gebhart/patrepeval huggingface dataset:
Advances in c-based parallel design of MP-SOCs (2006)

As the main stream of system-on-a-chip (SOC) architectures is gradually switching from single processor to multiprocessor (MP) constellations, availability of easy-to-use/migrate parallel design methodologies are becoming more and more important. C-based design methodologies provide potentially easy migration path in SOC design, but they have traditionally lacked general purpose and easy-to-use tools for exploiting parallelism. However, recent advances in c-based design of MP-SOCs, like introduction of the e-language--a simple parallel extension of c for a class of emulated shared memory MP-SOCs--and related design methodology promise to overcome these problems. In this paper we describe latest advances in e-based design, including an initial implementation of e for concurrent memory access-ready architectures, fast mode providing a significant boost in parallel construct performance for simple e-programs, and support for active memory operations that drops the lower bound of the execution time of certain logarithmic algorithms to the constant execution time class.
A human RNase E-like activity that cleaves RNA sequences involved in mRNA stability control. (1995)

We have detected an endoribonucleolytic activity in human cell extracts that processes the Escherichia coli 9S RNA and outer membrane protein A (ompA) mRNA with the same specificity as RNase E from E. coli. The human enzyme was partially purified by ion-exchange chromatography, and the active fractions contained a protein that was detected with antibodies shown to recognize E. coli RNase E. RNA containing four repeats of the destabilizing motif AUUUA and RNA from the 3' untranslated region of human c-myc mRNA were also found to be cleaved by E. coli RNase E and its human counterpart in a fashion that may suggest a role of this activity in mammalian mRNA decay. It was also found that RNA containing more than one AUUUA motif was cleaved more efficiently than RNA with only one or a mutated motif. This finding of a eukaryotic endoribonucleolytic activity corresponding to RNase E indicates an evolutionary conservation of the components of mRNA degradation systems.
Verdinexor, a Novel Selective Inhibitor of Nuclear Export, Reduces Influenza A Virus ReplicationIn VitroandIn Vivo (2014)

Antiviral drugs represent important means of influenza virus control. However, substantial resistance to currently approved influenza therapeutic drugs has developed. New antiviral approaches are required to address drug resistance and reduce the burden of influenza virus-related disease. This study addressed critical preclinical studies for the development of verdinexor (KPT-335) as a novel antiviral drug. Verdinexor blocks progeny influenza virus genome nuclear export, thus effectively inhibiting virus replication. Verdinexor was found to limit the replication of various strains of influenza A and B viruses, including a pandemic H1N1 influenza virus strain, a highly pathogenic H5N1 avian influenza virus strain, and a recently emerging H7N9 influenza virus strain. Importantly, oral verdinexor treatments, given prophylactically or therapeutically, were efficacious in limiting lung virus burdens in influenza virus-infected mice, in addition to limiting lung proinflammatory cytokine expression, pathology, and death. Thus, this study demonstrated that verdinexor is efficacious against influenza virus infection in vitro and in vivo.
Proceedings of the Thirtieth International Conference on Automated Planning and Scheduling, Nancy, France, October 26-30, 2020. (2020)

International audience
Contact Mode Guided Sampling-Based Planning for Quasistatic Dexterous Manipulation in 2D (2021)

The discontinuities and multi-modality introduced by contacts make manipulation planning challenging. Many previous works avoid this problem by pre-designing a set of high-level motion primitives like grasping and pushing. However, such motion primitives are often not adequate to describe dexterous manipulation motions. In this work, we propose a method for dexterous manipulation planning at a more primitive level. The key idea is to use contact modes to guide the search in a sampling-based planning framework. Our method can automatically generate contact transitions and motion trajectories under the quasistatic assumption. In the experiments, this method sometimes generates motions that are often pre-designed as motion primitives, as well as dexterous motions that are more task-specific <sup>1</sup>.
21st Century Locomotive Technology: Quarterly Technical Status Report 8 DOE/AL68284-TSR08 (2005)

