gebhart/patrepeval huggingface dataset:
Preparation and characterization of liposomal-lipophilic tumor necrosis factor. (1991)

The liposomal delivery of recombinant human tumor necrosis factor (rHuTNF) has been shown to be effective in reducing its toxic effects and in its targeting of organs rich in cells of the reticuloendothelial system. However, native recombinant human TNF shows only poor affinity for liposomes, presumably due to its low hydrophobicity. In an attempt to increase the efficiency of association with liposomes, we have modified TNF to increase its hydrophobicity by selective substitution of its amino groups with fatty acid side chains. N-hydroxysuccinimide esters of saturated fatty acids ranging from C8 to C18 were reacted with recombinant human TNF. Modification with esters of C8 to C14 acids occurred as determined by consumption of positively charged amino groups monitored by native polyacrylamide gel electrophoresis; however, esters of longer chain lengths (C16, C18) were much less capable of introducing these chains via amide linkages, and thus these adducts were not further characterized. Biological assays revealed that retention of activity was inversely dependent both on the number of chains introduced and on their length; activity was most conserved (greater than 50%) in a TNF preparation modified with only approximately 1-2.5 caprylic acid (C8) residues/trimer. This preparation was found to bind with high efficiency (approximately 50%) to preformed dipalmitoylphosphatidylcholine-small unilamellar vesicles. The extent of binding closely paralleled both the number of chains introduced and their length; binding was even more efficient (80-90%) for TNF modified either with approximately 3.5 caprylic acid residues/trimer or with approximately 1.5 residues of myristic acid (C14). However, the biological activity of these acylated TNFs was further reduced by this more extensive chemical modification (less than 50% activity for C8 and less than 10% for C14). The biological activity of dipalmitoylphosphatidylcholine-small unilamellar vesicle-C8-TNF was found to be comparable to that of the nonliposomal C8-TNF. Thus, biologically active preparations of liposomal-lipophilic TNF can be prepared with high efficiency.
The Design, Implementation, and Deployment of a System to Transparently Compress Hundreds of Petabytes of Image Files for a File-Storage Service (2017)

We report the design, implementation, and deployment of Lepton, a fault-tolerant system that losslessly compresses JPEG images to 77% of their original size on average. Lepton replaces the lowest layer of baseline JPEG compression-a Huffman code-with a parallelized arithmetic code, so that the exact bytes of the original JPEG file can be recovered quickly. Lepton matches the compression efficiency of the best prior work, while decoding more than nine times faster and in a streaming manner. Lepton has been released as open-source software and has been deployed for a year on the Dropbox file-storage backend. As of February 2017, it had compressed more than 203 PiB of user JPEG files, saving more than 46 PiB.
Privacy-Preserving Social Media Data Outsourcing (2018)

User-generated social media data are exploding and of high demand in public and private sectors. The disclosure of intact social media data exacerbates the threats to user privacy. In this paper, we first identify a text-based user-linkage attack on current data outsourcing practices, in which the real users in an anonymized dataset can be pinpointed based on the users' unprotected text data. Then we propose a framework for differentially privacy-preserving social media data outsourcing for the first time in literature. Within our framework, social media data service providers can outsource perturbed datasets to provide users differential privacy while offering high data utility to social media data consumers. Our differential privacy mechanism is based on a novel notion of E - text indistinguishability, which we propose to thwart the text-based user-linkage attack. Extensive experiments on real-world and synthetic datasets confirm that our framework can enable high-level differential privacy protection and also high data utility.
ASFV-G-∆I177L as an Effective Oral Nasal Vaccine against the Eurasia Strain of Africa Swine Fever (2021)

