gebhart/patrepeval huggingface dataset:
Is interconnect the weak link? (1998)

Based upon Rent's rule, a new complete stochastic wiring distribution was rigorously derived that determines wire-length frequency for a homogeneous array of random logic gates and enables a priori estimation of the wiring requirements for future GSI systems. Unlike previous distributions that describe only local interconnect requirements, the new distribution provides a complete description of local, semi-global, and global wiring requirements, The new wire-length distribution and wire-net distribution was verified through comparisons to actual data from real systems, and a methodology to calculate the wire-length distribution for future GSI products was proposed, This new wiring length distribution is also used to determine optimal interconnect scaling in a three-tier multilevel network that minimizes chip size or maximizes clock frequency.
Optical receiver design trade-offs (2003)

We review performance measures and design trade-offs for optical receivers, involving the optimization of filter shapes and bandwidths. We highlight the close interaction between modulation format, transmission impairment, and receiver design.
Human Evaluation and Correlation with Automatic Metrics in Consultation Note Generation (2022)

Francesco Moramarco, Alex Papadopoulos Korfiatis, Mark Perera, Damir Juric, Jack Flann, Ehud Reiter, Anya Belz, Aleksandar Savkov. Proceedings of the 60th Annual Meeting of the Association for Computational Linguistics (Volume 1: Long Papers). 2022.
Synthesis and Characterization of Tetrakis(trihalogermyl)methanes. Molecules Containing Sterically Strained Carbon Centers (1995)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTSynthesis and Characterization of Tetrakis(trihalogermyl)methanes. Molecules Containing Sterically Strained Carbon CentersPhillip T. Matsunaga, John Kouvetakis, and Thomas L. GroyCite this: Inorg. Chem. 1995, 34, 21, 5103–5104Publication Date (Print):October 1, 1995Publication History Published online1 May 2002Published inissue 1 October 1995https://pubs.acs.org/doi/10.1021/ic00125a004https://doi.org/10.1021/ic00125a004research-articleACS PublicationsRequest reuse permissionsArticle Views180Altmetric-Citations16LEARN 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-AlertscloseSupporting Info (2)»Supporting Information Supporting Information Get e-Alerts
On-rate modulation of cadherin interactions by chemical fragments (2020)

Abstract Many cadherin family proteins are associated with diseases such as cancer. Since cell adhesion requires homodimerization of cadherin molecules, a small-molecule regulator of dimerization would have therapeutic potential. Herein, we describe identification of a P-cadherin-specific chemical fragment that inhibits P-cadherin-mediated cell adhesion. Although the identified molecule is a fragment compound, it binds to a cavity of P-cadherin that has not previously been targeted, indirectly prevents formation of hydrogen bonds necessary for formation of an intermediate called the X dimer and thus modulates the on-rate of X dimerization. Our findings will impact on a strategy for kinetic regulation of protein-protein interactions and stepwise assembly of protein complexes using small molecules.
Tunable, substrate integrated, high Q filter cascade for high isolation (2010)

A combination of tunable bandpass/bandstop filter substrate integrated cavity filters is shown for high spectral isolation. Greater than 90 dB of isolation is shown, which is potentially useful for isolating small signals in the presence of large interferers. Both filters are created using the same substrate integrated evanescent mode cavity resonators which are placed in series or in shunt by changing the cavity feeds. The resonators are tuned using deformation of a copper membrane induced by a piezo electric actuator. The bandstop filter is able to place deep nulls on the skirt of the bandpass filter function on both the high and low frequency sides. The notch can be tuned from 2.1% to 9.6% away from the center frequency of the bandpass filter. The bandstop filter is also designed with a tunable shape which allows for wider bandwidth isolation on demand.
Regulation of the Dot1 histone H3K79 methyltransferase by histone H4K16 acetylation (2021)