Completed high pressure common rail system performance mapping at notch 8 to establish advanced fuel injection fuel savings entitlement. Investigated performance differences of several abradable coatings between full-scale tests and rub test coupons using post-run micrographic analysis. Demonstrated implementation of advanced energy management controls on hybrid locomotive. Began advanced energy storage detailed design; continued life-cycle subscale energy storage testing. Formulated trip optimization problem with hybrid locomotive, and evaluated first implementation to produce an optimal driving plan.
Localization of the gene encoding the α2/δ-subunits of the L-type voltage-dependent calcium channel to chromosome 7q and analysis of the segregation of flanking markers in malignant hyperthermia susceptible families (1994)

Malignant hyperthermia susceptibility (MHS) is an autosomal dominant disorder of skeletal muscle which manifests as a potentially fatal hypermetabolic crisis triggered by commonly used anaesthetic agents. The demonstration of genetic heterogeneity in MHS prompted the investigation of the roles played by calcium regulatory proteins other than the ryanodine receptor (RYR1), which is known to be linked to MHS in fewer than half of the European MHS families studied to date. Previously, we have excluded the genes encoding the skeletal muscle L-type voltage-dependent calcium channel alpha 1-, beta 1- and gamma-subunits as candidates for MHS. In this report, we describe the cloning and partial DNA sequence analysis of the gene encoding the alpha 2/delta-subunits, CACNL2A, and its localization on the proximal long arm of chromosome 7q. A new dinucleotide repeat marker close to CACNL2A was identified at the D7S849 locus and tested for linkage in six MHS families. D7S849 and flanking genetic markers were found to co-segregate with the MHS locus through 11 meioses in one, three-generation family. These results suggest that mutations in or near CACNL2A may be involved in some forms of this heterogeneous disorder.
Time-dependent thermal effects in current-modulated semiconductor lasers (1981)

The temporal dependence of the frequency shift in a current-modulated single-mode semiconductor laser is measured and compared with calculations based on solutions to the thermal diffusion equation. The effects of carrier density change, thermal diffusion in the semiconductor, and heat sink thermal resistance are identified.
Evidence for a role of the integrin VLA-4 in lympho-hemopoiesis. (1991)

Adhesion molecules are probably required for retention of maturing lymphocyte precursors in bone marrow, where they closely interact with and are dependent on stromal cells. Lymphomyeloid cell lines avidly adhere to cloned stromal cell lines in culture and screening pairs of these resulted in a selection strategy for a new monoclonal antibody to a leukocyte adhesion molecule. Immunoprecipitation analyses and comparison to a previously described antibody showed that it recognizes the alpha 4 chain of the integrin, VLA-4. This antibody totally inhibited lymphopoiesis and retarded myelopoiesis in long-term bone marrow cultures. A similar selection strategy resulted in two additional antibodies which define a single 100-kD species on stromal cells. This stromal cell adhesion molecule is a potential counter-receptor/ligand for VLA-4 on murine lympho-myeloid cells. Our findings suggest a new role for VLA-4 in lymphoid progenitor-microenvironment interactions. Recognition molecules that function in cell migration and inflammation in peripheral tissues may be important for steady-state lymphopoiesis within bone marrow.
??2-Microglobulin gene mutations in human melanoma cells (1997)

In recent years, the mechanisms underlying defects in the expression/function of human leukocyte antigen (HLA) class I antigens have been analyzed in an increasing number of melanoma cells, since these abnormalities are likely to have a negative impact on T-cell-based immunotherapy of melanoma. This article reviews the information about the molecular defects found in melanoma cell lines that do not express HLA class I antigens, following a concise description of the structure and assembly of HLA class I antigens. Distinct defects ranging from large deletions to point mutations in beta2-microglobulin genes have been found in melanoma cells. A mutation in an 8 base-pair CT repeat region of exon 1 has been found frequently in melanoma cell lines suggesting that this region of the beta2-microglobulin gene is a hot-spot for mutations. The effects of beta2-microglobulin mutations are mostly at the level of translation, emphasizing the importance of analyzing beta2-microglobulin expression at the protein level in melanoma lesions without detectable HLA class I antigen expression. Interestingly, many melanoma cell lines have additional defects that directly impact HLA class I antigen expression. Therefore, multiple mechanisms that affect the expression/function of HLA class I antigens appear to be available to melanoma cells to escape from immune recognition.
Hepatosplenic T-cell Lymphoma (HSTCL) in Patients Receiving Tumor Necrosis Factor Alpha (TNF-α) Inhibitors: A Review of Cases Reported to the Food and Drug Administration (FDA) (2010)