The African swine fever virus (ASFV) is currently causing a pandemic affecting wild and domestic swine from Western Europe to Asia. No commercial vaccines are available to prevent African swine fever (ASF), resulting in overwhelming economic losses to the swine industry. We recently developed a recombinant vaccine candidate, ASFVG-ΔI177L, by deleting the I177L gene from the genome of the highly virulent ASFV strain Georgia (ASFV-G). ASFV-G-ΔI177L has been proven safe and highly efficacious in challenge studies using parental ASFV-G. Here, we present data demonstrating that ASFV-G-ΔI177L can be administered by the oronasal (ON) route to achieve a similar efficacy to that of intramuscular (IM) administration. Animals receiving ON ASFV-G-ΔI177L were completely protected against virulent ASFV-G challenge. As previously described, similar results were obtained when ASFV-G-ΔI177L was given intramuscularly. Interestingly, viremias induced in animals inoculated oronasally were lower than those measured in IM-inoculated animals. ASFV-specific antibody responses, mediated by IgG1, IgG2 and IgM, do not differ in animals inoculated by the ON route from that had IM inoculations. Therefore, the ASFV-G-ΔI177L vaccine candidate can be administered oronasally, a critical attribute for potential vaccination of wild swine populations.
MEMS platform for on-chip nanomechanical experiments with strong and highly ductile nanofibers (2010)

A new nanoscale tension testing platform with on-chip actuation and the unique capability for nanoscale mechanical characterization of highly deformable and strong nanostructures is presented. The specimen force and extension measurements are based on optical imaging, supported by digital image correlation, which allows the resolution of 20 nm specimen extensions and force measurements better than 30 nN, without the use of high-resolution electron microscopy. The breakthrough of this nanomechanical testing platform is the ability to study the mechanical behavior of nanostructures subjected to a wide range of forces (30 nN–300 µN) and displacements (20 nm–100 µm), which are significantly beyond the limits of typical surface micromachined MEMS with on-chip actuators, such as comb-drives and thermal actuators. The utility of this device in experimental nanomechanics is demonstrated by investigating the mechanical behavior of electrospun polyacrylonitrile nanofibers with diameters of 200–700 nm subjected to strains as high as 200%. The mechanical property measurements were compared to and agreed well with off-chip measurements by an independent testing method, which validates the capability of this on-chip testing platform to characterize strong and highly ductile nanomaterials.
Very High Specific Area Lithium-Air Battery (2013)

Unlike traditional batteries, the lithium-air cell is an open system by definition, since it needs to have access to oxygen from the surrounding air to work. This has important implications on the cell design. The traditional lithium-ion or LMP (lithium metal polymer) sealed designs can no longer be applied and completely new architectures need to be developed. For example, very large, very thin electrodes tightly wound into cylindrical cells or folded into prismatic cells will be difficult to use since they would lead to air starvation. Positive and negative compartments with high specific surface area capacities therefore need to be developed in order to reduce the size of the electrodes packed into a cell. As a consequence, the negative electrode needs to be able cycle over much greater lithium thicknesses than a lithium battery in order to limit its size. Large amounts of the discharge product per geometrical area unit also have to be stored in the positive electrode. In the aqueous lithium-air design developed by EDF and its partners, the areal capacity of the positive electrode is not limited since the product of the reaction is stored as solid LiOH.H 2 O in the aqueous electrolyte compartment, and not in the air electrode as in the anhydrous design. The precipitation of LiOH in the aqueous compartment have little impact on the performance of the cell, even up 80% solid LiOH.H 2 O by volume. Cells that can be charged to more than 100 mAh/cm² on the negative electrode have been obtained.
Sensor materials for the detection of human neutrophil elastase and cathepsin G activity in wound fluid (2011)

Human neutrophil elastase (HNE) and cathepsin G (CatG) are involved in the pathogenesis of a number of inflammatory disorders. These serine proteinases are released by neutrophils and monocytes in case of infection. Wound infection is a severe complication regarding wound healing causing diagnostic and therapeutic problems. In this study we have shown the potential of HNE and CatG to be used as markers for early detection of infection. Significant differences in HNE and CatG levels in infected and non-infected wound fluids were observed. Peptide substrates for these two enzymes were successfully immobilised on different surfaces, including collagen, modified collagen, polyamide polyesters and silica gel. HNE and CatG activities were monitored directly in wound fluid via hydrolysis of the chromogenic substrates. Infected wound fluids led to significant higher substrate hydrolysis compared with non-infected ones. These different approaches could be used for the development of devices which are able to detect elevated enzyme activities before manifestation of infection directly on bandages. This would allow a timely intervention by medical doctors thus preventing severe infections.
Two autosomal dominant neuropathies result from reciprocal DNA duplication/deletion of a region on chromosome 17 (1994)

