gebhart/patrepeval huggingface dataset:
An experimental study of a high performance motion control system (2004)

High speed precision motion is required in applications rangjng from high performance machining to electronic packaging. To achieve tight performance requirement, careful design of the feedback and feedforward controllers is necessary. This paper presents the feedforward controller design for a high speed positioning system after a feedback controller has already been implemented. We adopt the control architecture that consists ofa nominal feedforward based on the approximate inverse of the identified linear model supplemented by an additive corrective control obtained based on iterative learning. Simulation and experimental results are included to demonstrate the efficacy of the proposed scheme.
Supplementary Data 5 from SLFN5 Regulates LAT1-Mediated mTOR Activation in Castration-Resistant Prostate Cancer (2023)

&lt;p&gt;ATF4_binding sites&lt;/p&gt;
Special session - biomedical engineering ethics and standards in the developing world (2007)

Engineering educators and students are at the interface between biomedical engineering technology and the developing world. Through service learning efforts and organizations like Engineers Without Borders and Engineering World Health, engineers find themselves asking questions about ethics and standards as they relate to the developing world. The goal of this session is to begin a dialogue about ethics and standards for biomedical engineers working with people in the developing world and to start the process of developing guidelines that will inform their practice. This session will use a case-based and education-focused strategy to begin this dialogue. The session will utilize facilitators with expertise in these areas to discuss various case studies. They will attempt to address questions about biomedical engineering ethics and standards in the context of economic and logistical constraints. The output of this dialogue will be direct input to a workshop on biomedical engineering ethics and standards in the developing world and will be the foundation for a consensus for guidelines for engineers practicing in the developing world.
Organic Light‐Emitting Transistors (2016)

A light-emitting OFET with pronounced ambipolar current characteristic has been prepared by co-evaporation of -quinquethiophene (-5T) as hole-transport material and ditridecyl-perylene-tetracarboxylic diimide (P13) as electron-transport material. The light intensity is controlled by both the drain-source voltage V DS and the gate voltage V G . Here, we demonstrate the general concept of adjusting electron and hole mobilities by co-evaporation of two different organic semiconductors.
The Entity Category Security Assertion Markup Language (SAML) Attribute Types (2018)

This document describes a SAML entity attribute which can be used to
assign category membership semantics to an entity, and a second
attribute for use in claiming interoperation with or support for
entities in such categories. This document is a product of the
Research and Education Federations (REFEDS) Working Group process.
Efficient immortalization of luminal epithelial cells from human mammary gland by introduction of simian virus 40 large tumor antigen with a recombinant retrovirus. (1991)

When defined in terms of markers for normal cell lineages, most invasive breast cancer cells correspond to the phenotype of the common luminal epithelial cell found in the terminal ductal lobular units. Luminal epithelial cells cultured from milk, which have limited proliferative potential, have now been immortalized by introducing the gene encoding simian virus 40 large tumor (T) antigen. Infection with a recombinant retrovirus proved to be 50-100 times more efficient than calcium phosphate transfection, and of the 17 cell lines isolated, only 5 passed through a crisis period as characterized by cessation of growth. When characterized by immunohistochemical staining with monoclonal antibodies, 14 lines showed features of luminal epithelial cells and of these, 7 resembled the common luminal epithelial cell type in the profile of keratins expressed. These cells express keratins 7, 8, 18, and 19 homogeneously and do not express keratin 14 or vimentin; a polymorphic epithelial mucin produced in vivo by luminal cells is expressed heterogeneously and the pattern of fibronectin staining is punctate. Although the cell lines have a reduced requirement for added growth factors, they do not grow in agar or produce tumors in the nude mouse. When the v-Ha-ras oncogene was introduced into two of the cell lines by using a recombinant retrovirus, most of the selected clones senesced, but one entered crisis and emerged after 3 months as a tumorigenic cell line.
ProteoMix: an integrated and flexible system for interactively analyzing large numbers of protein sequences (2004)

ProteoMix is freely available for academic users at http://bio.gsc.riken.jp/ProteoMix/
Asymmetric Resilience for Accelerator-Rich Systems (2019)

