gebhart/patrepeval huggingface dataset:
Sex-Differential Non-Vaccine-Specific Immunological Effects of Diphtheria-Tetanus-Pertussis and Measles Vaccination (2016)

Vaccines can have nontargeted heterologous effects that manifest as increased protection against nonvaccine infections, as described for measles vaccine (MV), or increased susceptibility to infections and death, as described following diphtheria-tetanus-whole cell pertussis (DTP) vaccination. The mechanisms are unknown, and high-quality immunological studies are lacking. This study was designed to investigate the heterologous effects of MV and DTP in 302 Gambian infants. The results support a sex-differential immunosuppressive effect of DTP on innate proinflammatory responses and T-cell immunity. Males but not females receiving MV had enhanced proinflammatory innate responses. The results point to modified signaling via Toll-like receptor 4 (TLR4) as a possible mechanism for the effects on innate immunity. When both vaccines were administered together, purified protein derivative responses were enhanced in females but downregulated in males. Collectively, these data indicate immunological effects that could account for heterologous effects of MV and DTP, to take forward into prospective trials.
Differential up-regulation of circulating soluble and endothelial cell intercellular adhesion molecule-1 in mice. (1997)

Although circulating levels of soluble intercellular adhesion molecule-1 (sICAM-1) are frequently used as an indicator of the severity of different immune, inflammatory, or neoplastic diseases, little is known about the factors that govern plasma sICAM-1 concentration and its relationship to the membranous form of ICAM-1 (mICAM-1) expressed on vascular endothelial cells. Plasma sICAM-1 concentration (measured by enzyme-linked immunosorbent assay) and mICAM-1 expression (measured using the dual radiolabeled monoclonal antibody technique) in different vascular beds (eg, lung, small intestine, and spleen) were monitored in wild-type (C57BL) and ICAM-1-deficient mice, before and after administration of tumor necrosis factor (TNF)-alpha. In wild-type mice, TNF-alpha elicited time-dependent increases in lung and intestine mICAM-1 (plateau achieved at 12 hours), with a corresponding increase in plasma sICAM-1 (peaked at 5 hours and then declined). The initial increases in mICAM-1 and pulmonary leukocyte sequestration (measured as lung myeloperoxidase activity) induced by TNF-alpha preceded any detectable elevation in sICAM-1. In ICAM-1-deficient mice, plasma sICAM-1 was reduced by approximately 70%, with > 95% reductions of mICAM-1 in lung and intestine, and > 75% reduction in splenic accumulation of anti-ICAM-1 antibody. Although TNF-alpha doubled plasma sICAM-1 in ICAM-1-deficient mice, mICAM-1 was unaffected in all tissues. Either splenectomy or pretreatment with cycloheximide resulted in an attenuated TNF-induced increase in sICAM-1, without affecting mICAM-1 expression. These findings indicate that plasma sICAM-1 concentration does not accurately reflect the level of ICAM-1 expression on endothelial cells in different vascular beds.
CD3-induced preferential hydrolysis of polyphosphoinositides and calcium regulation of inositol phosphate metabolism in a permeabilized murine T cell clone. (1993)

Murine T helper cloned cells permeabilized with the bacterial lysin, tetanolysin, were used to investigate the role of intracellular Ca2+ in regulating myo-[2-3H] inositol phospholipid (InsPL) hydrolysis triggered upon perturbation of the T cell receptor-CD3 complex. [Ca2+] was controlled by a calcium/magnesium/EGTA buffer. Antibody (mAb) aggregation of CD3 induced InsPL hydrolysis in the absence of added Ca2+. However, stimulated InsPL hydrolysis increased with the free [Ca2+], reaching a maximum at 100-300 nM [Ca2+]. Ca2+ increased the overall efficiency of hydrolysis without changes in EC50 of the anti-CD3 mAb. The response diminished at > 300 nM [Ca2+] due to a mixed type inhibition. Ca2+ alone had no effect on inositol phosphate levels. Polyphosphoinositides were preferentially cleaved, since no accumulation of Ins(1)P/Ins(3)P was detected, indicating that direct hydrolysis of phosphatidylinositol did not occur, irrespective of the Ca2+ concentration. [Ca2+] above 300 nM shifted the relative amounts of CD3-induced inositol 1,4,5-trisphosphate (Ins(1,4,5)P3) and inositol 1,3,4,5-tetrakisphosphate (Ins(1,3,4,5)P4) in favor of the latter. Unlabeled permeabilized cells exposed to > or = 100 nM [Ca2+] showed enhanced conversion of [3H]Ins(1,4,5)P3 to [3H]Ins(1,3,4,5)P4. In conclusion, InsPL hydrolysis is optimally triggered by CD3 perturbation at intracellular Ca2+ levels approximating those observed in intact resting lymphocytes (100 nM). Ca2+ concentrations similar to those triggered by InsPL-derived metabolites may inhibit InsPL hydrolysis and promote Ins(1,3,4,5)P4 production, thus controlling the amounts of Ins(1,4,5)P3.
Anticlastic bending of rectangular plates and inference of Poisson’s ratio (2016)

