gebhart/patrepeval huggingface dataset:
Functional Microbial Changes During Lactate and HRC-Stimulated Bioreduction of Cr(VI) in Hanford 100H Sediments (2003)

Author(s): Hazen, Terry C.; Joyner, Dominique; Borglin, Sharon; Faybishenko, Boris; Conrad, Mark; Rios-Velazques, Carlos; Malave, Josue; Martinez, Ramon E.; Andersen, Gary L.; Firestone, Mary; Brodie, Eoin; Long, Philip E.; Willett, Anna; Koenigsberg, Stephen
Low‐dose total‐body carbon‐ion irradiations induce early transcriptional alteration without late Alzheimer's disease‐like pathogenesis and memory impairment in mice (2014)

The cause and risk factors of Alzheimer's disease (AD) are largely unknown. Studies on possible radiation-induced AD-like pathogenesis and behavioral consequences are important because humans are exposed to ionizing radiation (IR) from various sources. It was reported that total-body irradiations (TBI) at 10 cGy of low linear energy transfer (LET) X-rays to mice triggered acute transcriptional alterations in genes associated with cognitive dysfunctions. However, it was unknown whether low doses of IR could induce AD-like changes late after exposure. We reported previously that 10 cGy X-rays induced early transcriptional response of several AD-related genes in hippocampi without late AD-like pathogenesis and memory impairment in mice. Here, further studies on two low doses (5 or 10 cGy) of high LET carbonion irradiations are reported. On expression of 84 AD-related genes in hippocampi, at 4 hr after TBI, 5 cGy induced a significant upregulation of three genes (Abca1, Casp3, and Chat) and 10 cGy led to a marked upregulation of one gene (Chat) and a downregulation of three genes (Apoe, Ctsd, and Il1α), and, at 1 year after TBI, one gene (Il1α) was significantly downregulated in 10 cGy-irradiated animals. Changes in spatial learning ability and memory and induction of AD-like pathogenesis were not detected by in vivo brain imaging for amyloid-β peptide accumulation and by immunohistochemical staining of amyloid precursor protein, amyloid-β protein, tau, and phosphorylated tau protein. These findings indicate that low doses of carbon-ion irradiations did not cause behavioral impairment or AD-like pathological change in mice.
Token TV: Sharing Preferences for Television DVR Recording (2001)

This paper discusses an application of existing technology combined in a new way that could be implemented at Microsoft and enhance .NET functionality to broadcast television. The fundamental issue that we wish to discuss is how to fashion the appropriate business strategy to best apply this technology towards enhancing Microsoft’s television platforms.
Search for pair production of heavy vectorlike quarks decaying into hadronic final states in pp collisions at s=13  TeV with the ATLAS detector (2018)

with the ATLAS detector
Peripheral nerve resident macrophages are microglia-like cells with tissue-specific programming (2019)

Summary Whereas microglia are recognized as fundamental players in central nervous system (CNS) development and function, much less is known about macrophages of the peripheral nervous system (PNS). Here we show that self-maintaining PNS macrophages share unique features with CNS microglia. By comparing gene expression across neural and conventional tissue-resident macrophages, we identified transcripts that were shared among neural resident macrophages as well as selectively enriched in PNS macrophages. Remarkably, PNS macrophages constitutively expressed genes previously identified to be upregulated by activated microglia during aging or neurodegeneration. Several microglial activation-associated and PNS macrophage-enriched genes were also expressed in spinal cord microglia at steady state. While PNS macrophages arose from both embryonic and hematopoietic precursors, their expression of activation-associated genes did not differ by ontogeny. Collectively, these data uncover shared and unique features between neural resident macrophages and emphasize the role of nerve environment for shaping PNS macrophage identity.
A new multitask learning method for multiorganism gene network estimation (2008)

A new method for multitask learning in a Bayesian network context is presented for multiorganism gene network estimation. When the input datasets are sparse, as is the case in microarray gene expression data, it becomes difficult to separate random correlations from actual edges in the true underlying Bayesian network. Multitask learning takes advantage of the similarity between related tasks, in order to construct a more accurate model of the underlying relationships represented by the Bayesian networks. The proposed method is tested on synthetic data to illustrate its validity. Then it is iteratively applied on real gene expression data to learn the genetic regulatory networks of two organisms with homologous genes (human and yeast).
Route-vehicle road load management and/or operator notification thereof (2023)

A vehicle may include a controller configured to control the vehicle to operate in an active control mode or a passive control mode. In the passive control mode, the controller may provide a feedback indicator on a human machine interface. In the active control mode, the controller may provide a control command to an engine control unit.
Cerebral: a Cytoscape plugin for layout of and interaction with biological networks using subcellular localization annotation (2007)

http://www.pathogenomics.ca/cerebral
Authenticated Encryption with AES-CBC and HMAC-SHA (2014)