Accelerators are becoming popular owing to their exceptional performance and power-efficiency. However, researchers are yet to pay close attention to their reliability-a key challenge as technology scaling makes building reliable systems challenging. A straightforward solution to make accelerators reliable is to design the accelerator from the ground-up to be reliable by itself. However, such a myopic view of the system, where each accelerator is designed in isolation, is unsustainable as the number of integrated accelerators continues to rise in SoCs. To address this challenge, we propose a paradigm called “asymmetric resilience” that avoids accelerator-specific reliability design. Instead, its core principle is to develop the reliable heterogeneous system around the CPU architecture. We explain the implications of architecting such a system and the modifications needed in a heterogeneous system to adopt such an approach. As an example, we demonstrate how to use asymmetric resilience to handle GPU execution errors using the CPU with minimal overhead. The general principles can be extended to include other accelerators.
Key technology developments of active optical package (AOP) substrate for co-packaging of silicon photonics (2020)

In high performance computer systems and large-scale data centers, data movement becomes a critical problem. To overcome this problem, co-packaging technology, which realizes high density integration of optical modules and switch ASICs (application specific integrated circuits) in one small package, is attracted much attention. Due to the multiple photonics dies and the ASICs are integrated in a small volume, low-latency, high-bandwidth-density and low-power data transfer can be realized. To provide the co-packaging technology compatible with standard large-scale integration (LSI) packaging process, we have proposed a new package substrate called active optical package (AOP) substrate. The AOP substrate is an organic package substrate where Si photonics dies are embedded. On the surface of the substrate, fan-out polymer waveguides, connecting high density Si-photonics I/O and low density single-mode fiber array, are integrated. The polymer waveguides and the SMF is connected using an optical connector at the edge of the AOP substrate. Thus, the AOP substrate will be used as same as conventional standard package substrates. Only a different point is to connect a pluggable optical fiber. In this paper, we introduce some key technologies for the AOP substrate.
Intravesical Antisense Therapy for Cystitis Using TAT-Peptide Nucleic Acid Conjugates (2006)

The present study investigated the potential of intravesical instillation for localized reduction of NGF (nerve growth factor) expression in the urinary bladder. Overexpression of NGF has been linked to the pathogenesis of interstitial cystitis (IC). A minimum free energy algorithm was used to predict suitable regions in mRNA of rat betaNGF, which can be targeted for an antisense approach. The candidate antisense oligos were evaluated for their ability to reduce NGF expression in vitro by cotransfecting HEK293 cells with NGF cDNA. A single oligonucleotide ODN sequence was chosen for testing in an acute cystitis model in rat induced by cyclophosphamide. Overexpression of NGF is known to mediate inflammation of bladder in this model. For improved stability, antisense ODN was replaced with antisense peptide nucleic acid (PNA) and its penetration into bladder was facilitated by tethering TAT peptide sequence. Rat bladders were instilled with either antisense or its scrambled control prior to cystitis induction. Cystometrograms performed on rats under urethane anaesthesia exhibited bladder contraction frequency that was significantly decreased in the antisense treated rats than rats treated with the control. NGF immunoreactivity was also decreased in the urothelium of the antisense treated bladders. Our findings demonstrate the feasibility of using TAT-PNA conjugates for intravesical antisense therapy.
Identification of new, well-populated amino-acid sidechain rotamers involving hydroxyl-hydrogen atoms and sulfhydryl-hydrogen atoms (2008)

Knowledge of these new rotamers will improve the evaluation of hydrogen-bonding networks in protein structures.
Enantioselective 1,4‐Addition of Aliphatic Grignard Reagents to Enones Catalyzed by Readily Available Copper(I) thiolates derived from TADDOL. Preliminary communication (1997)

Abstract Two simple thiols derived from the parent TADDOL, α,α,α′,α′ tetraphenyl‐2,2‐dimethyl‐1,3‐clioxolan‐4,5‐dimethanol, are used to prepare Cu 1 complexes C and D to catalyze (0.05 equiv.) 1,4‐additions of Grignard reagents RMgCl to cyclic enones with enantioselectivities which are comparable to or better than previously reported (enantiomer ratios up to 92:8).
Functional Genomics of Lung Disease (2004)