Charcot-Marie-Tooth disease type 1A (CMT1A) is a common autosomal dominant demyelinating neuropathy that is associated with a 1.5 megabase (Mb) tandem DNA duplication in chromosome 17p11.2-p12. Hereditary neuropathy with liability to pressure palsies (HNPP, tomaculous neuropathy) is another less frequently diagnosed autosomal dominant neuropathy and is associated with a 1.5 Mb deletion in chromosome 17p11.2-12. Meiotic unequal crossover is a proposed mechanism for the generation of both the duplication in CMT1A and the deletion in HNPP. CMT1A-REP is a repeat that flanks the region which is duplicated/deleted in CMT1A/HNPP. The CMT1A-REP repeat sequence may mediate unequal crossover through misalignment of the homologous, repeated sequences. Three copies of the CMT1A-REP repeat are present on stably inherited CMT1A duplication chromosomes. In this report, molecular analysis in multiple patients detected three copies of the CMT1A-REP sequence on both inherited and de novo CMT1A duplication chromosomes, and one copy of the CMT1A-REP repeat on the deleted chromosome in both inherited and de novo HNPP. These observations support the hypothesis that a reciprocal recombination mechanism involving the CMT1A-REP is responsible for the generation of both the duplicated and deleted chromosomes, and document the first examples in humans of Mendelian syndromes resulting from the reciprocal products of unequal exchange involving large intra-chromosomal segments.
Reducing error accumulation effect in multithreaded memory systems (2006)

Chip multithreading is exposed to dual challenges of increasing chip complexity and design variations. It is important to develop effective reliability-enhancing schemes to ensure robust computing. In this paper, we propose the immediate write-back and self-recovery schemes to reduce error accumulation effect in multithreaded memory systems. These schemes are built upon the previously proposed dynamic multithreading redundancy technique for improving reliability in multithreaded architectures. The idea of DMR is to exploit self-generated hardware redundancy due to inter-thread variations inherent in multithreaded architectures. Simulation results demonstrate that the proposed solutions improve error-control performance with minimal hardware overheads. The proposed immediate write-back and self-recovery schemes also feature good scalability for future process generations
Differentiation of human pluripotent stem cells into functional airway basal stem cells (2021)

Airway basal cells play an essential role in the maintenance of the airway epithelium. Here, we provide a detailed directed differentiation protocol to generate ''induced basal cells (iBCs)'' from human pluripotent stem cells. iBCs recapitulate biological and functional properties of airway basal cells including mucociliary differentiation <i>in vitro</i> or <i>in vivo</i> in tracheal xenografts, facilitating the study of inherited and acquired diseases of the airway, as well as potential use in regenerative medicine. For complete details on the use and execution of this protocol, please refer to Hawkins et al. (2021).
Preparation of a nanopatterned polymer replica for reducing catheter infection (2014)

Polydimethylsiloxane (PDMS) has been used for short and long-term indwelling catheters. However, PDMS shunt tubing has been scrutinized recently because of their extremely high failure rates. While there are many reasons why PDMS shunt systems fail, one is catheter-associated infection. <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">[1]</sup> It is hypothesized that nanotextured and nanotubular surfaces can be carefully manipulated to inhibit bacteria responses while remaining non-toxic due to their unique surface energy properties which have the ability to control initial protein absorption and subsequent cell behaviors. The objective of this in vitro study was to create nanopatterned PDMS molds based on anodized titanium (Ti) and anodized stainless steel (S.S) and test fibroblast and bacteria responses on such substrates. Results show promise for the use of such nanopatterned PDMS for improving catheter applications.
A Self-Balanced Bidirectional Medium-/High-Voltage Hybrid Modular DC–DC Converter With Low-Voltage Common DC-Link and Sequential Charging/Discharging of Submodules Capacitors (2018)

