gebhart/patrepeval huggingface dataset:
BAD SLAM: Bundle Adjusted Direct RGB-D SLAM (2019)

A key component of Simultaneous Localization and Mapping (SLAM) systems is the joint optimization of the estimated 3D map and camera trajectory. Bundle adjustment (BA) is the gold standard for this. Due to the large number of variables in dense RGB-D SLAM, previous work has focused on approximating BA. In contrast, in this paper we present a novel, fast direct BA formulation which we implement in a real-time dense RGB-D SLAM algorithm. In addition, we show that direct RGB-D SLAM systems are highly sensitive to rolling shutter, RGB and depth sensor synchronization, and calibration errors. In order to facilitate state-of-the-art research on direct RGB-D SLAM, we propose a novel, well-calibrated benchmark for this task that uses synchronized global shutter RGB and depth cameras. It includes a training set, a test set without public ground truth, and an online evaluation service. We observe that the ranking of methods changes on this dataset compared to existing ones, and our proposed algorithm outperforms all other evaluated SLAM methods. Our benchmark and our open source SLAM algorithm are available at: www.eth3d.net
Effects of Nitric Oxide on Reactive Oxygen Species Production and Infarction Size after Brain Reperfusion Injury (2001)

The beneficial effects of early restoration of cerebral circulation after cerebral ischemia were enhanced by intracarotid infusion of proliNO, most likely because of ROS scavenging by NO. These findings suggest the possibility of preventive treatment of reperfusion injury using NO donors.
A chemokine expressed in lymphoid high endothelial venules promotes the adhesion and chemotaxis of naive T lymphocytes (1998)

Preferential homing of naive lymphocytes to secondary lymphoid organs is thought to involve the action of chemokines, yet no chemokine has been shown to have either the expression pattern or the activities required to mediate this process. Here we show that a chemokine represented in the EST database, secondary lymphoid-tissue chemokine (SLC), is expressed in the high endothelial venules of lymph nodes and Peyer's patches, in the T cell areas of spleen, lymph nodes, and Peyer's patches, and in the lymphatic endothelium of multiple organs. SLC is a highly efficacious chemoattractant for lymphocytes with preferential activity toward naive T cells. Moreover, SLC induces firm adhesion of naive T lymphocytes via beta2 integrin binding to the counter receptor, intercellular adhesion molecule-1, a necessary step for lymphocyte recruitment. SLC is the first chemokine demonstrated to have the characteristics required to mediate homing of lymphocytes to secondary lymphoid organs. In addition, the expression of SLC in lymphatic endothelium suggests that the migration of lymphocytes from tissues into efferent lymphatics may be an active process mediated by this molecule.
Drug delivery by red blood cells: vascular carriers designed by mother nature (2010)

RBC represent naturally designed carriers for intravascular drug delivery, characterized by unique longevity in the bloodstream, biocompatibility and safe physiological mechanisms for metabolism. New approaches for encapsulating drugs into RBC and coupling to RBC surface provide promising avenues for safe and widely useful improvement of drug delivery in the vascular system.
Silica-Coated Gold Nanostars for Combined Surface-Enhanced Raman Scattering (SERS) Detection and Singlet-Oxygen Generation: A Potential Nanoplatform for Theranostics (2011)

This paper reports the synthesis and characterization of surface-enhanced Raman scattering (SERS) label-tagged gold nanostars, coated with a silica shell containing methylene blue photosensitizing drug for singlet-oxygen generation. To our knowledge, this is the first report of nanocomposites possessing a combined capability for SERS detection and singlet-oxygen generation for photodynamic therapy. The gold nanostars were tuned for maximal absorption in the near-infrared (NIR) spectral region and tagged with a NIR dye for surface-enhanced resonance Raman scattering (SERRS). Silica coating was used to encapsulate the photosensitizer methylene blue in a shell around the nanoparticles. Upon 785 nm excitation, SERS from the Raman dye is observed, while excitation at 633 nm shows fluorescence from methylene blue. Methylene-blue-encapsulated nanoparticles show a significant increase in singlet-oxygen generation as compared to nanoparticles synthesized without methylene blue. This increased singlet-oxygen generation shows a cytotoxic effect on BT549 breast cancer cells upon laser irradiation. The combination of SERS detection (diagnostic) and singlet-oxygen generation (therapeutic) into a single platform provides a potential theranostic agent.
The IntI1 Integron Integrase Preferentially Binds Single-Stranded DNA of the attC Site (1999)