Jeffrey A. Whitsett, Cindy J. Bachurski, Kathleen C. Barnes, Paul A. Bunn, Jr., Lisa M. Case, Donald N. Cook, Denise Crooks, Mark W. Duncan, Lori Dwyer-Nield, Robert C. Elston, Michael B. Fessler, Wilbur A. Franklin, Nir Friedman, Joe G. N. Garcia, Mark W. Geraci, Connie Glasgow, Stephan W. Glasser, William D. Hardie, Lisa M. Henning, Gary L. Johnson, Kamon Kawkitinarong, Robert L. Keith, Thomas R. Korfhagen, George D. Leikauf, Stephen B. Liggett, Kenneth C. Malcolm, Alvin M. Malkinson, Thomas J. Mariani, Susan A. McDowell, Dennis W. McGraw, Mario Medvedovic, Joel Moss, Lawrence M. Nogee, Stephanie Nonas, Gustavo Pacheco-Rodriguez, Lyle J. Palmer, David G. Peters, Daniel R. Prows, Susan Redline, Aviv Regev, Maureen A. Sartor, David A. Schwartz, Edwin K. Silverman, Wendy K. Steagall, Robert S. Stearman, Angelo Taveira-DaSilva, Jay W. Tichelaar, Craig R. Tomlinson, Katsuya Tsukada, Timothy E. Weaver, Susan E. Wert, Scott C. Wesselkamper, G. S. Worthen, Yan Xu, Laura Zerbe, Yi Zhang, Yingze Zhang, Augustine M. K. Choi, and Naftali Kaminski
Magnetic reconnection in a non-Maxwellian neutral sheet. Interim report (1986)

The collisionless tearing-mode instability is believed to play an important role in magnetospheric reconnection processes. It has been found that the linear growth rate for a non-Maxwellian neutral sheet can be enhanced by a few orders of magnitude in comparison with the conventional isotropic case and that the short-wavelength perturbations (k delta is greater than 1) are strongly favored, where delta is the characteristic half-width of the neutral sheet. For typical magnetotail parameters, it is found that the linear e-folding time can be reduced to a small function of a minute. The resulting small-scale islands are expected to coalesce rapidly. The additional free energy is the particle energy is the form of non-Maxwellian distribution. Differential-equation analysis and full integro-differential analysis using exact unperturbed orbits are discussed. Physically, if non-Maxwellian features are generated in the plasma distribution by changes in external conditions such as the solar wind conditions, then the magnetotail may become strongly unstable, resulting in rapid development of small-scale islands, coalescence, and reconnection. This process may manifest itself as triggering of substorms following such changes.
Document visual similarity analysis and automated publishing (2012)

Managing large document databases has become an important task. Being able to automatically compare document layouts and classify and search documents with respect to their visual appearance proves to be desirable in many applications. We propose a new algorithm that calculates similarity function between documents based on their visual appearance. The comparison is based only on documents' visual appearance without taking into consideration its content. A user may wish to search for documents in a database that are similar to a query in terms of their stylistic features, or he/she may want to browse the whole database. In these tasks, clustering similar documents and organizing the document database with respect to the clusters is preferable to presenting documents in a random order. In the first part of the thesis, we present a document visual similarity measure function and propose organization of single-page documents in a 3-D hierarchical structure called a similarity pyramid. The pyramid is constructed from a stack of document database embeddings on a 2-D surface with the help of a nonlinear dimensionality reduction algorithm called Isomap. Higher levels of the pyramid consist of document image icons that represent a large group of roughly similar documents, whereas lower levels contain document image icons representing small groups of very similar documents. A user can browse the database by moving along a certain level of a pyramid by moving between different levels. 
In the second part of the thesis we address the problem of automated document layout composition. We present a new paradigm for automated document composition based on hierarchical probabilistic document model (HPDM) that models document composition. Newspaper style documents allow multiple articles to be allocated on the same page. The model formally incorporates key design variables such as content pagination, relative arrangement possibilities for page elements and possible page edits. Aesthetic parameters are modeled probabilistically from data provided by graphic designers. These design choices are modeled jointly as coupled random variables (a Bayesian Network) with uncertainty modeled by their probability distributions. The overall joint probability distribution for the network assigns higher probability to good design choices. Given this model, we show that the general document layout problem can be reduced to probabilistic inference over the Bayesian network.
EERC Center for Biomass Utilization 2006 (2009)

