gebhart/patrepeval huggingface dataset:
Successful in vivo propagation of factor IX-producing hepatocytes in mice: Potential for cell-based therapy in haemophilia B (2008)

Cell-based therapies using isolated hepatocytes have been proposed to be an attractive application in the treatment of haemophilia B due to the normal production of coagulation factor IX (FIX) in these particular cells. Current cell culture technologies have largely failed to provide adequate isolated hepatocytes, so the present studies were designed to examine a new approach to efficiently proliferate hepatocytes that can retain normal biological function, including the ability to synthesize coagulation factors like FIX. Canine or human primary hepatocytes were transplanted into urokinase-type plasminogen activator-severe combined immunodeficiency (uPA/SCID) transgenic mice. Both donor hepatocytes from canines and humans were found to progressively proliferate in the recipient mouse livers as evidenced by a sharp increase in the circulating blood levels of species-specific albumin, which was correlated with the production and release of canine and human FIX antigen levels into the plasma. Histological examination confirmed that the transplanted canine and human hepatocytes were able to proliferate and occupy >80% of the host livers. In addition, the transplanted hepatocytes demonstrated strong cytoplasmic staining for human FIX, and the secreted coagulation factor IX was found to be haemostatically competent using specific procoagulant assays. In all, the results from the present study indicated that developments based on this technology could provide sufficient FIX-producing hepatocytes for cell-based therapy for haemophilia B.
Shape memory and mechanical properties of a Fe-Mn-Si-based shape memory alloy: Effect of crystallographic texture generated during additive manufacturing (2023)

The fcc-γ → hcp-ε → bcc-α' martensitic transformation of a Fe-Mn-Si-based shape memory alloy fabricated by laser powder bed fusion (LPBF) is studied for the first time by in-situ neutron diffraction, in-situ high-resolution electron backscatter diffraction and digital image correlation during uniaxial tensile testing. The comparison between horizontal specimens (fabricated with no inclination on the build platform) and vertical specimens (fabricated with 90° inclination on the build platform) shows that sample orientation affects the deformation and transformation behavior of the material, considerably influencing alloy's shape memory and mechanical properties. The reason for the variation in the alloy's behavior is found in the distinct crystallographic texture generated during the LPBF process. In the vertical samples, the preferential 〈1 1 0〉 orientation of grains along the loading direction facilitates the martensitic transformation, resulting in enhanced shape memory properties and pronounced work hardening.
2-Pyridyl P1′-Substituted Symmetry-Based Human Immunodeficiency Virus Protease Inhibitors (A-792611 and A-790742) with Potential for Convenient Dosing and Reduced Side Effects (2009)

A series of symmetry-based HIV protease inhibitors was designed and synthesized. Modification of the core regiochemistry and stereochemistry significantly affected the potency, metabolic stability, and oral bioavailability of the inhibitors, as did the variation of a pendent arylmethyl P3 group. Optimization led to the selection of two compounds, 10c (A-790742) and 9d (A-792611), for advancement to preclinical studies. Both compounds displayed low nanomolar potency against wild type HIV in the presence of human serum, low rates of metabolism in human liver microsomes, and high oral bioavailability in animal models. The compounds were examined in a preclinical model for the hyperbilirubinemia observed with some HIV PIs, and both exhibited less bilirubin elevation than comparator compounds. X-ray crystallographic analyses of the new cores were used to examine differences in their binding modes. The antiviral activity of the compounds against protease inhibitor resistant strains of HIV was also determined.
AlkB Influences the Chloroacetaldehyde-Induced Mutation Spectra and Toxicity in the pSP189 supF Shuttle Vector (2007)