Dot1 (disruptor of telomeric silencing-1), the histone H3 lysine 79 (H3K79) methyltransferase, is conserved throughout evolution, and its deregulation is found in human leukemias. Here, we provide evidence that acetylation of histone H4 allosterically stimulates yeast Dot1 in a manner distinct from but coordinating with histone H2B ubiquitination (H2BUb). We further demonstrate that this stimulatory effect is specific to acetylation of lysine 16 (H4K16ac), a modification central to chromatin structure. We provide a mechanism of this histone cross-talk and show that H4K16ac and H2BUb play crucial roles in H3K79 di- and trimethylation in vitro and in vivo. These data reveal mechanisms that control H3K79 methylation and demonstrate how H4K16ac, H3K79me, and H2BUb function together to regulate gene transcription and gene silencing to ensure optimal maintenance and propagation of an epigenetic state.
Grating design for interlayer optical interconnection of in-plane waveguides: erratum (2016)

Corrections to Eqs. (25) and (32) in our recent publication [Appl. Opt.55, 2601-2610 (2016).APOPAI0003-693510.1364/AO.55.002601] are presented in this erratum.
Collective dynamics of non-coalescing and coalescing droplets in microfluidic parking networks (2015)

We study the complex collective dynamics mediated by flow resistance interactions when trains of non-coalescing and coalescing confined drops are introduced into a microfluidic parking network (MPN). The MPN consists of serially connected loops capable of parking arrays of drops. We define parking modes based on whether drops park without breakage or drop fragments are parked subsequent to breakage or drops park after coalescence. With both non-coalescing and coalescing drops, we map the occurrence of these parking modes in MPNs as a function of system parameters including drop volume, drop spacing and capillary number. We find that the non-coalescing drops can either park or break in the network, producing highly polydisperse arrays. We further show that parking due to collision induced droplet break-up is the main cause of polydispersity. We discover that collisions occur due to a crowding instability, which is a natural outcome of the network topology. In striking contrast, with coalescing drops we show that the ability of drops to coalesce rectifies the volume of parked polydisperse drops, despite drops breaking in the network. We find that several parking modes act in concert during this hydrodynamic self-rectification mechanism, producing highly monodisperse drop arrays over a wide operating parameter space. We demonstrate that the rectification mechanism can be harnessed to produce two-dimensional arrays of microfluidic drops with highly tunable surface-to-volume ratios, paving the way for fundamental investigations of interfacial phenomena in emulsions.
[Role of liposomes in the presentation of HIV envelope glycoprotein and the immune response in mice]. (1989)

The role of antigen presentation in the induction of humoral as well as cell-mediated immune responses has been investigated by anchoring HIV-1 envelope glycoprotein (gp 160/120) into the phospholipidic bilayer of preformed liposomes to produce HIV-Immunosomes. HIV-Immunosomes induced high titres of HIV-specific antibodies when tested by ELISA, IFA and neutralization, whereas equal amounts of purified glycoprotein alone produced lower antibody response. Similarly, HIV-Immunosomes induced antigen-specific Interleukin-2 production and blastogenic response upon restimulation with the same antigen, in animals vaccinated with HIV-Immunosomes, whereas no secondary response was observed in animals vaccinated with equal amounts of purified gp 160/120. Taken together, these results underline the importance of antigen presentation in the establishment of an adequate immune status and show the potential of HIV-Immunosomes as vaccine against AIDS.
Adversarial Semantic Contour for Object Detection (2021)

Modern object detectors are vulnerable to adversarial examples, which brings potential risks to numerous applications, e.g., self-driving car. Among attacks regularized by $\ell_p$ norm, $\ell_0$-attack aims to modify as few pixels as possible. Nevertheless, the problem is nontrivial since it generally requires to optimize the shape along with the texture simultaneously, which is an NP-hard problem. To address this issue, we propose a novel method of Adversarial Semantic Contour (ASC) guided by object contour as prior. With this prior, we reduce the searching space to accelerate the $\ell_0$ optimization, and also introduce more semantic information which should affect the detectors more. Based on the contour, we optimize the selection of modified pixels via sampling and their colors with gradient descent alternately. Extensive experiments demonstrate that our proposed ASC outperforms the most commonly manually designed patterns (e.g., square patches and grids) on task of disappearing. By modifying no more than 5\% and 3.5\% of the object area respectively, our proposed ASC can successfully mislead the mainstream object detectors including the SSD512, Yolov4, Mask RCNN, Faster RCNN, etc.
Diffusion Bonding of ITER First Wall Structures. (2016)

