gebhart/patrepeval huggingface dataset:
A comparison of clinical development pathways to advance tuberculosis regimen development (2022)

In this study, we demonstrate that adaptive trial designs are suitable for TB regimen development, and we provide plausible design parameters for a platform adaptive trial. Ultimately trial design and specification of design parameters will depend on clinical trial objectives. To support decision-making for clinical trial designs in contemporary TB regimen development, we provide a flexible clinical trial simulation tool that can be used to explore and optimize design features and parameters.
Parting Messages From Current and Former Editors of the Journal of Andrology (2012)

The proposal to produce this final commemorative issue for the Journal of Andrology arose during our regular discussions as current editors soon after it was announced that the Journal would complete its own life course and merge into a new publication (to be named Andrology) with the International Journal of Andrology. We considered the momentous occasion to be one that should be celebrated with an enduring tribute in recognition of the Journal's exceptional 33-year existence. Among the various contributions sought for inclusion in this issue, we envisioned an article assembling collected short essays from all living former editors drawing on notable events and highlights, if not less well-known challenges and successes arising during their editorship eras. We thought that any such production of musings, viewpoints, and most of all words of wisdom from those who have had major roles in the direction and accomplishments of the Journal would offer an illuminating read for the society's members and friends and provide all readers another venue to share in and enjoy the Journal's great history. We are enthralled to have gathered these collections, all personal compositions of the former editors-in-chief, and for their effort that has helped us complete this special endeavor we express to them our tremendous gratitude. Serving as the Journal's last editors, we are also grateful to contribute our essay at the very end as part of this joyous chronicle.
GLA: Gate-Level Abstraction Revisited (2013)

Verification benefits from removing logic that is not relevant for a proof. Techniques for doing this are known as localization abstraction. Abstraction is often performed by selecting a subset of gates to be included in the abstracted model; the signals feeding into this subset become unconstrained cut-points. In this paper, we propose several improvements to substantially increase the scalability of automated abstraction. In particular, we show how a better integration between the BMC engine and the SAT solver is achieved, resulting in a new hybrid abstraction engine, that is faster and uses less memory. This engine speeds up computation by constant propagation and circuit-based structural hashing while collecting UNSAT cores for the intermediate proofs in terms of a subset of the original variables. Experimental results show improvements in the abstraction depth and size.
Silicon Nitride (Si3N4) (De-)Multiplexers for 1-μm CWDM Optical Interconnects (2019)

We discuss the design and demonstration of 4-channel coarse wavelength-division (de-)multiplexers based on cascaded Mach-Zehnder interferometer (MZI) lattice filters and arrayed waveguide gratings (AWG) on a 150 nm silicon nitride (Si <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> N <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">4</sub> ) platform. The 1 × 4 (de-)multiplexers are designed for a channel separation of 25 nm and operate within 990-1065 nm for bottom emitting vertical cavity surface emitting lasers (VCSEL)-based optical links. For Si <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</sub> N <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">4</sub> Gaussian AWGs, we demonstrate crosstalk <; -35 dB at the peak transmission band with insertion loss <; 0.5 dB. Measurements were performed over many dies, and pass-band standard deviations for channel 1-4 are 0.49, 0.66, 0.42, and 0.37 nm, respectively. Results for flat-top AWGs indicate crosstalk <; -20 dB, with insertion loss <; 3 dB for the best devices. Flat-top cascaded 2 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">nd</sup> order and 3 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">rd</sup> order MZI lattice filters show a minimum of crosstalk <; -15 dB and <; -20 dB, respectively. The pass-band temperature shift was determined to be 14.5 pm/°C, which is lower than reported values for silicon. The device footprint of the Gaussian and flat-top AWGs are both ~670 × 200 μm. The device footprint of the flat-top cascaded 2 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">nd</sup> order and 3 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">rd</sup> order lattice filters are 1160 × 470 μm and 1570 × 470 μm, respectively. We believe the Si3N4 platform has potential for its use in CWDM and possibly DWDM transceiver/optical-modules for data/computer communication in high temperature environments up to 80 °C.
Dynamics of continuous isobutylene cationic polymerizations (1996)

Polyisobutylene can be produced in either continuous cationic precipitation or solution polymerization reactors. It is known that the open-loop behavior of polymerization reactors may be very complex and may lead to oscillatory behavior, which is usually caused by thermal positive feedback (due to the large heats of reaction of polymerization reactions) and high viscosity effects (such as the gel effect in radical polymerization reactors and the decrease of heat transfer coefficients at high polymer concentrations). Oscillatory behavior may be observed in industrial isobutylene reactors, and it is intended to know whether these oscillations are inherent to the kinetic mechanism. Based on published experimental data, mathematical models are developed for both solution and precipitation processes. Steady-state solutions are calculated and steady-state stability is analyzed. Dynamic simulations and stability results reveal that only single stable steady-state solutions are possible for such reactors at usual operation conditions, which means that oscillatory behavior is not intrinsic to the reaction mechanism. © 1996 Wiley & Sons, Inc.
Therapeutic Potential of Recombinant Allergens (1992)