This document specifies algorithms for authenticated encryption with
associated data (AEAD) that are based on the composition of the
Advanced Encryption Standard (AES) in the Cipher Block Chaining (CBC)
mode of operation for encryption, and the HMAC-SHA message
authentication code (MAC). These are randomized encryption
algorithms, and thus are suitable for use with applications that
cannot provide distinct nonces to each invocation of the AEAD encrypt
operation.
Polarisation independent devices in small SOI waveguides (2005)

In silicon photonics, there is a trend to smaller device dimensions. This means that polarisation independent devices become more difficult to design and fabricate whilst maintaining monomode behaviour. By way of example we discuss a polarisation independent ring resonator.
Formation of (Functionalized) Monolayers and Simultaneous Surface Patterning by Scribing Silicon in the Presence of Alkyl Halides (2001)

Alkyl monolayers on silicon are prepared by scribing silicon while it is wet with 1-chloro-, 1-bromo-, and 1-iodoalkanes. The results suggest halogen radical abstraction from 1-haloalkanes and subsequent reaction of alkyl radicals with silicon. Functionalized (bromine-terminated) monolayers are prepared using Br(CH2)4Br. Scribing in the presence and absence of oxygen suggests that oxygen competes with alkyl halides for surface sites.
Improved potential representations in the discrete-variational local-exchange method: the electronic structures of benzene and p-xylene (1984)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTImproved potential representations in the discrete-variational local-exchange method: the electronic structures of benzene and p-xyleneK. A. Doris, B. Delley, M. A. Ratner, T. J. Marks, and D. E. EllisCite this: J. Phys. Chem. 1984, 88, 14, 3157–3159Publication Date (Print):July 1, 1984Publication History Published online1 May 2002Published inissue 1 July 1984https://pubs.acs.org/doi/10.1021/j150658a049https://doi.org/10.1021/j150658a049research-articleACS PublicationsRequest reuse permissionsArticle Views31Altmetric-Citations12LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access options Get e-Alerts
Role of CEACAM1, ECM, and Mesenchymal Stem Cells in an Orthotopic Model of Human Breast Cancer (2010)

Carcinoembryonic antigen-related cell adhesion molecule-1 (CEACAM1) is a morphogen in an in vitro model for lumen formation and plays a similar role in breast epithelial cells implanted in humanized mammary fat pads in NOD-SCID mice. Although extra cellular matrix alone is sufficient to stimulate lumen formation in CEACAM1 transfected MCF-7 cells grown in 3D culture, there is an additional requirement for stromal or mesenchymal cells (MSCs) for these cells to form xenografts with glandular structures in an orthotopic site. We demonstrate that optimal in vitro conditions include both Matrigel and MSCs and that the inclusion of collagen I inhibits xenograft differentiation. Additionally, there is no need to remove the nascent murine mammary gland. The previously observed difference in gland development between the long and short cytoplasmic domain isoforms of CEACAM1 is no longer observed in pregnant NOD/SCID mice suggesting that stimulation of the mammary fat pad by pregnancy critically affects xenograft differentiation.
Design and Experimental Analysis of 166 kW Medium-Voltage Medium-Frequency Air-Core Transformer for 1:1-DCX Applications (2021)

The galvanic isolation of solid-state transformers (SSTs) is typically realized with a medium-frequency (MF) magnetic-core transformer (MCT). Previous demonstrations indicate that achieving highly power-dense and lightweight MCTs imposes several challenges on the design because of stringent requirements related to insulation and cooling. This work investigates the achievable efficiency of an optimized 166 kW/7 kV air-core transformer (ACT), which is a core part of a dc transformer (DCX), i.e., an unregulated dc–dc SST with a voltage scaling defined by the transformer turns ratio. The ACT features relatively low complexity of the construction, comparably high coupling values, and high efficiency. Modeling, optimization, and construction of the realized ACT are explained and guidelines regarding insulation, cooling, and shielding of the magnetic stray flux are discussed in detail. Furthermore, the prototype is experimentally validated to demonstrate its full functionality. In the investigated DCX, which is based on a series resonant converter (SRC) topology, the realized ACT is found to achieve a full-load efficiency of 99.5% and an unprecedented gravimetric power density of 16.5 kW/kg. With the use of 10 kV SiC MOSFETs, the complete DCX is estimated to reach an efficiency of 99% at 166 kW output power.
4D cell biology: big data image analytics and lattice light-sheet imaging reveal dynamics of clathrin-mediated endocytosis in stem cell–derived intestinal organoids (2018)