Purpose: Hepatosplenic T cell lymphoma (HSTCL) is a rare but lethal lymphoma. The Study of Biologic and Immunomodulator Naive Patients in Crohn's Disease (SONIC) trial has demonstrated the benefit of combining infliximab with an immunomodulator in moderate-to-severe Crohn's disease. Unfortunately, combined immunosuppresion is also a reported risk factor for the development of HSTCL, generally in pediatric male patients with inflammatory bowel disease (IBD). The purpose of the study is to review all cases of HSTCL reported to the FDA in patients receiving TNF-α blockers. Methods: The FDA adverse event reporting system (AERS) database is available for public access. Individual reports were downloaded as ASCII files and analyzed using a database created with the Access program (Microsoft Corp., Redmond, WA). The database was queried for lymphomas reported with the following biological agents: infliximab, (Remicade, Revellex), adalimumab, (Humira, Trudexa), certolizumab, (Cimzia), natalizumab (Tysabri) and etanercept (Enbrel). Full reports for all T-cell lymphomas including HSTCL were obtained from the FDA using the Freedom of Information Act. Results: A total of 2,097,223 files were downloaded from the FDA AERS system for the years 2004-2009. Twenty six cases of HSTCL (8 not previously described) were identified. Twenty three (89%) were in patients with IBD (3 in Ulcerative colitis) and three cases occurred in rheumatoid arthritis patients. Five cases (19%) were females. Seven cases (27%) occurred in patients > 50 yrs of age and 4 cases (15%) were seen in patients >65 yrs of age. Twenty three cases (89%) occurred in patients receiving a TNFα blocker and a second immunomodulator, including azathioprine (12 cases), 6-Mercaptopurine (9 cases) and methotrexate (1 case) and azathioprine with past use of methotrexate and leflunomide in 1 case. Twenty patients received infliximab, 3 received infliximab followed by adalimumab, 1 received infliximab followed by adalimumab then natalizumab and 2 received adalimumab. Seventeen cases were gammadelta tumor subtype, 5 were alpha-beta and 3 were unknown. One case showed trisomy 13 on chromosomal analysis, not typical of HSTCL. Twenty one (81%) patients were reported to have expired despite treatment. Conclusion: HSTCL is most common in pediatric males with IBD. However, adults, senior citizens, women and patients with rheumatoid arthritis receiving TNF-α blocking agents and immunomodulators are also at risk. Improved disease outcomes using combination therapy described in the SONIC trial should be tempered by reports of additional patient groups developing HCTCL.
Characterization of histone acylations links chromatin modifications with metabolism (2017)

Over the last decade, numerous histone acyl post-translational modifications (acyl-PTMs) have been discovered, of which the functional significance is still under intense study. Here, we use high-resolution mass spectrometry to accurately quantify eight acyl-PTMs in vivo and after in vitro enzymatic assays. We assess the ability of seven histone acetyltransferases (HATs) to catalyze acylations on histones in vitro using short-chain acyl-CoA donors, proving that they are less efficient towards larger acyl-CoAs. We also observe that acyl-CoAs can acylate histones through non-enzymatic mechanisms. Using integrated metabolomic and proteomic approaches, we achieve high correlation (R <sup>2</sup> > 0.99) between the abundance of acyl-CoAs and their corresponding acyl-PTMs. Moreover, we observe a dose-dependent increase in histone acyl-PTM abundances in response to acyl-CoA supplementation in in nucleo reactions. This study represents a comprehensive profiling of scarcely investigated low-abundance histone marks, revealing that concentrations of acyl-CoAs affect histone acyl-PTM abundances by both enzymatic and non-enzymatic mechanisms.
Conjugated Polyelectrolyte–Metal Nanoparticle Platforms for Optically Amplified DNA Detection (2009)

