addition, the oxadiazole compound has been used as the electron transport layer (ETL) in light-emitting diodes (LEDs) together with poly(1,4-phenylene vinylene). The characteristics of these devices are compared to analogous LEDs with Alq3 as the ETL.
In vivo Antioxidant Potential of Raphanus sativusSeeds in Rat Kidney Against CCl4-Induced Toxicity (2019)

In this study, the methanolic extract of Raphanus sativus (RSME) seeds was evaluated for its protective effect against CCl 4 -induced nephrotoxicity. The treatment of Swiss albino rats with intraperitoneal injections of CCl 4 (1 ml/kg body weight) on alternate days for 30 days decreased the antioxidant enzymes, while lipid peroxidation and serum toxicity markers were increased. These changes were reversed in the animals receiving an oral dose of RSME (100 and 200 mg/kg body weight) along with CCl 4 , thus increasing the level of antioxidant enzymes and decreasing serum toxicity markers and thus ameliorating the toxic effect of CCl 4 . These results show that seed extract of R. sativus can reciprocate the toxic effects of CCl 4 and can be used to make a chemopreventive drug.
RASSF2methylation is a strong prognostic marker in younger age patients with Ewing sarcoma (2013)

Ras-association domain family of genes consist of 10 members (RASSF1-RASSF10), all containing a Ras-association (RA) domain in either the C- or the N-terminus. Several members of this gene family are frequently methylated in common sporadic cancers; however, the role of the RASSF gene family in rare types of cancers, such as bone cancer, has remained largely uninvestigated. In this report, we investigated the methylation status of RASSF1A and RASSF2 in Ewing sarcoma (ES). Quantitative real-time methylation analysis (MethyLight) demonstrated that both genes were frequently methylated in Ewing sarcoma tumors (52.5% and 42.5%, respectively) as well as in ES cell lines and gene expression was upregulated in methylated cell lines after treatment with 5-aza-2'-deoxcytidine. Overexpression of either RASSF1A or RASSF2 reduced colony formation ability of ES cells. RASSF2 methylation correlated with poor overall survival (p = 0.028) and this association was more pronounced in patients under the age of 18 y (p = 0.002). These results suggest that both RASSF1A and RASSF2 are novel epigenetically inactivated tumor suppressor genes in Ewing sarcoma and RASSF2 methylation may have prognostic implications for ES patients.
Early assessment of therapy response in non-small cell lung cancer (NSCLC) via longitudinal ctDNA analysis. (2019)

e20701 Background: Quantifying circulating tumor DNA (ctDNA) is an emerging method to non-invasively assess treatment effect for solid tumors. Despite disease heterogeneity in NSCLC, we set out to identify a broadly applicable ctDNA-based method for disease monitoring. By employing plasma taken during early treatment cycles, we tested whether early response assessed by ctDNA level could predict treatment effect. Methods: Using a 197-gene NGS assay, the AVENIO ctDNA Surveillance Kit (For Research Use Only, not for use in diagnostic procedures), we measured ctDNA levels in post-treatment plasma samples based on variants identified at baseline. We used samples from an observational German Lung Cancer Multi-Marker Study. In a cohort of 83 stage IV lung adenocarcinoma treated with first-line chemo or chemoradiation therapies, we evaluated the association between survival and ctDNA levels in the first available post-treatment plasma sample (median number of days after start of treatment = 23). We used a ctDNA-based monitoring algorithm, and applied it to an independent set of 22 late stage lung squamous cell carcinoma (SCC) that also underwent chemo or chemoradiation therapies to further evaluate the algorithm in different histology subtypes. Results: We divided the 83 adenocarcinoma cohort into training (n = 53) and test (n = 30) sets. We found that subjects with longer progression free survival (PFS) had mean allele fraction (AF) &lt; 1% in the training set. We applied the classifier to our validation set and found that subjects with mean AF &lt; 1% had longer PFS (HR 0.35; 95% CI 0.12 - 0.93; log-rank P = 0.028) and overall survival (OS) (HR 0.29; 95% CI 0.09 - 0.89; log-rank P = 0.021). Using cutoffs identified in adenocarcinoma, we applied the same algorithms to the SCC cohort. Subjects with mean AF &lt; 1% had longer PFS (HR 0.26; 95% CI 0.10 - 0.71; log-rank P = 0.005) and OS (HR 0.12; 95% CI 0.05 - 0.51; log-rank P = 0.001). Conclusions: Even in heterogeneous diseases such as NSCLC, changes in ctDNA levels in response to treatment may prove to be a valuable way of identifying subjects who may not benefit, which is earlier than current standard of care methods like computed tomography (CT) scan. Future prospective studies to confirm these results are warranted.
Effects of irradiation of CBA/CA mice on hematopoietic stem cells and stromal cells in long-term bone marrow cultures. (1996)

Following 200 cGy total body irradiation, 20-25% of CBA/Ca mice and their CBA/B and CBA/H sublines develop myeloid leukemia. To determine whether hematologic changes in vitro were detectable, long-term marrow cultures (LTBMCs) were established from the right and left hind limbs of 11 individual control and 11 CBA/B mice 100-114 days after 200 cGy total body irradiation. Individual cultures were studied weekly for cumulative production of nonadherent cells and colony-forming, hematopoietic progenitor cells. Control cultures produced significantly more nonadherent cells over 25 weeks in long-term marrow culture compared to those from irradiated (treated) mice. Permanent stromal cell lines were established from control and irradiated CBA/B mouse LTBMCs and clonal sublines were established. The stromal cell lines from LTBMCs of in vivo irradiated CBA/B mice had uniformly lower plating efficiencies, and only one formed a permanent clonal subline at 100-fold lower frequency compared to stromal cell lines from control mouse LTBMCs. The irradiation sensitivity of both uncloned and clonal sublines was similar by single-hit, multi-hit or by linear quadratic formula. Cocultivation of an IL-3 dependent hematopoietic progenitor cell line established from a control CBA/B, LTBMC with control of irradiated stromal cell lines derived from either a control (CC3) or the one successfully cloned in vivo irradiated (CT4) LTBMC, produced few cobblestone islands in the presence of IL-3. In contrast, formation of cobblestone islands in the presence of L cell-condition medium as a source of M-CSF was significantly greater, and these persisted for 21 days on both CC3 and CT4 stromal lines. The data provide evidence for irradiation induced changes in the bone marrow stromal cell compartment of CBA/B mice which persist and are detectable in vitro 6 months after explant of the cells to culture. These marrow stromal cell lines may provide valuable resources for analyzing the molecular biologic changes in the hematopoietic microenvironment during irradiation leukemogenesis.
DeePM: A Deep Part-Based Model for Object Detection and Semantic Part Localization (2015)

In this paper, we propose a deep part-based model (DeePM) for symbiotic object detection and semantic part localization. For this purpose, we annotate semantic parts for all 20 object categories on the PASCAL VOC 2012 dataset, which provides information on object pose, occlusion, viewpoint and functionality. DeePM is a latent graphical model based on the state-of-the-art R-CNN framework, which learns an explicit representation of the object-part configuration with flexible type sharing (e.g., a sideview horse head can be shared by a fully-visible sideview horse and a highly truncated sideview horse with head and neck only). For comparison, we also present an end-to-end Object-Part (OP) R-CNN which learns an implicit feature representation for jointly mapping an image ROI to the object and part bounding boxes. We evaluate the proposed methods for both the object and part detection performance on PASCAL VOC 2012, and show that DeePM consistently outperforms OP R-CNN in detecting objects and parts. In addition, it obtains superior performance to Fast and Faster R-CNNs in object detection.