Abstract not provided.
Selective Inhibition of Extracellular Thioredoxin by Asymmetric Disulfides (2013)

Whereas the role of mammalian thioredoxin (Trx) as an intracellular protein cofactor is widely appreciated, its function in the extracellular environment is not well-understood. Only few extracellular targets of Trx-mediated thiol-disulfide exchange are known. For example, Trx activates extracellular transglutaminase 2 (TG2) via reduction of an intramolecular disulfide bond. Because hyperactive TG2 is thought to play a role in various diseases, understanding the biological role of extracellular Trx may provide critical insight into the pathogenesis of these disorders. Starting from a clinical-stage asymmetric disulfide lead, we have identified analogs with >100-fold specificity for Trx. Structure-activity relationship and computational docking model analyses have provided insights into the features important for enhancing potency and specificity. The most active compound identified had an IC(50) below 0.1 μM in cell culture and may be appropriate for in vivo use to interrogate the role of extracellular Trx in health and disease.
Pharmacokinetic Modeling of the Second-Wave Phenomenon in Nanobubble-Based Contrast-Enhanced Ultrasound (2022)

With a typical 100-500 nm diameter, nanobubbles are a promising new-generation ultrasound contrast agent that paves ways for several applications, such as efficient drug delivery, molecular imaging, and assessment of vascular permeability. Due to their unique physical properties, nanobubbles exhibit distinct in vivo pharmacokinetics. We have shown that the first pass of the nanobubble bolus is usually accompanied by the appearance of a second bolus (wave) within a time range of about 15 minutes. Such phenomenon, to the best of our knowledge, has never been observed with conventional microbubbles and smaller molecular contrast agents used in MRI and CT. In a previous study, we showed the potential of this phenomenon in supporting cancer diagnosis. This study focuses on developing a new compartmental pharmacokinetic model that can be used to interpret the second-wave phenomenon. With this model, we can analyze more in-depth the roles of several physiological factors affecting the characteristics of the second-wave phenomenon.
ChemInform Abstract: DNA Intercalators (2001)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
MES system solution for PLAT recipe reduction (2012)

For recipe reduction requirement of bump plating process, we provided the MES system solutions - recipe parameters, product table and conversion function in SiView SpecMgr. Recipe parameter could help to define different process conditions by specific product instead of recipe itself. Product table is to maintain recipe parameter directly in product table instead of recipe table and the concept is easy and straightforward for users to maintain. Conversion function used in recipe parameter could help to get real value from product table. Thus, PLAT recipe became to only define plating current, but the process time actually defined in product table by each specific product. So PLAT recipes could be grouping and reduced to extremely small counts compare to as-was. All functions were already existed in SiView SpecMgr and helped to minimize the IT development effort. After all, it's a creative idea without experience in any other process before but did contribute the most important part for PLAT recipe reduction.
Continuum and Statistical Mechanics‐Based Models for Solid—Electrolyte Interphases in Lithium‐Ion Batteries (2005)

Abstract For Abstract see ChemInform Abstract in Full Text.
IN SITU INFRARED STUDY OF CATALYTIC DECOMPOSITION OF NO (1998)