2-Chloroacetaldehyde (CAA), a metabolite of the carcinogen vinyl chloride, reacts with DNA to form cyclic etheno ()-lesions. AlkB, an iron-/alpha-ketoglutarate-dependent dioxygenase, repairs 1, N (6)-ethenodeoxyadenosine (A) and 3, N (4)-ethenodeoxycytidine (C) in site-specifically modified single-stranded viral genomes in vivo and also protects the E. coli genome from the toxic effects of CAA. We examined the role of AlkB as a cellular defense against CAA by characterizing the frequencies, types, and distributions of mutations induced in the double-stranded supF gene of pSP189 damaged in vitro and replicated in AlkB-proficient (AlkB (+)) and AlkB-deficient (AlkB (-)) E. coli. AlkB reduced mutagenic potency and increased the survival of CAA-damaged plasmids. Toxicity and mutagenesis data were benchmarked to levels of -adducts and DNA strand breaks measured by LC-MS/MS and a plasmid nicking assay. CAA treatment caused dose-dependent increases in A, C, and 1, N (2)-ethenodeoxyguanosine (1, N (2)-G) and small increases in strand breaks and abasic sites. Mutation frequency increased in plasmids replicated in both AlkB (+) and AlkB (-) cells; however, at the maximum CAA dose, the mutation frequency was 5-fold lower in AlkB (+) than in AlkB (-) cells, indicating that AlkB protected the genome from CAA lesions. Most induced mutations in AlkB (-) cells were G:C to A:T transitions, with lesser numbers of G:C to T:A transversions and A:T to G:C transitions. G:C to A:T and A:T to G:C transitions were lower in AlkB (+) cells than in AlkB (-) cells. Mutational hotspots at G122, G123, and G160 were common to both cell types. Three additional hotspots were found in AlkB (-) cells (C133, T134, and G159), with a decrease in mutation frequency and change in mutational signature in AlkB (+) cells. These results suggest that the AlkB protein contributes to the elimination of exocyclic DNA base adducts, suppressing the toxic and mutagenic consequences induced by this damage and contributing to genetic stability.
A DWDD disc of 27-Gbit/in2land groove-recording using a blue laser and side-wall-annealing technique (2004)

We realized acceptable read/write performances at a track pitch of 320 nm and a bit length of 75 nm, even with an NA of 0.65 and a wavelength of 405 nm, using side-wall-annealing. In addition to this result, we suggested the possibility of a higher linear density; that is, a jitter value of less than 15% was obtained both on land and in groove at a bit length of 60 nm, which corresponds to an areal density of 34 Gbit/in 2 .
Contrasting processing tomato cultivars unlink yield and pollen viability under heat stress (2021)

Abstract The occurring climate change is causing temperature increment in crop production areas worldwide, generating conditions of heat stress that negatively affect crop productivity. Tomato ( Solanum lycopersicum ), a major vegetable crop, is highly susceptible to conditions of heat stress. When tomato plants are exposed to ambient day/night temperatures that exceed 32°C/20°C respectively during the reproductive phase, fruit set and fruit weight are reduced, leading to a significant decrease in yield. Processing tomato cultivars are cultivated in open fields, where environmental conditions are not controlled, therefore plants are exposed to multiple abiotic stresses, including heat stress. Understanding the physiological response of modern processing tomato cultivars to heat stress may facilitate the development of thermotolerant cultivars. Here, we compared two tomato processing cultivars, H4107 and H9780, that we found to be constantly differing in yield performance. Using field and temperature-controlled greenhouse experiments, we show that the observed difference in yield is attributed to the occurrence of heat stress conditions. In addition, fruit-set and seed production were significantly improved in the thermotolerant cultivar H4107, compared with H9780. Despite the general acceptance of pollen viability as a measure of thermotolerance, there was no difference in the percentage of viable pollen between H4107 and H9780 under either of the conditions tested. Therefore, processing tomato cultivars may present a particular case, in which other factors are central for heat stress tolerance. Our results also demonstrate the value of combining controlled with uncontrolled experimental settings, in order to identify heat stress related responses and facilitate the development of thermotolerant processing tomato cultivars.
Stereospecific synthesis of unnatural β-L-enantiomers of 2-chloroadenine pentofuranonucleoside derivatives (1999)