This paper proposes a medium-/high-voltage high-power hybrid modular dc-dc converter to interconnect two different dc-voltage levels in medium-/high-voltage dc grids. The converter consists of half-bridge submodules (SMs) rated at a moderate voltage level, i.e., series connection of semiconductor devices is avoided while connecting two high dc-voltage levels. The proposed architecture provides self-balancing operation, i.e., unlike conventional modular converters, no need for capacitor voltage measurement, which enhances the system reliability and simplicity. Sequential charging/discharging of SMs capacitors is adopted in the proposed approach to ensure a self-balanced operation. The proposed architecture can provide a high conversion ratio as well as power transfer in both directions, i.e., bidirectional dc-dc converter. Detailed illustration of the proposed approach operational concept, design, and overall control system is presented. Simulation and experimental results are presented to show the viability of the proposed configuration and validate the claims.
Bathymetric Retrieval From Hyperspectral Imagery Using Manifold Coordinate Representations (2009)

In this paper, we examine the accuracy of manifold coordinate representations as a reduced representation of a hyperspectral imagery (HSI) lookup table (LUT) for bathymetry retrieval. We also explore on a more limited basis the potential for using these coordinates for modeling other in water properties. Manifold coordinates are chosen because they are a data-driven intrinsic set of coordinates, which naturally parameterize nonlinearities that are present in HSI of water scenes. The approach is based on the extraction of a reduced dimensionality representation in manifold coordinates of a sufficiently large representative set of HSI. The manifold coordinates are derived from a scalable version of the isometric mapping algorithm. In the present and in our earlier works, these coordinates were used to establish an interpolating LUT for bathymetric retrieval by associating the representative data with ground truth data, in this case from a Light Detection and Ranging (LIDAR) estimate in the representative area. While not the focus of the present paper, the compression of LUTs could also be applied, in principle, to LUTs generated by forward radiative transfer models, and some preliminary work in this regard confirms the potential utility for this application. In this paper, we analyze the approach using data acquired by the Portable Hyperspectral Imager for Low-Light Spectroscopy (PHILLS) hyperspectral camera over the Indian River Lagoon, Florida, in 2004. Within a few months of the PHILLS overflights, Scanning Hydrographic Operational Airborne LIDAR Survey LIDAR data were obtained for a portion of this study area, principally covering the beach zone and, in some instances, portions of contiguous river channels. Results demonstrate that significant compression of the LUTs is possible with little loss in retrieval accuracy.
Sodium channel modulating activity in a δ‐conotoxin from an Indian marine snail (2003)

A 26 residue peptide (Am 2766) with the sequence CKQAGESCDIFSQNCCVG-TCAFICIE-NH(2) has been isolated and purified from the venom of the molluscivorous snail, Conus amadis, collected off the southeastern coast of India. Chemical modification and mass spectrometric studies establish that Am 2766 has three disulfide bridges. C-terminal amidation has been demonstrated by mass measurements on the C-terminal fragments obtained by proteolysis. Sequence alignments establish that Am 2766 belongs to the delta-conotoxin family. Am 2766 inhibits the decay of the sodium current in brain rNav1.2a voltage-gated Na(+) channel, stably expressed in Chinese hamster ovary cells. Unlike delta-conotoxins have previously been isolated from molluscivorous snails, Am 2766 inhibits inactivation of mammalian sodium channels.
Density Matrix Generation for 3D Printing (2017)

A system for creating a rectangular-cuboid periodic matrix for rendering a variable density 3D print is described. This is important for applications where the interior of manufactured objects require less material or weight while still maintaining strength. The matrix elements are grown from a line-based skeleton lattice using a "Line Dilation Algorithm". The method is computationally efficient allowing the design of large matrices to match the resolution and aspect ratio of the 3D printer. A voxel-based halftone model uses the resulting threshold arrays, allowing continuously varying densities. While the method is quite general, the very strong tetrahedral-octahedral lattice is detailed; rendering this triangular structure is made possible by reducing it to a simple rectangular period. Also, rendering constraints preserve structural integrity for multiscale lattices by guaranteeing strut-to-strut connectivity.
5203Ablation of scar-related ventricular tachycardia: paced electrogram feature analysis (PEFA) is a novel and effective substrate based strategy (2019)