The Center for Biomass Utilization® 2006 project at the Energy & Environmental Research Center (EERC) consisted of three tasks related to applied fundamental research focused on converting biomass feedstocks to energy, liquid transportation fuels, and chemicals. Task 1, entitled Thermochemical Conversion of Biomass to Syngas and Chemical Feedstocks, involved three activities. Task 2, entitled Crop Oil Biorefinery Process Development, involved four activities. Task 3, entitled Management, Education, and Outreach, focused on overall project management and providing educational outreach related to biomass technologies through workshops and conferences.
Green Dioxythiophene-Benzothiadiazole Donor−Acceptor Copolymers for Photovoltaic Device Applications (2010)

With the perspective of producing power-generating displays of various colors based on π-conjugated semiconducting polymers, we have developed a synthetic design aimed at addressing color states commonly difficult to attain. Herein, we report on the structure−property relationships and performance in photovoltaic devices of a series of green-colored donor−acceptor (DA) π-conjugated polymers comprised of electron-rich 3,4-dioxythiophenes (DOTs) and the electron-deficient 2,1,3-benzothiadiazole (BTD). In particular, the synthesis and chemical polymerization of two DOT-BTD regiosymmetric oligomers (pentamers M2 and M3), that can be chemically oxidized to yield two-band absorbing polymers with a transmission window in the 480−560 nm range hence reflecting/transmitting the color green (P2 and P3), is reported. The optical and electrochemical properties of P2 and P3 are described and compared to those of a blue-colored parent polymer (P1) obtained via the polymerization of a smaller DOT-BTD oligomeric precursor (trimer M1). The photovoltaic (PV) properties of P1−P3 were investigated in DA bulk heterojunction (BHJ) devices with PC60BM as the acceptor. P2 and P3 afforded green-colored devices with up to 1.9% power conversion efficiency (PCE) under AM 1.5 G solar illumination. Taking into account the differences in polymer energy band structure, we have replaced PEDOT:PSS by MoO3 and optimized the solar-cell device configuration for the most efficient polymer derivative (P3), demonstrating up to a 2.71% PCE. Insight into the morphology and charge transport of these polymers in blends with PCBM is provided and related to the synthetic design and PV device performance.
Asphaltenes Size Polydispersity Reduction by Nano- and Ultrafiltration Separation Methods – Comparison with the Flocculation Method (2008)

Asphaltenes consist of a very complex material in which molecules and aggregates can have very different chemical composition and molecular weights. It is now well documented that asphaltenes show a very large size polydispersity. All these differences make their properties and behavior hard to describe. In order to gain insight into asphaltene properties, it could be useful to reduce this size polydispersity. Within this framework, two different approaches were used to reduce asphaltene size polydispersity: flocculation (using mixtures of solvents with anti-solvents) and membrane filtration. Various asphaltene fractions were obtained by both methods, and were further investigated using the following techniques: Size-Exclusion Chromatography (SEC), Elemental analysis, Nuclear Magnetic Resonance (13C-NMR) and Small-Angle X-ray Scattering (SAXS). It has been shown that asphaltenic aggregates of different sizes can be fractionated by membrane filtration in a more selective way than using the conventional solvent flocculation method. The effects of temperature and concentration on membrane separation performance were studied. When compared with large aggregates, small asphaltenic aggregates present lower aromaticity and higher aliphatic composition. Their alkyl chains also appear to be shorter and more alkylated. Elemental analysis indicates that smaller asphaltenes contain a lower metal concentration and are preferentially enriched in vanadium than nickel when compared with bigger aggregates.
Supplementary Figure S1 from miR-409-3p/-5p Promotes Tumorigenesis, Epithelial-to-Mesenchymal Transition, and Bone Metastasis of Human Prostate Cancer (2023)

&lt;p&gt;A, miR-409-5p and miR-409-3p binding sties in 3`UTR of RSU1 mRNA. B, Effect miR-409-5p mimic binding on 3` UTR of RSU1 luciferase construct, both wild type and mutated construct. Effect of miR-409-5p mimic and miR-409-3p mimic on STAG2 3`UTR luciferase construct measured by luciferase assay.&lt;/p&gt;
Miniature Telerobots in Space Applications (1995)