IntI1 integrase is a member of the prokaryotic DNA integrase superfamily. It is responsible for mobility of antibiotic resistance cassettes found in integrons. IntI1 protein, as well as IntI1-COOH, a truncated form containing its carboxy-terminal domain, has been purified. Electrophoretic mobility shift assays were carried out to study the ability of IntI1 to bind the integrase primary target sites attI and aadA1 attC. When using double-stranded DNA as a substrate, we observed IntI1 binding to attI but not to attC. IntI1-COOH did not bind either attI or attC, indicating that the N-terminal domain of IntI1 was required for binding to double-stranded attI. On the other hand, when we used single-stranded (ss) DNA substrates, IntI1 bound strongly and specifically to ss attC DNA. Binding was strand specific, since only the bottom DNA strand was bound. Protein IntI1-COOH bound ss attC as well as did the complete integrase, indicating that the ability of the protein to bind ss aadA1 attC was contained in the region between amino acids 109 and 337 of IntI1. Binding to ss attI DNA by the integrase, but not by IntI1-COOH, was also observed and was specific for the attI bottom strand, indicating similar capabilities of IntI1 for binding attI DNA in either double-stranded or ss conformation. Footprinting analysis showed that IntI1 protected at least 40 bases of aadA1 attC against DNase I attack. The protected sequence contained two of the four previously proposed IntI1 DNA binding sites, including the crossover site. Preferential ssDNA binding can be a significant activity of IntI1 integrase, which suggests the utilization of extruded cruciforms in the reaction mechanisms leading to cassette excision and integration.
Matching techniques in global schema design (1984)

A global schema is an integrated view of heterogeneous databases. Identifying common types of information from the various local Schemas is an important part of designing a global schema. After matching the entity types and attributes, the designer constructs the global schema by applying a set of integration operators. In this paper, we propose two types of matching techniques and discuss their use in global schema design. Entity type matching partitions the entity types of the local Schemas into subsets with common information. Attributes within each entity type cluster are then matched according to the similarity of their meaning and scope. We define assertion types for both kinds of matching and provide an algorithm to check the consistency and completeness of attribute assertions.
Overcoming bias and systematic errors in next generation sequencing data (2010)

Considerable time and effort has been spent in developing analysis and quality assessment methods to allow the use of microarrays in a clinical setting. As is the case for microarrays and other high-throughput technologies, data from new high-throughput sequencing technologies are subject to technological and biological biases and systematic errors that can impact downstream analyses. Only when these issues can be readily identified and reliably adjusted for will clinical applications of these new technologies be feasible. Although much work remains to be done in this area, we describe consistently observed biases that should be taken into account when analyzing high-throughput sequencing data. In this article, we review current knowledge about these biases, discuss their impact on analysis results, and propose solutions.
Design of an obstacle avoidance system for automated guided vehicles (1992)

Most Industrial Automated Guided Vehicles CAGV s) follow fixed guide paths embedded in the floor or bonded to the floor surface. Whilst reliable in their basic operation, these AGV systems fail if unexpected obstacles are placed in the vehicle&#13;\npath. This can be a problem particularly in semi-automated factories where men and AGVs share the same environment. The perfonnance of line-guided AGVs may therefore be enhanced with a capability to avoid unexpected obstructions in the guide path. The research described in this thesis&#13;\naddresses some fundamental problems associated with obstacle avoidance for utomated vehicles.&#13;\nA new obstacle avoidance system has been designed which operates by detecting obstacles as they disturb a light pattern projected onto the floor ahead of the AGV. A CCD camera mounted under the front of the vehicle senses obstacles as they emerge into the projection area and reflect the light pattern. Projected light patterns have been used as an aid to static image analysis in the fields f Computer Aided Design and Engineering. This research extends these ideas in a&#13;\nreal-time mobile application. A novel light coding system has been designed which simplifies the image analysis task and allows a low-cost embedded microcontroller to carry out the image processing, code recognition and obstacle avoidance planning functions. An AGV simulation package has been developed as a design tool for obstacle avoidance algorithms. This enables potential strategies to be developed in a high level language and tested via a Graphical User Interface. The algorithms designed using the&#13;\nsimulation package were successfully translated to assembler language and implemented on the embedded system. An experimental automated vehicle has been designed and built as a test bed for the research and the complete obstacle avoidance system was evaluated in the Flexible Manufacturing laboratory at the University of&#13;\nHuddersfield.
Human Acyl-CoA:Cholesterol Acyltransferase-1 (ACAT-1) Gene Organization and Evidence That the 4.3-Kilobase ACAT-1 mRNA Is Produced from Two Different Chromosomes (1999)