A conjugated polyelectrolyte (CPE)-silver nanoparticle platform for DNA-sensing applications is fabricated (see figure), which provides over 17-fold enhancement of dye emission intensity, as compared to the intrinsic dye emission observed atop a conventional glass surface. Examination of the distance-dependence amplification process reveals that the role of the silver nanoparticles is to increase the effective field experienced by the light-harvesting CPE, and the metal enhanced fluorescence of the CPE could be translated into higher dye signal intensities for the detection platform. Detailed facts of importance to specialist readers are published as ”Supporting Information”. Such documents are peer-reviewed, but not copy-edited or typeset. They are made available as submitted by the authors. Please note: The publisher is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.
Deep learning reveals predictive sequence concepts within immune repertoires to immunotherapy (2022)

T cell receptor (TCR) sequencing has been used to characterize the immune response to cancer. However, most analyses have been restricted to quantitative measures such as clonality that do not leverage the complementarity-determining region 3 (CDR3) sequence. We use DeepTCR, a framework of deep learning algorithms, to reveal sequence concepts that are predictive of response to immunotherapy. We demonstrate that DeepTCR can predict response and use the model to infer the antigenic specificities of the predictive signature and their unique dynamics during therapy. The predictive signature of nonresponse is associated with high frequencies of TCRs predicted to recognize tumor-specific antigens, and these tumor-specific TCRs undergo a higher degree of dynamic changes on therapy in nonresponders versus responders. These results are consistent with a biological model where the hallmark of nonresponders is an accumulation of tumor-specific T cells that undergo turnover on therapy, possibly because of the dysfunctional state of these T cells in nonresponders.
Bilateral time-scaling for control of task freedoms of a constrained nonholonomic system (2004)

We explore the control of a nonholonomic robot subject to additional constraints on the state variables. In our problem, the user specifies the path of a subset of the state variables (the task freedoms X/sub P/), i.e. a curve X/sub P/(s) where s/spl isin/[0,1] is a parameterization that the user chooses. We control the trajectory of the task freedoms by specifying a bilateral time-scaling s(t) which assigns a point on the path for each time t. The time-scaling is termed bilateral because there is no restriction on s(t), the task freedoms are allowed to move backwards along the path. We design a controller that satisfies the user directive and controls the remaining state variables (the shape freedoms X/sub R/) to satisfy the constraints. Furthermore, we attempt to reduce the number of control switchings, as these result in relatively large errors in our system state. If a constraint is close to being violated (at a switchings point), we back up X/sub P/ along the path for a small time interval and move X/sub S/ to an open region. We show that there are a finite number of switching points for arbitrary task freedom paths. We implement our control scheme on the Mobipulator and discuss a generalization to arbitrary systems satisfying similar properties.
Framtidens biobaserade byggande och boende : Slutrapport (2019)

The aim of the project "Biobased building and living for the future" was to create conditions for increased use of bio-based products and services in the construction sector in Sweden and Europe and to increase the competitiveness of the Swedish timber manufacturing industry. The project has shown ways to develop E-commerce, parts of the production where increased digitalization leads to increased capacity and quality, as well as solutions for development of floor systems, external walls and tall timber buildings. The project has shown development opportunities to increase the use of bio-based products that implemented will increase competitiveness. The project has been divided into eleven sub-projects to study the various aspects of external factors, market conditions and business models, process development and product development. Within each sub-project, several workshops have been carried out to jointly evaluate results and decide the next step in the sub-project. Through joint workshops, the partners have also been able to meet and share results across the sub-projects and spread knowledge and create networks within the industry. The last part is perceived as very valuable by both the companies and the academy / institute. For the joinery value chain, a current situation analysis has been carried out and shown how the development of E-commerce platforms must be combined with process development in order to have a large effect. The results will be utilized in the companies' strategy work ahead. For the timber building value chain, demonstrators have shown development opportunities for both process and product development. The next step for the companies is to evaluate the various solutions linked to their own production conditions.
Advances in Bolometer Technology for Fundamental Physics (2017)