Ground controlled telerobots can be used to reduce astronaut workload while retaining much of the human capabilities of planning, execution, and error recovery for specific tasks. Miniature robots can be used for delicate and time-consuming tasks such as biological experiment servicing without incurring the significant mass and power penalties associated with larger robot systems. However, questions remain regarding the technical and economic effectiveness such mini-telerobotic systems. This paper addresses some of these open issues and the details of two projects which will be able to provide some of the needed answers. The Microtrex project is a joint University of Washington/NASA project which plans on flying a miniature robot as a Space-shuttle experiment to evaluate the effects of microgravity on groundcontrolled manipulation while subject to variable time-delay communications. A related project involving the University of Washington and Boeing Defense and Space will evaluate the effectiveness of using a minirobot to service biological experiments in a space station experiment &amp;quot;glove-box&amp;quot; rack mock-up, again while subject to realistic communications constraints. I.
Microbiopsy/precision cutting devices (2023)

Devices for performing tissue biopsy on a small scale (microbiopsy). By reducing the size of the biopsy tool and removing only a small amount of tissue or other material in a minimally invasive manner, the risks, costs, injury and patient discomfort associated with traditional biopsy procedures can be reduced. By using micromachining and precision machining capabilities, it is possible to fabricate small biopsy/cutting devices from silicon. These devices can be used in one of four ways 1) intravascularly, 2) extravascularly, 3) by vessel puncture, and 4) externally. Additionally, the devices may be used in precision surgical cutting.
Semipolar InGaN quantum-well laser diode with integrated amplifier for visible light communications (2018)

GaN-based semiconductor optical amplifier (SOA) and its integration with laser diode (LD) is an essential building block yet to be demonstrated for III-nitride photonic integrated circuits (PICs) at visible wavelength. This paper presents the InGaN/GaN quantum well (QW) based dual-section LD consisting of integrated amplifier and laser gain regions fabricated on a semipolar GaN substrate. The threshold current in the laser gain region was favorably reduced from 229mA to 135mA at SOA driving voltages, V<sub>SOA</sub>, of 0V and 6.25V, respectively. The amplification effect was measured based on a large gain of 5.7 dB at V<sub>SOA</sub> = 6.25V from the increased optical output power of 8.2 mW to 30.5 mW. Such integrated amplifier can be modulated to achieve Gbps data communication using on-off keying technique. The monolithically integrated amplifier-LD paves the way towards the III-nitride on-chip photonic system, providing a compact, low-cost, and multi-functional solution for applications such as smart lighting and visible light communications.
Production of tetravalent dengue virus envelope protein domain III based antigens in lettuce chloroplasts and immunologic analysis for future oral vaccine development (2018)

Dengue fever is a mosquito (Aedes aegypti) -transmitted viral disease that is endemic in more than 125 countries around the world. There are four serotypes of the dengue virus (DENV 1-4) and a safe and effective dengue vaccine must provide protection against all four serotypes. To date, the first vaccine, Dengvaxia (CYD-TDV), is available after many decades' efforts, but only has moderate efficacy. More effective and affordable vaccines are hence required. Plants offer promising vaccine production platforms and food crops offer additional advantages for the production of edible human and animal vaccines, thus eliminating the need for expensive fermentation, purification, cold storage and sterile delivery. Oral vaccines can elicit humoural and cellular immunity via both the mucosal and humoral immune systems. Here, we report the production of tetravalent EDIII antigen (EDIII-1-4) in stably transformed lettuce chloroplasts. Transplastomic EDIII-1-4-expressing lettuce lines were obtained and homoplasmy was verified by Southern blot analysis. Expression of EDIII-1-4 antigens was demonstrated by immunoblotting, with the EDIII-1-4 antigen accumulating to 3.45% of the total protein content. Immunological assays in rabbits showed immunogenicity of EDIII-1-4. Our in vitro gastrointestinal digestion analysis revealed that EDIII-1-4 antigens are well protected when passing through the oral and gastric digestion phases but underwent degradation during the intestinal phase. Our results demonstrate that lettuce chloroplast engineering is a promising approach for future production of an affordable oral dengue vaccine.