Acyl-CoA:cholesterol acyltransferase (ACAT) plays important roles in cellular cholesterol homeostasis. Four human ACAT-1 mRNAs (7.0, 4.3, 3.6, and 2.8 kilobases (kb)) share the same short 5'-untranslated region (exon 1) and coding sequence (exons 2-15). The 4.3-kb mRNA contains an additional 5'-untranslated region (1289 nucleotides in length; exons Xa and Xb) immediately upstream from the exon 1 sequence. One ACAT-1 genomic DNA insert covers exons 1-16 and a promoter (the P1 promoter). A separate insert covers exon Xa (1277 base pairs) and a different promoter (the P7 promoter). Gene mapping shows that exons 1-16 and the P1 promoter sequences are located in chromosome 1, while exon Xa and the P7 promoter sequence are located in chromosome 7. RNase protection assays demonstrate three different protected fragments, corresponding to the 4.3-kb mRNA and the two other mRNAs transcribed from the two promoters. These results are consistent with the interpretation that the 4.3-kb mRNA is produced from two different chromosomes, by a novel RNA recombination mechanism involving trans-splicing of two discontinuous precursor RNAs.
A Simulation Study on a Self-Tuning Portable Controller of Blood Glucose (1993)

A self-tuning, nonlinear controller was developed to drive portable or implantable micro-pumps for blood glucose control in diabetic subjects. The parameter estimation is based on a recursive least-square algorithm applied to a discrete time simplified mathematical model of the glucose system; the controller, which is integrated with the estimator, uses an extended minimum-variance method. The software was designed to drive a micro-controller wearable unit, operating with different kinds of glucose sensors, in order to perform chemical and biological experimentations. Some strategies were introduced to avoid hypoglycaemia, even tolerating a reduction in control speed and accuracy. The whole system was tested in a simulation study, performed on a mathematical model implemented on a personal computer. The tests were performed while simulating different controller structures and settings, and patient responses. They showed a satisfactory control behaviour, mostly as far as stability and robustness are concerned, in all simulated conditions.
ATP13A2 variability in Taiwanese Parkinson's disease (2011)

Mutations in ATP13A2 have been reported to associate with Parkinson's disease (PD). This study investigates the contribution of genetic variants in ATP13A2 to Taiwanese PD. ATP13A2 cDNA fragments from 65 early onset PD (onset <50 years) were sequenced. The identified variants were validated in a cohort of PD (n = 493) and ethnically matched controls (n = 585). A novel heterozygous G1014S, located at the conserved seventh transmembrane domain of ATP13A2 protein, was identified in an early onset PD patient, which was absent in 585 normal controls. Additionally, a reported heterozygous A746T was found in two PD patients and four controls. The clinical features and 99mTc-TRODAT-1 single photon emission computed tomography (SPECT) image of the patients carrying G1014S and A746T were similar to that of idiopathic PD. One normal control with A746T showed an asymmetric reduction of 99mT TRODAT-1 uptake in the right striatum. Under oxidative stress or apoptotic stimulus, lymphoblastoid cells carrying either A764T or G1014S showed increased caspase 3 activity compared with the controls. The rates of decay for G1014S and A746T proteins were more or less reduced in cycloheximide chase experiment. In silico modeling of G1014S exhibited a more stable feature than wild-type, and G1014S is mislocalized mainly in the intralysosomal space, which is coherent with the prediction of prohibiting N-myristoylation and membrane association. We therefore hypothesize that rare variants of ATP13A2 may contribute to PD susceptibility in Taiwan. The role played by ATP13A2 variants in PD remains to be clarified.
So you wanna design for the Web (1996)