The application of molecular biology in recent years to the characterization of protein allergens has led to spectacular advances in the synthesis of cDNAs of several major allergens and in the determination of their primary structures. This information has in turn led to: (i) the synthesis of the corresponding recombinant allergens; (ii) the delineation of B- and T-cell epitopes of some of these allergens, and (iii) the demonstration of extensive cross-reactivities among individual members of a particular group of aero allergens. The availability of major allergens in pure form and virtually unlimited quantities makes it possible to evaluate the efficacy of novel therapeutic strategies, based on modern concepts of immunoregulation, for the suppression of IgE antibodies or inactivation of allergen-specific Th cells by chemically modified recombinant allergens or their appropriately modified epitopes. The potentials of some of these strategies and their possible advantages in relation to the currently used immunotherapy are discussed.
Smart speaker design and implementation with biometric authentication and advanced voice interaction capability (2019)

Advancements in semiconductor technology have reduced dimensions and cost while improving the performance and capacity of chipsets. In addition, advancement in the AI frameworks and libraries brings possibilities to accommodate more AI at the resource-constrained edge of consumer IoT devices. Sensors are nowadays an integral part of our environment which provide continuous data streams to build intelligent applications. An example could be a smart home scenario with multiple interconnected devices. In such smart environments, for convenience and quick access to web-based service and personal information such as calendars, notes, emails, reminders, banking, etc, users link third-party skills or skills from the Amazon store to their smart speakers. Also, in current smart home scenarios, several smart home products such as smart security cameras, video doorbells, smart plugs, smart carbon monoxide monitors, and smart door locks, etc. are interlinked to a modern smart speaker via means of custom skill addition. Since smart speakers are linked to such services and devices via the smart speaker user’s account. They can be used by anyone with physical access to the smart speaker via voice commands. If done so, the data privacy, home security and other aspects of the user get compromised. Recently launched, Tensor Cam’s AI Camera, Toshiba’s Symbio, Facebook’s Portal are camera-enabled smart speakers with AI functionalities. Although they are camera-enabled, yet they do not have an authentication scheme in addition to calling out the wake-word. This paper provides an overview of cybersecurity risks faced by smart speaker users due to lack of authentication scheme and discusses the development of a state-of-the-art camera-enabled, microphone arraybased modern Alexa smart speaker prototype to address these risks. Keywords: Alexa Voice Service, Snowboy hotword detection, Smart speaker design, Microphone array, ReSpeaker, Voice algorithms, Open CV, Smart speaker authentication.
Bleaching in foraminifera with algal symbionts: implications for reef monitoring and risk asessment (2006)

Reef-dwelling larger foraminifers share key characteristics with reefbuilding corals: they are prolific producers of calcium carbonate, they are physiologically dependent upon algal endosymbionts, and representatives of both groups have suffered bleaching episodes in recent decades. Since 1991, bleaching has been observed in populations of Amphistegina in all subtropical oceans, with peak bleaching in 1992 and secondary peaks in 1998 and 2005. Amphistegina populations exhibiting chronic, intermediate-intensity bleaching characteristically show anomalously high incidences of shell breakage, shell deformities, evidence of predation, and microbial infestation. Asexual reproduction is profoundly affected; broods from partly bleached parents typically have fewer individuals, many of which are anomalous in shape and size. Key differences between bleaching in corals and Amphistegina are that corals typically bleach by expelling their symbionts, while Amphistegina bleach when damaged symbionts are digested, and that mass coral bleaching requires high light but correlates most consistently with elevated temperatures, while bleaching in Amphistegina is induced by light. Amphistegina are particularly sensitive to the shorter (300-490 nm) wavelengths of solar radiation, which have increased in intensity relative to longer visible wavelengths (&gt;;490-700 nm) in clear reef waters over the past 30 years as a consequence of stratospheric ozone depletion. Abundances and visual assessments of Amphistegina populations can be used as a low-cost risk-assessment tool. These protists are sensitive to environmental conditions over days to weeks, and provide a method to quickly distinguish between water quality (local) and photo-oxidative (global) stresses. Risk assessments based on the combined use of in situ measurements and low-cost indicators can provide resource managers with essential information to decide when more costly chemical or molecular procedures are needed to determine local sources of stress.
European Research Forum Panel Session Envisioning Research Challenges in Visual Analytics (2006)