Abstract Background Ablation of scar related ventricular tachycardia (VT) has been shown to be superior to escalation of drug therapy. However, the incremental benefit remains modest, with 42% experiencing recurrent shocks and 64% appropriate anti-tachycardia pacing (ATP) in the VANISH study. Improved ablation strategies are needed. Paced electrogram feature analysis (PEFA) is a novel substrate based ablation technique. Purpose To investigate the effectiveness of the PEFA based VT ablation technique. Methods A single centre, prospective study. Consecutive cases of scar related VT that had an implantable cardiac defibrillator (ICD) and no prior ablations were recruited. Close coupled pacing was performed at the right ventricular apex and the VT isthmus(es) identified on high density mapping catheters by increased electrogram (EGM) duration and latency. A algorithm was developed to identify the latest EGM component after the S2 pacing artefact,. This millisecond value was displayed on the geometry as a colour (PEFA map) (St Jude Ensite Precision Electroanatomic Mapping). PEFA identified VT isthmus sites were targeted for ablation (Figure 1). Follow up ICD interrogation data was utilized to assess for VT recurrence. Results A total of 20 patients were recruited. These comprised ischaemic cardiomyopathy (CM) (17/20), dilated CM (2/20), and arrhythmogenic CM (1/20), male (18/20), and endocardial only approach (19/20). Mean age was 64.3±11.3 years, ejection fraction 24.4% ± 14.4, and ablation time was 1989.9±1078.1 seconds. Non-inducibility was demonstrated at the end of the case in 18/20. A class I or III anti-arrhythmic drug was continued in 50%. VT recurred in three cases (Day 28,30,55). One death occurred following a stroke on day 181. Mean follow up was 437.5±231.7 days. Figure 1 Conclusion This is the largest study to date on PEFA based VT ablation, the first to include non-ischaemic aetiologies, and reports a longer mean follow up. A high proportion of cases were non-inducible, and low VT recurrence rates were observed. PEFA appears to be a promising tool to guide VT ablation targets. Acknowledgement/Funding This research was funded in part by the Canadian Institute for Health Research (139080) and a grant from St. Jude Medical.
UDP Checksum Complement in the Network Time Protocol (NTP) (2016)

The Network Time Protocol (NTP) allows clients to synchronize to a time server using timestamped protocol messages. To facilitate accurate timestamping, some implementations use hardware-based timestamping engines that integrate the accurate transmission time into every outgoing NTP packet during transmission. Since these packets are transported over UDP, the UDP Checksum field is then updated to reflect this modification. This document proposes an extension field that includes a 2-octet Checksum Complement, allowing timestamping engines to reflect the checksum modification in the last 2 octets of the packet rather than in the UDP Checksum field. The behavior defined in this document is interoperable with existing NTP implementations.
Efficient Preparation and Catalytic Activity of MgO(111) Nanosheets (2006)

Die bevorzugte Bildung von MgO(111)-Nanoblättchen mit einer typischen Dicke zwischen 3 und 5 nm (siehe TEM-Aufnahme) wurde auf einem einfachen, effizienten und billigen nasschemischen Weg erreicht. Die MgO(111)-Nanoblättchen erwiesen sich bei der Claisen-Schmidt-Kondensation von Benzaldehyd und Acetophenon als äußerst aktiv. Supporting information for this article is available on the WWW under http://www.wiley-vch.de/contents/jc_2001/2006/z602393_s.pdf or from the author. 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.
An architecture for synthesis of testable finite state machines (1990)

The authors present a hardware architecture for synthesizing finite state machines (FSM). This architecture is defined at the level of the state transition graph. It contains a test machine with the same number of state variables as the object machine to be synthesized. The state graph of the test machine is so defined that each state is uniquely set and observed by an input sequence no longer than (log/sub k/n), where n is the number of states and the integer k is a design parameter. The state transition graph of the test machine is superposed on the given state graph of the object function. The logic implementation steps, namely, state assignment, minimization and technology mapping are carried out for the combined graph. By design, the embedded test machine is fully testable. Also, since the test machine can control all memory elements, the circuit is effectively tested by a combinational circuit test generator. Scan register is shown to be a special case of the presented methodology. >