The growing concerns for the environment and increasingly stringent standards for NO emission have presented a major challenge to control NO emissions from electric utility plants and automobiles. Catalytic decomposition of NO is the most attractive approach for the control of NO emission for its simplicity. Successful development of an effective catalyst for NO decomposition will greatly decrease the equipment and operation cost of NO control. Due to lack of understanding of the mechanism of NO decomposition, efforts on the search of an effective catalyst have been unsuccessful. Scientific development of an effective catalyst requires fundamental understanding of the nature of active site, the rate-limiting step, and an approach to prolong the life of the catalyst. Research is proposed to study the reactivity of adsorbates for the direct NO decomposition and to investigate the feasibility of two novel approaches for improving catalyst activity and resistance to sintering. The first approach is the use of silanation to stabilize metal crystallites and supports for Cu-ZSM-5 and promoted Pt catalysts; the second is utilization of oxygen spillover and desorption to enhance NO decomposition activity. An innovative infrared reactor system will be used to observe and determine the dynamic behavior and the reactivity of adsorbates during NO decomposition, oxygen spillover, and silanation. A series of experiments including X-ray diffraction, temperature programmed desorption, temperature programmed reaction, X-ray photoelectron spectroscopy will be used to characterized the catalysts. The information obtained from this study will provide a scientific basis for developing an effective catalyst for the NO decomposition under practical flue gas conditions.
<title>Recent progress in intrinsic fiber optic chemical sensing</title> (1991)

An overview is given of intrinsic fiber-optic chemical sensing encompassing refractometric sensors, evanescent spectroscopic sensors, coated-fiber sensors, and core-based sensors. Specific attention is given to techniques that are being tested such as commercial fluoroimmunoassay probes, evanescent-wave sensors for monitoring composite curing, and liquid-level monitors based on refractometric sensors. Of particular interest in the realm of research are intrinsic fiber devices that employ dyes and similar intermediaries to enhance the response of the sensors. Sensors that employ such intermediaries are expected to provide greater sensitivity to target analytes. The sensor techniques presently under development are also concluded to be useful for air-quality monitoring, and specific projects are discussed that are aimed at sensing gaseous species.
SWATH‐ID: An instrument method which combines identification and quantification in a single analysis (2017)

Data-independent acquisition (DIA) approaches, such as SWATH<sup>®</sup> -MS, are showing great potential to reliably quantify significant numbers of peptides and proteins in an unbiased manner. These developments have enhanced interest in developing a single DIA method that integrates qualitative and quantitative analysis, eliminating the need of a prebuilt library of peptide spectra, which are created through data-dependent acquisition methods or from public repositories. Here, we introduce a new DIA approach, referred to as "SWATH-ID," which was developed to allow peptide identification as well as quantitation. The SWATH-ID method is composed of small Q1 windows, achieving better selectivity and thus significantly improving high-confidence peptide extractions from data files. Furthermore, the SWATH-ID approach transmits precursor ions without fragmentation as well as their fragments within the same SWATH acquisition period. This provides a single scan that includes all precursor ions within the isolation window as well as a record of all of their fragment ions, substantially negating the need for a survey scan. In this way all precursors present in a small Q1 window are associated with their fragment ions, improving the identification specificity and providing a more comprehensive and in-depth view of protein and peptide species in complex samples.
Speeding up the Number Theoretic Transform for Faster Ideal Lattice-Based Cryptography. (2016)

The Number Theoretic Transform (NTT) provides efficient algorithms for cyclic and nega-cyclic convolutions, which have many applications in computer arithmetic, e.g., for multiplying large integers and large degree polynomials. It is commonly used in cryptographic schemes that are based on the hardness of the Ring Learning With Errors (R-LWE) problem to efficiently implement modular polynomial multiplication.
Design of adaptive fiber optics collimator for free-space communication laser transceiver (2005)

The proper collimating of the laser beam between the fiber optics transmitter and receiver is among the most important requirements to free space telecommunications. The targeting of the receiver over near-horizontal propagation in kilometers long distance requires fast control of the tip/tilt deviation of the laser beam emitting from the fiber optic transmitter because of beam direction fluctuations due to atmospheric turbulences. This deviation can be accomplished with fast deviation of the fiber optics emitting tip placed into focus of the collimating lens. Similar control could allow one to keep the input fiber optics tip in focus of the receiver's input lens. In this report we describe the design of the compact adaptive fiber optics collimator based on the X-Y positioner of the fiber optics tip utilizing the piezoelectric bimorph actuators for X-Y displacement of the fiber tip placed in the focal planes of the transceiver.
Assessment of myocardial function and perfusion in a canine model of non-occlusive coronary artery stenosis using fast magnetic resonance imaging (1999)