Visual Analytics is the science of analytical reasoning supported by interactive visual interfaces. People use visual analytics tools and techniques to synthesize information; derive insight from massive, dynamic, and often conflicting data; detect the expected and discover the unexpected; provide timely, defensible, and understandable assessments; and communicate assessments effectively for action. The issues stimulating this body of research provide a grand challenge in science: turning information overload into the opportunity of the decade. Visual analytics requires interdisciplinary science beyond traditional scientific and information visualization to include statistics, data mining, knowledge and discovery technologies, cognitive science and humancomputer interaction, production and presentation, and more. An important research agenda "Illuminating the Path" provides recommendations for the next generation suite of visual analytics technologies and is available at http://nvac.pnl.gov/agenda.stm .
Comparison of Decompression, Decompression Plus Fusion, and Decompression Plus Stabilization for Degenerative Spondylolisthesis (2018)

Level II.
Constraints on anomalous Higgs boson couplings to vector bosons and fermions in its production and decay using the four-lepton final state (2021)

Studies of CP violation and anomalous couplings of the Higgs boson to vector bosons and fermions are presented. The data were acquired by the CMS experiment at the LHC and correspond to an integrated luminosity of 137 fb -1 at a proton-proton collision energy of 13 TeV. The kinematic effects in the Higgs boson's four-lepton decay H 4l and its production in association with two jets, a vector boson, or top quarks are analyzed, using a full detector simulation and matrix element techniques to identify the production mechanisms and to increase sensitivity to the tensor structure of the Higgs boson interactions. A simultaneous measurement is performed of up to five Higgs boson couplings to electroweak vector bosons (HVV), two couplings to gluons (Hgg), and two couplings to top quarks (Htt). The CP measurement in the Htt interaction is combined with the recent measurement in the H channel. The results are presented in the framework of anomalous couplings and are also interpreted in the framework of effective field theory, including the first study of CP properties of the Htt and effective Hgg couplings from a simultaneous analysis of the gluon fusion and top-associated processes. The results are consistent with the standard model of particle physics.
Protection against Chlamydia Promoted by a Subunit Vaccine (CTH1) Compared with a Primary Intranasal Infection in a Mouse Genital Challenge Model (2010)

Our data demonstrate that CTH1 vaccination promotes a CD4(+) T cell dependent protective response but compared with intranasal C. muridarum infection lacks a CD4 independent protective mechanism for complete protection.
Paternal Age Explains a Major Portion of De Novo Germline Mutation Rate Variability in Healthy Individuals (2016)

De novo mutations (DNM) are an important source of rare variants and are increasingly being linked to the development of many diseases. Recently, the paternal age effect has been the focus of a number of studies that attempt to explain the observation that increasing paternal age increases the risk for a number of diseases. Using disease-free familial quartets we show that there is a strong positive correlation between paternal age and germline DNM in healthy subjects. We also observed that germline CNVs do not follow the same trend, suggesting a different mechanism. Finally, we observed that DNM were not evenly distributed across the genome, which adds support to the existence of DNM hotspots.
Real-time focus and overlay measurement by the use of fluorescent markers (2014)

In lithography, overlay control is getting increasingly complex. Advanced Process Control (APC) is introduced to minimize excursions from the process window for the present exposure. APC uses metrology data of previously exposed wafers, hence, there is always a delay of tens of minutes before the required information is available. This paper proposes the combination of a patterned expose beam and a patterned fluorescent marker on a wafer to generate a fluorescent signal that carries real-time information of the focus and/or position error of the expose pattern with the pattern on the wafer. A practical realization requires some changes to the exposure process, stepper design and reticle lay-out. Firstly, a matched pair of markers on the wafer and reticle is required. Secondly, the generated fluorescent signal must be measured, for example with a (spectrally filtered) photon counter close to the expose area of the wafer. At last, the markers from the previous lithography step shall, after development, be filled with fluorescent material. This deposition requires an additional process step. Photon budget calculations suggest an overlay measurement accuracy of less than a tenth of a nm (real-time).
Droplet-based forward genetic screening of astrocyte–microglia cross-talk (2023)

Cell-cell interactions in the central nervous system play important roles in neurologic diseases. However, little is known about the specific molecular pathways involved, and methods for their systematic identification are limited. Here, we developed a forward genetic screening platform that combines CRISPR-Cas9 perturbations, cell coculture in picoliter droplets, and microfluidic-based fluorescence-activated droplet sorting to identify mechanisms of cell-cell communication. We used SPEAC-seq (systematic perturbation of encapsulated associated cells followed by sequencing), in combination with in vivo genetic perturbations, to identify microglia-produced amphiregulin as a suppressor of disease-promoting astrocyte responses in multiple sclerosis preclinical models and clinical samples. Thus, SPEAC-seq enables the high-throughput systematic identification of cell-cell communication mechanisms.
Deuterated TEKPol Biradicals and the Spin‐Diffusion Barrier in MAS DNP (2023)