Elastic plates will exhibit anticlastic behavior due to the Poisson effect. This effect is often overlooked in the analysis of rectangular plates. However, the effect can be substantial for when the boundary conditions are free, causing nodal lines of certain mode shapes to be curved rather than straight. A rectangular plate finite element model comprised of quadratic solid elements was exercised to determine the dependency of the anticlastic bending on plate thickness, aspect ratio, and elastic modulus. A metric to quantify anticlastic behavior was then developed for both bending modes and axial modes. Finally, experimentally obtained mode shapes were used to infer the Poisson’s ratio of a rectangular section of hard foam using the derived dependencies.
Absorption and scattering limits of integrated photonics in the visible spectrum (2023)

Visible-light photonic integrated circuits (PICs) promise scalability for technologies such as quantum information, biosensing, and scanning displays, yet extending large-scale silicon photonics to shorter wavelengths has been challenging due to the higher losses. Silicon nitride (SiN) has stood out as the leading platform for visible photonics, but the propagation losses strongly dependent on the film's deposition and fabrication processes. Current loss measurement techniques cannot accurately distinguish between absorption and surface scattering, making it difficult to identify the dominant loss source and reach the platform's fundamental limit. Here we demonstrate an ultra-low loss, high-confinement SiN platform that approaches the limits of absorption and scattering across the visible spectrum. Leveraging the sensitivity of microresonators to loss, we probe and discriminate each loss contribution with unparalleled sensitivity, and derive their fundamental limits and scaling laws as a function of wavelength, film properties and waveguide parameters. Through the design of the waveguide cross-section, we show how to approach the absorption limit of the platform, and demonstrate the lowest propagation losses in high-confinement SiN to date across the visible spectrum. We envision that our techniques for loss characterization and minimization will contribute for the development of large-scale PICs that redefine the loss limits of integrated platforms across the electromagnetic spectrum.
Structure and motion from scene registration (2012)

We propose a method for estimating the 3D structure and the dense 3D motion (scene flow) of a dynamic nonrigid 3D scene, using a camera array. The core idea is to use a dense multi-camera array to construct a novel, dense 3D volumetric representation of the 3D space where each voxel holds an estimated intensity value and a confidence measure of this value. The problem of 3D structure and 3D motion estimation of a scene is thus reduced to a nonrigid registration of two volumes - hence the term ”Scene Registration”. Registering two dense 3D scalar volumes does not require recovering the 3D structure of the scene as a preprocessing step, nor does it require explicit reasoning about occlusions. From this nonrigid registration we accurately extract the 3D scene flow and the 3D structure of the scene, and successfully recover the sharp discontinuities in both time and space. We demonstrate the advantages of our method on a number of challenging synthetic and real data sets.
TIP-TILTMIRROR CONTROL BASEDON FPGAFORAN ADAPTIVEOPTICSSYSTEM (2007)