article Free Access Share on So you wanna design for the Web Authors: Hagan Heller Netscape Communications Corp. Netscape Communications Corp.View Profile , David Rivers Independent Consultant Independent ConsultantView Profile Authors Info & Claims InteractionsVolume 3Issue 2March 1996 pp 19–23https://doi.org/10.1145/227181.227184Published:01 March 1996Publication History 2citation349DownloadsMetricsTotal Citations2Total Downloads349Last 12 Months3Last 6 weeks1 Get Citation AlertsNew Citation Alert added!This alert has been successfully added and will be sent to:You will be notified whenever a record that you have chosen has been cited.To manage your alert preferences, click on the button below.Manage my Alerts New Citation Alert!Please log in to your account Save to BinderSave to BinderCreate a New BinderNameCancelCreateExport CitationPublisher SiteeReaderPDF
Actors as a special case of concurrent constraint (logic) programming (1990)

Saraswat recently introduced the framework of concurrent constraint programming [14]. The essence of the framework is that computations consist of concurrent agents interacting by communicating constraints. Several concurrent constraint programming languages have been defined. They differ in the kinds of constraints that can be used as well as the kinds of operations on constraints which are available. In this paper we introduce a very simple concurrent constraint language we call Lucy, designed to closely mimic the actor model of computation. Agents can communicate only by the posting of constraints upon bags (un-ordered collections possibly with duplicate elements). This very impoverished concurrent constraint language is a syntactic subset of Janus, a concurrent constraint language which closely resembles concurrent logic programming languages such as Guarded Horn Clauses [21], Strand [5], Parlog [2] and Flat Concurrent Prolog [13]. By identifying the subset of Janus which is an actor language, we elucidate the relationship between actors and concurrent logic programming (and its generalization as concurrent constraint programming). Lucy is best not thought of as a unification of logic and constraint programming with actor and object-oriented programming, but as the missing link between these programming language genera.
Potential Problems in Designing Elastase Inhibitors for Therapy (1991)

"Potential Problems in Designing Elastase Inhibitors for Therapy." American Review of Respiratory Disease, 143(6), pp. 1412–1415
Histogram flow mapping with optical coherence tomography for in vivo skin angiography of hereditary hemorrhagic telangiectasia (2014)

Speckle statistics of flowing scatterers have been well documented in the literature. Speckle variance optical coherence tomography exploits the large variance values of intensity changes in time caused mainly by the random backscattering of light resulting from translational activity of red blood cells to map out the microvascular networks. A method to map out the microvasculature malformation of skin based on the time-domain histograms of individual pixels is presented with results obtained from both normal skin and skin containing vascular malformation. Results demonstrated that this method can potentially map out deeper blood vessels and enhance the visualization of microvasculature in low signal regions, while being resistant against motion (e.g., patient tremor or internal reflex movements). The overall results are manifested as more uniform en face projection maps of microvessels. Potential applications include clinical imaging of skin vascular abnormalities and wide-field skin angiography for the study of complex vascular networks.
The International Workshop on Meibomian Gland Dysfunction: Report of the Clinical Trials Subcommittee (2011)

T he objective of this subcommittee was to summarize the evidence in clinical trials on meibomian gland dysfunction (MGD) and to use this information to make recommendations for best-practice clinical trial design for this condition.
Functional Evaluation of the Structural Features of Proteases and Their Substrate in Fibrin Surface Degradation (1997)