In the last decade, cryogenic bolometers have provided increasingly improved resolution and sensitivity in particle and radiation detectors. Thermal particle detectors have proven their outstanding capabilities in different fields of fundamental physics, especially in rare event detection. Cryogenic incoherent detector arrays designed to detect millimeter-wave photons have helped enable precision measurements of anisotropies in the cosmic microwave background (CMB), providing a unique probe of early universe physics and helping to constrain parameters of particle physics such as the sum of the neutrino masses. We review the latest achievements of cryogenic particle detectors for direct detection searches for dark matter and double-[Formula: see text] decay, as well as for CMB measurements, and we discuss expected improvements aiming to increase the sensitivities of these experiments. An important challenge is the large-scale implementation of arrays of detectors such as transition edge sensors, especially in CMB polarization experiments. We describe the challenges of scaling up to these larger arrays, including fabrication throughput and development of new multiplexing electronics.
Supplementary Tables 1-6 from Novel Chemosensitive Single-Nucleotide Polymorphism Markers to Targeted Regimens in Metastatic Colorectal Cancer (2023)

&lt;p&gt;PDF file - 181K&lt;/p&gt;
Is the Wall of a Cellulose Fiber Saturated with Liquid Whether or Not Permeable with CO2Dissolved Molecules? Application to Bubble Nucleation in Champagne Wines (2004)

In this paper, the transversal diffusion coefficient D perpendicular of CO2 dissolved molecules through the wall of a hydrated cellulose fiber was approached, from the liquid bulk diffusion coefficient of CO2 dissolved molecules modified by an obstruction factor. The porous network between the cellulose microfibrils of the fiber wall was assumed being saturated with liquid. We retrieved information from previous NMR experiments on the self-diffusion of water in cellulose fibers to reach an order of magnitude for the transversal diffusion coefficient of CO2 molecules through the fiber wall. A value of about D perpendicular approximately 0.2D0 was proposed, D0 being the diffusion coefficient of CO2 molecules in the liquid bulk. Because most of bubble nucleation sites in a glass poured with carbonated beverage are cellulose fibers cast off from paper or cloth which floated from the surrounding air, or remaining from the wiping process, this result directly applies to the kinetics of carbon dioxide bubble formation from champagne and sparkling wines. If the cellulose fiber wall was impermeable with regard to CO2 dissolved molecules, it was suggested that the kinetics of bubbling would be about three times less than it is.
Crush Strength Analysis of Hollow Glass Microspheres (2018)

This chapter discusses the crush strength of the porous wall hollow glass microspheres (PWHGMs) by examining data collected from mechanical testing using the Weibull analysis. Microspheres were divided into test groups according to type of microsphere and microsphere diameter in an experiment. Crush strength was selected due to its being one of the easier properties to collect data for. It is a useful mechanical property to understand as many of the PWHGM applications require microspheres to undergo some form of compressive stress. Researchers conducted the experiment using a Micro Materials NanoTest system with a 100 micron diameter, diamond, flat end tip. Microsphere diameter was measured before each test and confirmation of fracture was determined using optical micrographs taken before and after testing using the nanoindenter's optical microscope. Samples used in the nanoindentation experiment consisted of microspheres adhered to a flat substrate. The adhesive also prevented the microspheres from flying off the substrate while inside a SEM.
Preparation of Au/Ag Alloy Particles by Spray Pyrolysis and Its Applications (2004)

Submicron particles of Au-Ag (gold-silver) binary alloy were directly prepared using an ultrasonic spray pyrolysis (SP) method. A stable solution of Au(OH)3/HNO3 and AgNO3/HNO3 was prepared without hydrochloric acid. The particles prepared were spherical in shape and had prescribed composition ratio of Au-Ag. The applications of Au-Ag particles as electronic and ornamental materials were investigated by fabricating electrode pastes as well as paint for use in pottery. The electrode made by the present alloy particles had a higher heat resistance than those of mechanically mixed Au/Ag particles. The paint on the pottery plate derived from Au/Ag alloy particles was slightly-blue mat gold color.