New methods in stem cell 3D organoid tissue culture, advanced imaging, and big data image analytics now allow tissue-scale 4D cell biology, but currently available analytical pipelines are inadequate for handing and analyzing the resulting gigabytes and terabytes of high-content imaging data. We expressed fluorescent protein fusions of clathrin and dynamin2 at endogenous levels in genome-edited human embryonic stem cells, which were differentiated into hESC-derived intestinal epithelial organoids. Lattice light-sheet imaging with adaptive optics (AO-LLSM) allowed us to image large volumes of these organoids (70 × 60 × 40 µm xyz) at 5.7 s/frame. We developed an open-source data analysis package termed pyLattice to process the resulting large (∼60 Gb) movie data sets and to track clathrin-mediated endocytosis (CME) events. CME tracks could be recorded from ∼35 cells at a time, resulting in ∼4000 processed tracks per movie. On the basis of their localization in the organoid, we classified CME tracks into apical, lateral, and basal events and found that CME dynamics is similar for all three classes, despite reported differences in membrane tension. pyLattice coupled with AO-LLSM makes possible quantitative high temporal and spatial resolution analysis of subcellular events within tissues.
Cytomorphology of a mixed pigmented/nonpigmented pleomorphic adenoma of the ciliary body: A diagnostic pitfall in the evaluation of intraocular tumors (1996)

Intraoperative cytology is an alternative and sometimes preferred method to frozen section in the rapid evaluation of surgical biopsies. This report describes the cytological, histological, and immunohistochemical features of a case of mixed pigmented/nonpigmented pleomorphic adenoma of the ciliary body with clinical and morphological features reminiscent of malignant melanoma. The characteristic cyto-histomorphology of this unusual tumor and its distinguishing features from malignant melanoma are discussed.
Age‐related differences in susceptibility to cisplatin‐induced renal toxicity (2009)

Limited experimental models exist to assess drug toxicity in pediatric populations. We recently reported how a multi-age rat model could be used for pre-clinical studies of comparative drug toxicity in pediatric populations. The objective of this study was to expand the utility of this animal model, which previously demonstrated an age-dependent sensitivity to the classic nephrotoxic compound, gentamicin, to another nephrotoxicant, namely cisplatin (Cis). Sprague-Dawley rats (10, 25, 40 and 80 days old) were injected with a single dose of Cis (0, 1, 3 or 6 mg kg(-1) i.p.). Urine samples were collected prior and up to 72 h after treatment in animals that were >or= 25 days old. Several serum, urinary and 'omic' injury biomarkers as well as renal histopathology lesions were evaluated. Statistically significant changes were noted with different injury biomarkers in different age groups. The order of age-related Cis-induced nephrotoxicity was different than our previous study with gentamicin: 80 > 40 > 10 > 25 day-old vs 10 >or= 80 > 40 > 25-day-old rats, respectively. The increased levels of kidney injury molecule-1 (Kim-1: urinary protein/tissue mRNA) provided evidence of early Cis-induced nephrotoxicity in the most sensitive age group (80 days old). Levels of Kim-1 tissue mRNA and urinary protein were significantly correlated to each other and to the severity of renal histopathology lesions. These data indicate that the multi-age rat model can be used to demonstrate different age-related sensitivities to renal injury using mechanistically distinct nephrotoxicants, which is reflected in measurements of a variety of metabolite, gene transcript and protein biomarkers.
Advanced simulation technology and its application in memory design and verification (2005)

The simulation of memory circuits has been a challenge for analog simulators due to the requirement of handling high capacity and providing SPICE-like accuracy at the same time. New hierarchical isomorphic simulation technology was developed enabling the accurate simulation of nearly unlimited memory designs without performance penalty. The main technology concept is the compression of memory and computation for isomorphic subcircuits, which eliminates the need for cutting down designs to fit them into conventional simulation tools. With the arrival of nanometer technology the analysis of parasitic effects has become critical in verifying design functionality, timings, and power. This requires simulation tools not only to handle very large memories but also to analyze the effect of hundreds of million of parasitic elements. Several postlayout simulation flows are discussed and state-of-the-art RC reduction technology is introduced.
Impulse sensitivity function analysis of periodic circuits (2008)

This paper describes an efficient method to characterize the impulse sensitivity function (ISF) of a periodic circuit via periodic AC (PAC) analysis. The paper extends the application of ISF from oscillators to other periodic circuits including flip-flops, latches, clocked comparators, and regenerative amplifiers, in order to characterize their important characteristics such as set-up and hold times, regeneration gain, metastability probability, and sampling aperture/bandwidth. Recognizing that the generalized ISF is a subset of a time-varying impulse response, the ISF is efficiently computed based on periodic time-varying system analysis techniques. Compared to the previous ISF characterization method based on transient simulations, a speed-up of ~5times is achieved.
Electrical Conductivity and Thermoelectric Power of La2NiO4+δ (2011)