Magnetic resonance (MR) functional and perfusion imaging were employed in a canine model of coronary artery stenosis (n = 6) for the quantification of functional and perfusion deficits before and after dipyridamole administration. Left anterior descending and circumflex (LCX) coronary blood flow were measured continuously after placing Doppler flowmeters. Inversion recovery gradient echo images during the transit of MR contrast medium gadolinium-benzyloxypropionictetraacetate dimeglumine (Gd-BOPTA/Dimeg) and fast breath-hold cine MR images were acquired at baseline, during LCX stenosis in basal state, and during LCX stenosis with vasodilation (dipyridamole 0.5 mg/kg). The extent of the functional defect and perfusion defect was expressed as percent of left ventricle (LV) circumference. During stenosis (LCX flow: 62.6 +/- 5.6% of baseline) the extent of the functional defect was slightly larger than the perfusion defect (11.0 +/- 1.8% versus 6.3 +/- 1.70% of LV circumference, respectively; P < 0.01). During vasodilation the extent of the functional defect was considerably smaller than the perfusion defect (25.3 +/- 2.5% versus 35.3 +/- 3.5%; P < 0.01). Thus, the sizes of ischemic regions displayed by MR perfusion defect and functional defect differ from each other.
Computational modeling of Repeat1 region of INI1/hSNF5: An evolutionary link with ubiquitin (2016)

The structure of a protein can be very informative of its function. However, determining protein structures experimentally can often be very challenging. Computational methods have been used successfully in modeling structures with sufficient accuracy. Here we have used computational tools to predict the structure of an evolutionarily conserved and functionally significant domain of Integrase interactor (INI)1/hSNF5 protein. INI1 is a component of the chromatin remodeling SWI/SNF complex, a tumor suppressor and is involved in many protein-protein interactions. It belongs to SNF5 family of proteins that contain two conserved repeat (Rpt) domains. Rpt1 domain of INI1 binds to HIV-1 Integrase, and acts as a dominant negative mutant to inhibit viral replication. Rpt1 domain also interacts with oncogene c-MYC and modulates its transcriptional activity. We carried out an ab initio modeling of a segment of INI1 protein containing the Rpt1 domain. The structural model suggested the presence of a compact and well defined ββαα topology as core structure in the Rpt1 domain of INI1. This topology in Rpt1 was similar to PFU domain of Phospholipase A2 Activating Protein, PLAA. Interestingly, PFU domain shares similarity with Ubiquitin and has ubiquitin binding activity. Because of the structural similarity between Rpt1 domain of INI1 and PFU domain of PLAA, we propose that Rpt1 domain of INI1 may participate in ubiquitin recognition or binding with ubiquitin or ubiquitin related proteins. This modeling study may shed light on the mode of interactions of Rpt1 domain of INI1 and is likely to facilitate future functional studies of INI1.
Depth-resolved imaging and detection of micro-retroreflectors within biological tissue using Optical Coherence Tomography (2010)

A new approach to in vivo biosensor design is introduced, based on the use of an implantable micron-sized retroreflector-based platform and non-invasive imaging of its surface reflectivity by Optical Coherence Tomography (OCT). The possibility of using OCT for the depth-resolved imaging and detection of micro-retroreflectors in highly turbid media, including tissue, is demonstrated. The maximum imaging depth for the detection of the micro-retroreflector-based platform within the surrounding media was found to be 0.91 mm for porcine tissue and 1.65 mm for whole milk. With further development, it may be possible to utilize OCT and micro-retroreflectors as a tool for continuous monitoring of analytes in the subcutaneous tissue.