themostlogical solution. However, whenheavydata Thispaper describes thedevelopment ofthetip-tilt mirror processing isneeded, somedoubts arise about theFPGAs control foranadaptive optics system basedontheuseof capabilities. Ourexperience isthat forapplications suchas FPGAtechnology instead ofusing thetraditional approach adaptive optics, wherealotofparallel processing isneeded, withDSPormicroprocessor. theuseofFPGAsbecomes averyattractive alternative, Theaimofthis workistoshowthat forthis kindof capable ofcarrying outalltheprocessing andeven application theFPGA technology isnotonlya viable outperforming theDSPbehavior whentheamountofdata solution butprobably also thebestoneinsomesituations, increases inanimportant way.TheFPGAsallowusto especially whenahugeamountofparallel data processingreach thebest trade-off foraparticular application between isneeded. Thiswill probably bethecaseofadaptive optics moreparallel processing andchiparea, i.e., wecanincrease systemsfor verylarge telescopes (1). thelevel ofparallelism attheexpense ofmoreFPGA A brief description ofthewholeadaptive optics system resources. will begiven although thepaper will focus especially onthe Oneofthedrawbacks argued bysomepeople against tip-tilt mirror control anditsimplementation withFPGAs. theuseofFPGAsinsystems suchasadaptive optics istheir A newversion ofthedeformable mirror control isalso difficulty toperform floating point operations. Inourcase being implemented inFPGAsandwill befinished inthe thatdidnotposeanyproblem atall. Justbyusingmore nearfuture. precision withinteger arithmetic we solved theproblem (with little areaincrease penalty). Theuseofspecial VHDL coresdesigned toworkwithallthefloating point
The preparation of a cardiac plasma-membrane fraction containing intercalated discs (1980)

Conference Article| June 01 1980 The preparation of a cardiac plasma-membrane fraction containing intercalated discs CAMILO A. L. S. COLACO; CAMILO A. L. S. COLACO 1National Institute for Medical Research, Mill Hill, London NW7 1AA, U.K. Search for other works by this author on: This Site PubMed Google Scholar W. HOWARD EVANS W. HOWARD EVANS 1National Institute for Medical Research, Mill Hill, London NW7 1AA, U.K. Search for other works by this author on: This Site PubMed Google Scholar Biochem Soc Trans (1980) 8 (3): 328. https://doi.org/10.1042/bst0080328 Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Twitter LinkedIn Cite Icon Cite Get Permissions Citation CAMILO A. L. S. COLACO, W. HOWARD EVANS; The preparation of a cardiac plasma-membrane fraction containing intercalated discs. Biochem Soc Trans 1 June 1980; 8 (3): 328. doi: https://doi.org/10.1042/bst0080328 Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search nav search search input Search input auto suggest search filter All ContentAll JournalsBiochemical Society Transactions Search Advanced Search This content is only available as a PDF. © 1980 Biochemical Society1980 Article PDF first page preview Close Modal You do not currently have access to this content.
An H.264/AVC High422 Profile and MPEG-2 422 Profile Encoder LSI for HDTV Broadcasting Infrastructures (2012)

An H.264/AVC encoder LSI (named “SARA”) that supports High422 profile, as well as 422 profile of MPEG-2, has been developed for HDTV broadcasting infrastructures. It contains three motion estimation and compensation (ME/MC) engines with wide search ranges of -217.75 to +199.75 horizontally, -109.75 to +145.75 vertically, which can utilize almost all H.264/AVC ME/MC coding tools, such as multiple reference frame, variable block size, quarter-pel prediction, macroblock adaptive field/frame prediction (MBAFF), spatial/temporal direct mode, and weighted prediction. Our evaluations show that it can encode fast moving scenes with 1.2dB to 1.7dB higher than the JM. It was successfully fabricated in a 90-nm technology, and integrates 140 million transistors.
Supplementary Figure from Changes in Bone Marrow Tumor and Immune Cells Correlate with Durability of Remissions Following BCMA CAR T Therapy in Myeloma (2023)

Supplementary Figure from Changes in Bone Marrow Tumor and Immune Cells Correlate with Durability of Remissions Following BCMA CAR T Therapy in Myeloma
Increased Expression and Modulated Regulatory Activity of Coinhibitory Receptors PD‐1, TIGIT, and TIM‐3 in Lymphocytes From Patients With Systemic Sclerosis (2017)

The altered expression and regulatory capacity of co-IRs in SSc lymphocytes may contribute to disease pathophysiology by modulating the cytokine-mediated cross-talk of immune cells and fibroblasts at sites of inflammation and/or fibrosis.
Distributed Stochastic Optimization of Network Function Virtualization (2017)

Decoupling network services from underlying hardware, network function virtualization (NFV) is expected to significantly improve agility and reduce network cost. However, network services, sequences of network functions, need to be processed in specific orders at specific types of virtual machines (VMs), which couples decisions of VMs on processing or routing network services. Built on a new stochastic dual gradient method, our approach suppresses the couplings, minimizes the time-average cost of NFV, stabilizes queues at VMs, and reduces the backlogs of unprocessed services through online learning and adaptation. Asymptotically optimal decisions are instantly generated at individual VMs, with a cost-delay tradeoff [ε,log <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> (ε)/√ε]. Numerical results show that the proposed method is able to reduce the time-average cost of NFV by 30% and reduce the queue length (or delay) by 83%, as compared to existing non-stochastic approaches.
Genomic Analysis in Candida albicans (2003)