The electrical conductivity, Seebeck coefficient, and thermal chemical expansion properties of La2NiO4+δ were measured as a function of temperature and oxygen partial pressure (pO2). The electronic conductivity was analyzed in relation to the thermoelectric power (thermopower) data to elucidate the positive deviation of the activity coefficient of hole on the basis of the delocalized electron model by using the Joyce-Dixon approximation of the Fermi-Dirac integral from the partition function in the quasi-free-particle approximation with the regular solution model. The electrical conductivity and thermopower vs oxygen activity were all explained consistently in the logical frame of the degenerate p-type conductor across the entire experimental range investigated. Like other K2NiF4–type oxides, the chemical diffusion coefficient was slightly higher than the surface exchange coefficient, suggesting the need for further work to enhance the sluggish surface exchange kinetics of oxygen. The best-estimated mobility values were in reasonable agreement with the reported values and the very weak temperature dependence of hole mobility suggested a band conduction.
Resolving distributed deadlocks in the OR request model (2003)

In this work a new distributed deadlock resolution algorithm for the OR model is proposed. The algorithm verifies the correctness criteria: safety-false deadlocks are not resolved; and liveness-deadlocks are resolved in finite time.
Designer-Driven Topology Optimization for Pipelined Analog to Digital Converters (2005)

The paper suggests a practical "hybrid" synthesis methodology which integrates designer-derived analytical models for system-level description with simulation-based models at the circuit level. We show how to optimize stage-resolution to minimize the power in a pipelined ADC. Exploration (via detailed synthesis) of several ADC configurations is used to show that a 4-3-2... resolution distribution uses the least power for a 13-bit 40 MSPS converter in a 0.25 /spl mu/m CMOS process.
Preclinical Characterization of 5-Amino-4-Oxo-[6-11C]Hexanoic Acid as an Imaging Probe to Estimate Protoporphyrin IX Accumulation Induced by Exogenous Aminolevulinic Acid (2014)

(11)C-MALA PET has the potential to noninvasively estimate the quantitative and spatial accumulation of exogenous ALA-induced PpIX.
Reversing the selectivity of cyclodextrin bisimidazole ribonuclease mimics by changing the catalyst geometry (1980)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTReversing the selectivity of cyclodextrin bisimidazole ribonuclease mimics by changing the catalyst geometryRonald Breslow, Philippe Bovy, and Carol Lipsey HershCite this: J. Am. Chem. Soc. 1980, 102, 6, 2115–2117Publication Date (Print):March 1, 1980Publication History Published online1 May 2002Published inissue 1 March 1980https://pubs.acs.org/doi/10.1021/ja00526a072https://doi.org/10.1021/ja00526a072research-articleACS PublicationsRequest reuse permissionsArticle Views297Altmetric-Citations92LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Low-complexity Multicast Beamforming for Multi-stream Multi-group Communications (2021)

In this paper, assuming multi-antenna transmitter and receivers, we consider a multicast beamformer design for the weighted max-min-fairness (WMMF) problem in a multi-stream multi-group communication setup. Unlike the single-stream scenario, the WMMF objective in this setup is not equivalent to maximizing the minimum weighted SINR due to the summation over the rates of multiple streams. Therefore, the non-convex problem at hand is first approximated with a convex one and then solved using Karush-Kuhn-Tucker (KKT) conditions. Then, a practically appealing closed-form solution is derived for both transmit and receive beamformers as a function of dual variables. Finally, we use an iterative solution based on the sub-gradient method to solve for the mutually coupled and interdependent dual variables. The proposed solution does not rely on generic solvers and does not require any bisection loop for finding the achievable rate of various streams. As a result, it significantly outperforms the state-of-art in terms of computational cost and convergence speed.
Transitions Between Circulatory States After Out-of-Hospital Cardiac Arrest: Protocol for an Observational, Prospective Cohort Study (2018)

ClinicalTrials.gov: NCT02648061; https://clinicaltrials.gov/ct2/show/NCT02648061 (Archived by WebCite at http://www.webcitation.org/6wVASuOla).
3D Packaging for Heterogeneous Integration (2022)

The next generation of competitive integrated high-performance devices demand increased device density, higher memory bandwidth, reduced global interconnects, increased energy efficiency, and a smaller footprint. Chiplet architecture is now recognized as fundamental to enabling the continued economically viable growth of power efficient computing given the slowdown in Moore’s Law. Advanced packaging technologies and architectures are becoming more critical to enabling the next frontier through heterogeneous integration. In this paper, we will cover the advanced package architectures being enabled by AMD to provide power, performance, area, and cost (PPAC) improvements as well as to enable heterogeneous architectures. The direct Cu-Cu bonding technology used in AMD 3D V-Cache architecture is detailed and package level results are presented.