A new model has been introduced to characterize the action of a fluid phase enzyme on a solid phase substrate. This approach is applied to evaluate the kinetics of fibrin dissolution with several proteases. The model predicts the rate constants for the formation and dissociation of the protease-fibrin complex, the apparent order of the association reaction between the enzyme and the substrate, as well as a global catalytic constant (kcat) for the dissolution process. These kinetic parameters show a strong dependence on the nature of the applied protease and on the structure of the polymerized substrate. The kinetic data for trypsin, PMN-elastase, and three plasminogen-derived proteases with identical catalytic domain, but with a varied N-terminal structure, are compared. The absence of kringle5 in des-kringle1-5-plasmin (microplasmin) is related to a markedly lower kcat (0.008 s-1) compared with plasmin and des-kringle1-4plasmin (miniplasmin) (0.039 s-1). The essentially identical kinetic parameters for miniplasmin and plasmin with the exception of kdiss, which is higher for miniplasmin (81.8 s-1 versus 57.6 s-1), suggest that the first four kringle domains are needed to retain the enzyme in the enzyme-fibrin complex. Trypsin, a protease of similar primary specificity to plasmin, but with a different catalytic domain, shows basically the same kcat as plasmin, but its affinity to fibrin is markedly lower compared with plasmin and even microplasmin. The latter suggests that in addition to the kringle domains, the structure of the catalytic domain in plasmin also contributes to its specificity for fibrin. The thinner and extensively branched fibers of fibrin are more efficiently dissolved than the fibers with greater diameter and lower number of branching points. When the polymer is stabilized through covalent cross-linking, the kcat for plasmin and miniplasmin is 2-4-fold higher than on non-cross-linked fibrin, but the decrease in the association rate constant for the formation of enzyme-substrate complex explains the relative proteolytic resistance of the cross-linked fibrin. Thus, the functional evaluation of the discrete steps of the fibrinolytic process reveals new aspects of the interactions between proteases and their polymer substrate.
Singlet oxygen: there is indeed something new under the sun (2010)

Singlet oxygen, O(2)(a(1)Delta(g)), the lowest excited electronic state of molecular oxygen, has been known to the scientific community for approximately 80 years. It has a characteristic chemistry that sets it apart from the triplet ground state of molecular oxygen, O(2)(X(3)Sigma), and is important in fields that range from atmospheric chemistry and materials science to biology and medicine. For such a "mature citizen", singlet oxygen nevertheless remains at the cutting-edge of modern science. In this critical review, recent work on singlet oxygen is summarized, focusing primarily on systems that involve light. It is clear that there is indeed still something new under the sun (243 references).
Competition for FcRn-mediated transport gives rise to short half-life of human IgG3 and offers therapeutic potential (2011)

Human IgG3 displays the strongest effector functions of all IgG subclasses but has a short half-life for unresolved reasons. Here we show that IgG3 binds to IgG-salvage receptor (FcRn), but that FcRn-mediated transport and rescue of IgG3 is inhibited in the presence of IgG1 due to intracellular competition between IgG1 and IgG3. We reveal that this occurs because of a single amino acid difference at position 435, where IgG3 has an arginine instead of the histidine found in all other IgG subclasses. While the presence of R435 in IgG increases binding to FcRn at neutral pH, it decreases binding at acidic pH, affecting the rescue efficiency-but only in the presence of H435-IgG. Importantly, we show that in humans the half-life of the H435-containing IgG3 allotype is comparable to IgG1. H435-IgG3 also gave enhanced protection against a pneumococcal challenge in mice, demonstrating H435-IgG3 to be a candidate for monoclonal antibody therapies.
A Process for Topographically Selective Deposition on 3D Nanostructures by Ion Implantation (2016)

Area-selective atomic layer deposition (AS-ALD) is attracting increasing interest because of its ability to enable both continued dimensional scaling and accurate pattern placement for next-generation nanoelectronics. Here we report a strategy for depositing material onto three-dimensional (3D) nanostructures with topographic selectivity using an ALD process with the aid of an ultrathin hydrophobic surface layer. Using ion implantation of fluorocarbons (CFx), a hydrophobic interfacial layer is formed, which in turn causes significant retardation of nucleation during ALD. We demonstrate the process for Pt ALD on both blanket and 2D patterned substrates. We extend the process to 3D structures, demonstrating that this method can achieve selective anisotropic deposition, selectively inhibiting Pt deposition on deactivated horizontal regions while ensuring that only vertical surfaces are decorated during ALD. The efficacy of the approach for metal oxide ALD also shows promise, though further optimization of the implantation conditions is required. The present work advances practical applications that require area-selective coating of surfaces in a variety of 3D nanostructures according to their topographical orientation.