Abstract The sensitivity of NMR spectroscopy is considerably enhanced by dynamic nuclear polarization (DNP). In DNP polarization is transferred from unpaired electrons of a polarizing agent to nearby proton spins. In solids, this transfer is followed by the transport of hyperpolarization to the bulk via 1 H‐ 1 H spin diffusion. The efficiency of these steps is critical to obtain high sensitivity gains, but the pathways for polarization transfer in the region near the unpaired electron spins are unclear. Here we report a series of seven deuterated and one fluorinated TEKPol biradicals to probe the effect of deprotonation on MAS DNP at 9.4 T. The experimental results are interpreted with numerical simulations, and our findings support that strong hyperfine couplings to nearby protons determine high transfer rates across the spin diffusion barrier to achieve short build‐up times and high enhancements. Specifically, 1 H DNP build‐up times increase substantially with TEKPol isotopologues that have fewer hydrogen atoms in the phenyl rings, suggesting that these protons play a crucial role transferring the polarization to the bulk. Based on this new understanding, we have designed a new biradical, NaphPol, which yields significantly increased NMR sensitivity, making it the best performing DNP polarizing agent in organic solvents to date.
LaSO: Label-Set Operations Networks for Multi-Label Few-Shot Learning (2019)

Example synthesis is one of the leading methods to tackle the problem of few-shot learning, where only a small number of samples per class are available. However, current synthesis approaches only address the scenario of a single category label per image. In this work, we propose a novel technique for synthesizing samples with multiple labels for the (yet unhandled) multi-label few-shot classification scenario. We propose to combine pairs of given examples in feature space, so that the resulting synthesized feature vectors will correspond to examples whose label sets are obtained through certain set operations on the label sets of the corresponding input pairs. Thus, our method is capable of producing a sample containing the intersection, union or set-difference of labels present in two input samples. As we show, these set operations generalize to labels unseen during training. This enables performing augmentation on examples of novel categories, thus, facilitating multi-label few-shot classifier learning. We conduct numerous experiments showing promising results for the label-set manipulation capabilities of the proposed approach, both directly (using the classification and retrieval metrics), and in the context of performing data augmentation for multi-label few-shot learning. We propose a benchmark for this new and challenging task and show that our method compares favorably to all the common baselines.
N-myc Transactivates RCC1 Gene Expression in Rat Fibroblast Cells Transformed by N-myc and v-ras (1998)

Oncogenic cooperation was found between the N-myc and v-ras oncogenes in a rat fibroblast cell line, 3Y1. To investigate the specific role of N-myc in the transformation, we established transformed cell lines that expressed N-myc under a controllable promoter. Using these cells, we found that constitutive expression of N-myc is necessary to maintain the transformation, and that the expression level of N-myc is closely correlated with the transformation. Since another myc family gene, c-myc, directly activates expression of RCC1, which has important functions for eukaryotic cell proliferation, we focused on the relationship between N-myc and RCC1. Cells transformed by N-myc and v-ras expressed several times more RCC1 mRNA than the parent 3Y1 cells, and the expression of RCC1 changed in a parallel with the expression of N-myc. Gel retardation analysis and experiments with reporter plasmids constructed from a DNA fragment of the RCC1 gene indicated that the N-Myc protein controls expression of RCC1 by binding directly to CACGTG elements in the RCC1 gene. These results suggest that N-myc can directly transactivate expression of RCC1, a c-myc target gene.
Supplementary Table 1 from Targeting HER-2/<i>neu</i> in Early Breast Cancer Development Using Dendritic Cells with Staged Interleukin-12 Burst Secretion (2023)

Supplementary Table 1 from Targeting HER-2/&lt;i&gt;neu&lt;/i&gt; in Early Breast Cancer Development Using Dendritic Cells with Staged Interleukin-12 Burst Secretion
Leishmania mexicana amazonensis infections in 'resistant' inbred mice following removal of the draining lymph node. (1986)

Highly resistant (C57BL/10) and intermediately resistant (DBA/2) mice were infected subcutaneously with Leishmania mexicana amazonensis in a hind footpad subsequent to removal of the draining popliteal node. These mice developed greatly exacerbated Leishmania infections as compared to sham-operated controls or to mice infected in the contralateral footpad. The majority of mice in which the draining lymph nodes were removed prior to infection developed metastases, lost their delayed hypersensitivity responses to Leishmania, and some died. Significantly fewer metastases and no deaths were observed in the control groups. The results emphasize the importance of lymphatic control of Leishmania m. amazonensis infection in relatively resistant mouse strains.
Measuring Object-Orient Software Products (1995)

Abstract : This module provides an overview of the merging of a paradigm and a process, the object-oriented paradigm and the software measurement process. The concept of a measure and the process of measurement are discussed briefly, followed by a presentation of the issues raised by objectoriented software development.