2′,3′-Dideoxy- (1), 2′,3′-unsaturated- (2), 2′,3′-dideoxy-3′-fluoro- (3), 3′-azido-2′,3′-dideoxy- (4) and 2′-deoxy- (5) β-L-ribofuranonucleosides of 2-chloroadenine have been synthesised and their antiviral properties examined. All these derivatives were stereospecifically prepared by glycosylation of 2,6-dichloropurine with a suitable peracylated L-xylo-furanose (6). Treatment of the resulting protected β-L-nucleoside with methanolic ammonia followed by appropriate chemical modifications gave the 2-chloro-9-(2-deoxy-β-L-threo-pentofuranosyl)adenine 11. Its 5′-O-benzoyl derivative 12 was then converted to nucleosides 1 and 2 via radical deoxygenation reaction or base-promoted β-elimination of the corresponding mesyl ester. Additionally, compounds 3–5 were obtained from 12 either by reaction with (diethylamino)sulfur trifluoride or via Mitsunobu reactions using diphenylphosphoryl azide or benzoic acid as incoming nucleophiles. The prepared compounds were tested for their activity against HIV and HBV viruses, but they did not show significant antiviral activity nor cytotoxicity.
Contagious Bovine and Caprine Pleuropneumonia: a research community's recommendations for the development of better vaccines. (2021)

Contagious bovine pleuropneumonia (CBPP) and contagious caprine pleuropneumonia (CCPP) are major infectious diseases of ruminants caused by mycoplasmas in Africa and Asia. In contrast with the limited pathology in the respiratory tract of humans infected with mycoplasmas, CBPP and CCPP are devastating diseases associated with high morbidity and mortality. Beyond their obvious impact on animal health, CBPP and CCPP negatively impact the livelihood and wellbeing of a substantial proportion of livestock-dependent people affecting their culture, economy, trade and nutrition. The causative agents of CBPP and CCPP are Mycoplasma mycoides subspecies mycoides and Mycoplasma capricolum subspecies capripneumoniae, respectively, which have been eradicated in most of the developed world. The current vaccines used for disease control consist of a live attenuated CBPP vaccine and a bacterin vaccine for CCPP, which were developed in the 1960s and 1980s, respectively. Both of these vaccines have many limitations, so better vaccines are urgently needed to improve disease control. In this article the research community prioritized biomedical research needs related to challenge models, rational vaccine design and protective immune responses. Therefore, we scrutinized the current vaccines as well as the challenge-, pathogenicity- and immunity models. We highlight research gaps and provide recommendations towards developing safer and more efficacious vaccines against CBPP and CCPP.
Combining Neural Networks and Tree Search for Task and Motion Planning\n in Challenging Environments (2017)

We consider task and motion planning in complex dynamic environments for\nproblems expressed in terms of a set of Linear Temporal Logic (LTL)\nconstraints, and a reward function. We propose a methodology based on\nreinforcement learning that employs deep neural networks to learn low-level\ncontrol policies as well as task-level option policies. A major challenge in\nthis setting, both for neural network approaches and classical planning, is the\nneed to explore future worlds of a complex and interactive environment. To this\nend, we integrate Monte Carlo Tree Search with hierarchical neural net control\npolicies trained on expressive LTL specifications. This paper investigates the\nability of neural networks to learn both LTL constraints and control policies\nin order to generate task plans in complex environments. We demonstrate our\napproach in a simulated autonomous driving setting, where a vehicle must drive\ndown a road in traffic, avoid collisions, and navigate an intersection, all\nwhile obeying given rules of the road.\n
Towards an access control scheme for accessing flows in SDN (2015)