With the recent advances in DNA sequencing technology, a succession of entire genome sequences have been published. A number of genome projects are underway in pathogenic fungi. From these, we present the history and current status of the genomic analysis of Candida albicans. The sequencing project for this organism has been undertaken at Stanford University, and is now nearing the end.
Evaluation of a gene expression biomarker to identify operationally tolerant liver transplant recipients: the LITMUS trial (2021)

LITMUS was a single-centre, Phase 2a study designed to investigate whether the gene biomarker FGL2/IFNG previously reported for the identification of tolerance in murine models could identify operationally tolerant liver transplant recipients. Multiplex RT-PCR was used to amplify eight immunoregulatory genes in peripheral blood mononuclear cells (PBMC) from 69 adult liver transplant recipients. Patients with PBMC FGL2/IFNG ≥ 1 and a normal liver biopsy underwent immunosuppression (IS) withdrawal. The primary end point was the development of operational tolerance. Secondary end points included correlation of tolerance with allograft gene expression and immune cell markers. Twenty-eight of 69 patients (38%) were positive for the PBMC tolerance biomarker and 23 proceeded to IS withdrawal. Nine of the 23 patients had abnormal baseline liver biopsies and were excluded. Of the 14 patients with normal biopsies, eight (57%) have achieved operational tolerance and are off IS (range 12-57 months). Additional studies revealed that all of the tolerant patients and only one non-tolerant patient had a liver gene ratio of FOXP3/IFNG ≥ 1 prior to IS withdrawal. Increased CD4+ T regulatory T cells were detected both in PBMC and livers of tolerant patients following IS withdrawal. Higher expression of SELE (gene for E-selectin) and lower expression of genes associated with inflammatory responses (GZMB, CIITA, UBD, LSP1, and CXCL9) were observed in the pre-withdrawal liver biopsies of tolerant patients by RNA sequencing. These results suggest that measurement of PBMC FGL2/IFNG may enrich for the identification of operationally tolerant liver transplant patients, especially when combined with intragraft measurement of FOXP3/IFNG. Clinical Trial Registration: ClinicalTrials.gov (LITMUS: NCT02541916).
The Shared Mobile Atmospheric Research and Teaching Radar: A Collaboration to Enhance Research and Teaching (2005)

A group of scientists from three universities across two different states and from one federal research laboratory joined together to build and deploy two mobile C-band Doppler weather radars to enhance research and promote meteorological education. This 5-yr project led to the development of the Shared Mobile Atmospheric Research and Teaching (SMART) radar coalition that built the first mobile C-band Doppler weather radar in the United States and also successfully deployed the first mobile C-band dual-Doppler network in a landfalling hurricane. This accomplishment marked the beginning of an era in which high temporal and spatial resolution precipitation and dual-Doppler wind data over mesoscale (~100 km) regions can be acquired from mobile ground-based platforms during extreme heavy rain and high-wind events. In this paper, we discuss the rationale for building the mobile observing systems, highlight some of the challenges that were encountered in creating a unique multiagency coalition, provide examples of how the SMART radars have contributed to research and education, and discuss future plans for continued development and management of the radar facility, including how others may use the radars for their own research and teaching programs. The capability of the SMART radars to measure winds in nonprecipitating environments, to capture rapidly evolving, short-lived, small-scale tornadic circulations, and to sample mesoscale regions with high spatial resolution over broad regions of heavy rainfall is demonstrated. Repeated successful intercepts provide evidence that these radars are capable of being used to study a wide range of atmospheric phenomena.
High‐Q RF inductors on 20 Ω.cm silicon realized through wafer‐level packaging techniques (2003)

High Q on‐chip inductors and low loss on‐chip interconnects and transmission lines are an important roadblock for the further development of Si‐based technologies at RF and microwave frequencies. In this paper, inductors are realized on standard Si wafers (20 Ω.cm) using MCM‐D processing. This consists of realizing two low K dielectric layers (BCB) and a thick Cu interconnect layer. Inductors with 5 μ m lines and spaces are demonstrated for a 5 μ m thick Cu layer, hereby leading to a very compact and high performance inductors: Q ‐factors in the range of 25 to 30 have been obtained for inductances in the range of 1 to 5 nH. It is also shown how the Q ‐factor and resonance frequency vary as a function of the inductor layout parameters and the thickness of the BCB and Cu layers. The realized 50 Ω CPW lines (lateral dimension of 40 μ m) have a measured loss of only 0.2 dB/mm at 25 GHz.
Lightweight Industrial CMP Profile (2019)

The goal of this document is to facilitate interoperability and
automation by profiling the Certificate Management Protocol (CMP)
[RFC4210] and the related Certificate Request Message Format (CRMF)
[RFC4211]. It specifies a subset of CMP and CRMF focusing on typical
uses cases relevant for managing certificates of devices in industrial
and IoT scenarios. To limit the overhead of certificate management for
constrained devices only the most crucial types of transactions are
specified as mandatory. To foster interoperability also in more
complex scenarios, other types of transactions are specified as
recommended or optional.
Investigating the effectiveness of many-core network processors for high performance cyber protection systems. Part I, FY2011. (2011)

This report documents our first year efforts to address the use of many-core processors for high performance cyber protection. As the demands grow for higher bandwidth (beyond 1 Gbits/sec) on network connections, the need to provide faster and more efficient solution to cyber security grows. Fortunately, in recent years, the development of many-core network processors have seen increased interest. Prior working experiences with many-core processors have led us to investigate its effectiveness for cyber protection tools, with particular emphasis on high performance firewalls. Although advanced algorithms for smarter cyber protection of high-speed network traffic are being developed, these advanced analysis techniques require significantly more computational capabilities than static techniques. Moreover, many locations where cyber protections are deployed have limited power, space and cooling resources. This makes the use of traditionally large computing systems impractical for the front-end systems that process large network streams; hence, the drive for this study which could potentially yield a highly reconfigurable and rapidly scalable solution.
Closing the loop in primate prefrontal cortex: inter-laminar processing (2012)

Prefrontal cortical (PFC) activity in the primate brain emerging from minicolumnar microcircuits plays a critical role in cognitive processes dealing with executive control of behavior. However, the specific operations of columnar laminar processing in prefrontal cortex (PFC) are not completely understood. Here we show via implementation of unique microanatomical recording and stimulating arrays, that minicolumns in PFC are involved in the executive control of behavior in rhesus macaque nonhuman primates (NHPs) performing a delayed-match-to-sample (DMS) task. PFC neurons demonstrate functional interactions between pairs of putative pyramidal cells within specified cortical layers via anatomically oriented minicolumns. Results reveal target-specific, spatially tuned firing between inter-laminar (layer 2/3 and layer 5) pairs of neurons participating in the gating of information during the decision making phase of the task with differential correlations between activity in layer 2/3 and layer 5 in the integration of spatial vs. object-specific information for correct task performance. Such inter-laminar processing was exploited by the interfacing of an online model which delivered stimulation to layer 5 locations in a pattern associated with successful performance thereby closing the columnar loop externally in a manner that mimicked normal processing in the same task. These unique technologies demonstrate that PFC neurons encode and process information via minicolumns which provides a closed loop form of "executive function," hence disruption of such inter-laminar processing could form the bases for cognitive dysfunction in primate brain.
Differentiation of Focal Liver Lesions: Usefulness of Parametric Imaging with Contrast-enhanced US (2011)

Parametric imaging of DVP improves diagnostic performance of contrast-enhanced US in the differentiation between malignant and benign FLLs; it also provides excellent interobserver agreement.
Joint Power-Error Control Schemes for Time-varying Wireless channels (2006)

We investigate efficient power allocation schemes for retransmission protocols over wireless fading channels. In prior work, we considered this problem for i.i.d. fading with known channel statistics. Here, we consider models for channels with memory and adaptive power control algorithms for channels with unknown statistics. In the case of channels with memory we consider simplified power policies for Go-back-N protocols via Markovian modeling, which take into account the underlying window dynamics. These policies are observed to perform close to a more complicated dynamic programming (DP) solution. We then give an adaptive power control algorithm for protocols in which window dynamics can be ignored. The protocol is based on Lyapunov drift analysis and is shown to approach that of an optimal policy.