Sharing network resources with user groups, divisions, or even other companies in software defined networking promises better network utilization. Resource sharing is effectively realized by empowering these tenants at the control plane with permissions for administrating network components. However, since the network resources at the data plane are shared and different tenants can have competing objectives, mechanisms are needed to protect the network resources from unauthorized access. In this paper, we propose mechanisms that focus on protecting the network flows, which are determined by the entries installed in the flow tables of the shared switches. To this end, we present an access control scheme, based on the OpenFlow model, for accessing the switches' flow tables and their entries. Our scheme accounts for various security requirements in multi-tenant networks, including requirements on sharing flow table entries for handling network flows, and the resolution of conflicts originating from the reconfiguration of network components.
Dialkyl Peroxide-Induced Reductions of Aromatic Ketones (1963)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTDialkyl Peroxide-Induced Reductions of Aromatic KetonesEarl S. Huyser and Douglas C. NeckersCite this: J. Am. Chem. Soc. 1963, 85, 22, 3641–3644Publication Date (Print):November 1, 1963Publication History Published online1 May 2002Published inissue 1 November 1963https://pubs.acs.org/doi/10.1021/ja00905a024https://doi.org/10.1021/ja00905a024research-articleACS PublicationsRequest reuse permissionsArticle Views81Altmetric-Citations20LEARN 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-Alertsclose Get e-Alerts
Volatile Compounds from Flowers (1993)

A short survey of the different procedures for the isolation of volatile constituents from fragrant flowers is presented. It is shown, that the three most common methods (dynamic and vacuum headspace sampling, steam distillation) give concentrates whose composition differs both quantitatively and, in many cases, qualitatively. Various results are used by way of example in an attempt to explain how and in what way the different processes lead to different products. The range of usefulness of each method is discussed. For perfumery applications we prefer to use the vacuum headspace technique, which produces odor concentrates with the best sensory properties. Some of the results of these investigations are presented in detail.
Simulation of Particle Movement on Vibrating Conveyors (1999)

For some time past the calculation of particle transport on vibrating supports has been executed with the help of the analysis of single particle movement. In recent years some approach on the calculation of particle transport as a multiple-body system has even been presented. Comparisons with experiments, however, showed that even the simple problem of particle impact on solid planes has not yet been described sufficiently. For this reason, the transport behavior of single particles is investigated with different impact models in a two-dimensional simulation. The results are compared with experimental data presented by the authors.
Network tomography: New rigorous approaches for discrete and continuous problems (2014)

We consider several rigorously defined network tomography problems from applications ranging from communication networks, to social networks. The universal abstraction we develop involves the inference of various network structural and parametric properties form observations of certain “probing” processes from a subset of network nodes which we call the boundary nodes of the network. We show that these problems lead to mathematical problems of “deconvolution” over unconventional semirings, inversion of integrals over trees of the underlying graph, Radon transform over symmetric spaces, and completion of sparse matrices albeit in non-conventional semirings. We illustrate applications in several applied problems. Some of the problem formulations and solutions are inspired by generalizations of “electric impedance problems” in various non-nonconventional spaces. Some of the solutions have a variational interpretation.
Supplementary Table 3 from BET Bromodomain Inhibition of <i>MYC</i>-Amplified Medulloblastoma (2023)

&lt;p&gt;PDF file - 63K, MYC gene sets enriched in medulloblastoma samples with high expression of MYC isoforms.&lt;/p&gt;
Acute rhabdomyolysis in patients infected by human immunodeficiency virus (1994)

To delineate the spectrum of rhabdomyolysis associated with human immunodeficiency virus (HIV) infection, we reviewed the clinical and pathologic data from nine HIV-infected individuals with acute rhabdomyolysis, and pooled data with those of 11 previously reported cases. Patients with rhabdomyolysis were at all stages of HIV infection and could be classified into three groups: (1) HIV-associated rhabdomyolysis (7 of 20), including rhabdomyolysis in primary HIV infection, recurrent rhabdomyolysis, and isolated rhabdomyolysis; (2) rhabdomyolysis induced by drugs (6 of 20), including didanosine; and (3) rhabdomyolysis at the end stage of acquired immunodeficiency syndrome (7 of 20), including opportunistic infections of muscle and rhabdomyolysis without a definite cause. Because prognosis, in part, depends on the cause of rhabdomyolysis, recognition of drug-induced or opportunistic infectious muscle disorders is required.
Retroviral Integrase, Putting the Pieces Together (1996)

Retroviral integrase (IN)1 mediates retroviral DNA integration, a critical step in viral replication that ensures stable expression of proviral genes in the infected cell and perpetuation of the viral genome in all the host cell progeny. The IN protein is both necessary and sufficient for the integration of a linear DNA with viral end sequences into a target DNA in vitro (1, 2). The integration reaction is known to take place in two distinct steps (see Fig. 1). IN specifically recognizes sequences at both ends of newly synthesized viral DNA, most likely as a component of a large subviral preintegration complex.
Role of 3D photo-resist simulation for advanced technology nodes (2013)

3D Resist Models are gaining significant interest for advanced technology node development. Correct prediction of resist profiles, resist top-loss and top-rounding are acquiring higher importance in ORC hotspot verification due to impact on etch resistance and post etch results. We would like to highlight the specific calibration procedure to calibrate a rigorous 3D model. Special focus is on the importance of high quality metrology data for both a successful calibration and for allowing a reduction of the number of data points used for calibration [1]. In a productive application the calibration could be performed using a subset of 20 features measured through dose and focus and model validation was done with 500 features through dose and focus. This data reduction minimized the actual calibration effort of the 3D resist model and enabled calibration run times of less than one hour. The successful validation with the complete data set showed that the data reduction did not cause over- fitting of the model. The model is applied and verified at hotspots showing defects such as bottom bridging or top loss that would not be visible in a 2D resist model. The model performance is also evaluated with a conventional CD error metric where CD at Bottom of simulation and measurement are compared. We could achieve excellent results for both metrics using SEM CD, SEM images, AFM measurements and wafer cross sections. Additional modeling criterion is resist model portability. A prerequisite is the separability of resist model and optical model, i.e. the resist model shall characterize the resist only and should not lump characteristics from the optical model. This is a requirement to port the resist model to different optical setups such as another illumination source without the need of re-calibration. Resist model portability is shown by validation and application of the model to a second process with significantly different optical settings. The resist model can predict hot spots and CDs for the second litho process with the same quality as for the process it was calibrated to.
DESIGN OF A NOVEL CONCEPT OF SYNCHRONOUS MOTOR FOR TORQUE RIPPLE IMPROVEMENT (2017)

International audience
Effect of Passive Reflectors on the Coverage of IEEE 802.11ad mmWave Systems (2018)

Millimeter wave (mmWave) communications can provide high speed data rate for 5G wireless networks, taking advantage of the large bandwidth available at mmWave frequencies. It is also well known that mmWave links may suffer from outages due to non-line-of-sight (NLOS) propagation problems. In this paper, we study the characteristics of IEEE~802.11ad based mmWave systems at 60~GHz, and investigate the effect of passive reflectors for improving coverage. The experiments are performed using Tensorcom single chip TC60G-USB3-EVB and TC60G70100UP picocell platforms in different indoor and outdoor environments, both supporting beamforming based on IEEE~802.11ad specifications. Our results show that the passive metallic reflectors may signifciantly improve the mmWave signal coverage in regions where the line-of-sight (LOS) connectivity between the transmitter and the receiver is limited.
Bioreactors including enzyme-embedded multicomponent polymers (2023)

According to one general embodiment, a membrane, includes a polymeric network configured to separate a first fluid and a second fluid, where the first and second fluids are different; and a plurality of enzymatic reactive components embedded within the polymeric network. According to another embodiment, a bioreactor includes a lattice of three dimensional structures, each structure including a membrane having: a polymeric network configured to separate a first fluid and a second fluid, where the first and second fluids are different; and a plurality of enzymatic reactive components embedded within the polymeric network.
Synthesis of Phthalimides: A New Entry via TBAI-Catalyzed Intramolecular Cyclization of 2-(Hydroxymethyl)benzamides (2018)

Herein we report an unprecedented metal-free TBAI/TBHP mediated C–N bond formation via intramolecular cyclization of 2-(hydroxymethyl)benzamides to furnish N-substituted phthalimides in excellent yields.