gebhart/patrepeval huggingface dataset:
Efficient pipeline for image-based patient-specific analysis of cerebral aneurysm hemodynamics: technique and sensitivity (2005)

Hemodynamic factors are thought to be implicated in the progression and rupture of intracranial aneurysms. Current efforts aim to study the possible associations of hemodynamic characteristics such as complexity and stability of intra-aneurysmal flow patterns, size and location of the region of flow impingement with the clinical history of aneurysmal rupture. However, there are no reliable methods for measuring blood flow patterns in vivo. In this paper, an efficient methodology for patient-specific modeling and characterization of the hemodynamics in cerebral aneurysms from medical images is described. A sensitivity analysis of the hemodynamic characteristics with respect to variations of several variables over the expected physiologic range of conditions is also presented. This sensitivity analysis shows that although changes in the velocity fields can be observed, the characterization of the intra-aneurysmal flow patterns is not altered when the mean input flow, the flow division, the viscosity model, or mesh resolution are changed. It was also found that the variable that has the greater impact on the computed flow fields is the geometry of the vascular structures. We conclude that with the proposed modeling pipeline clinical studies involving large numbers cerebral aneurysms are feasible.
Photodynamic Inactivation of the Dermatophyte Trichophyton rubrum¶ (2003)

Dermatophytes are fungi that can cause infections (known as tinea) of the skin, hair and nails because of their ability to use keratin. Superficial mycoses are probably the most prevalent of infectious diseases worldwide. One of the most distinct limitations of the current therapeutic options is the recurrence of the infection and duration of treatment. The present study shows that Trichophyton rubrum in suspension culture is susceptible to photodynamic treatment (PDT), a completely new application in this area. T. rubrum could be effectively killed with the use of the light-activated porphyrins deuteroporphyrin monomethylester (DP mme) and 5,10,15-tris(4-methylpyridinium)-20-phenyl-[21H,23H]-porphine trichloride (Sylsens B). The photodynamic efficacy was compared with that of some other photosensitizers that are well known in the field of PDT: the porphyrins deuteroporphyrin and hematoporphyrin, the drug Photofrin and several phthalocyanines. It was demonstrated that with the use of broadband white light, the phthalocyanines and Photofrin displayed a fungistatic effect for about 1 week, whereas all the porphyrins caused photodynamic killing of the dermatophyte. Sylsens B was the most effective sensitizer and showed no dark toxicity; therefore, in an appropriate formulation, it could be a promising candidate for the treatment of various forms of tinea. For Sylsens B and DP mme, which displayed the best results, a concentration-dependent uptake by T. rubrum was established.
Where to be wary: The impact of widespread photo-taking and image enhancement practices on users' geo-privacy (2016)

Today's geo-location estimation approaches are able to infer the location of a target image using its visual content alone. These approaches exploit visual matching techniques, applied to a large collection of background images with known geo-locations. Users who are unaware that visual retrieval approaches can compromise their geo-privacy, unwittingly open themselves to risks of crime or other unintended consequences. Private photo sharing is not able to protect users effectively, since its inconvenience is a barrier to consistent use, and photos can still fall into the wrong hands if they are re-shared. This paper lays the groundwork for a new approach to geo-privacy of social images: Instead of requiring a complete change of user behavior, we investigate the protection potential latent in users existing practices. We carry out a series of retrieval experiments using a large collection of social images (8.5M) to systematically analyze where users should be wary, and how both photo taking and editing practices impact the performance of geo-location estimation. We find that practices that are currently widespread are already sufficient to protect single-handedly the geo-location ('geo-cloak') up to more than 50% of images whose location would otherwise be automatically predictable. Our conclusion is that protecting users against the unwanted effects of visual retrieval is a viable research field, and should take as its starting point existing user practices.
Deep Imitation Learning for Complex Manipulation Tasks from Virtual Reality Teleoperation (2017)

Imitation learning is a powerful paradigm for robot skill acquisition. However, obtaining demonstrations suitable for learning a policy that maps from raw pixels to actions can be challenging. In this paper we describe how consumer-grade Virtual Reality headsets and hand tracking hardware can be used to naturally teleoperate robots to perform complex tasks. We also describe how imitation learning can learn deep neural network policies (mapping from pixels to actions) that can acquire the demonstrated skills. Our experiments showcase the effectiveness of our approach for learning visuomotor skills.
Exploratory Studies With BT-11 (2016)

Lanthionine synthetase cyclase-like receptor 2 (LANCL2) is a novel therapeutic target for Crohn's disease (CD). BT-11 is a small molecule that binds LANCL2, is orally active, and has demonstrated therapeutic efficacy in 3 validated mouse models of colitis at doses as low as 8 mg/kg/d. Exploratory experiments evaluated BT-11 in male Harlan Sprague Dawley rats with a single oral dose of 500 mg/kg and 80 mg/kg/d for 14 days (n = 10 rats dosed/group). Treated and control rats were observed for behavioral detriments, and blood and tissues were collected for clinical pathology and histopathological examination. A functional observational battery demonstrated no differences between treated and control groups over multiple times of observation for quantal, categorical, and continuous end points, including posture, in cage activity, approach, response to touch, weight, grip strength, body temperature, and time on a rotarod. Histopathological examination of the brain, kidney, liver, adrenal gland, testes, stomach, small and large intestines, duodenum, pancreas, heart, lungs, spleen, thymus, and rib found no significant differences between the groups. Plasma enzymes associated with liver function were transiently elevated 2 to 4 days after the 500 mg/kg single dose but returned to normal values by 8 days and were not observed at any time in rats given 80 mg/kg/d for 14 days. One hour after oral administration of a single dose of 80 mg/kg, BT-11 had a maximal concentration of 21 ng/mL; the half-life was 3 hours. These experimental results demonstrated that BT-11 is well tolerated in rats, and, with further testing, may hold promise as an orally active therapeutic for CD.
Proteolytic pan-RAS Cleavage Leads to Tumor Regression in Patient-derived Pancreatic Cancer Xenografts (2022)

The lack of effective RAS inhibition represents a major unmet medical need in the treatment of pancreatic ductal adenocarcinoma (PDAC). Here, we investigate the anticancer activity of RRSP-DTB, an engineered biologic that cleaves the Switch I of all RAS isoforms, in KRAS-mutant PDAC cell lines and patient-derived xenografts (PDX). We first demonstrate that RRSP-DTB effectively engages RAS and impacts downstream ERK signaling in multiple KRAS-mutant PDAC cell lines inhibiting cell proliferation at picomolar concentrations. We next tested RRSP-DTB in immunodeficient mice bearing KRAS-mutant PDAC PDXs. Treatment with RRSP-DTB led to ≥95% tumor regression after 29 days. Residual tumors exhibited disrupted tissue architecture, increased fibrosis and fewer proliferating cells compared with controls. Intratumoral levels of phospho-ERK were also significantly lower, indicating in vivo target engagement. Importantly, tumors that started to regrow without RRSP-DTB shrank when treatment resumed, demonstrating resistance to RRSP-DTB had not developed. Tracking persistence of the toxin activity following intraperitoneal injection showed that RRSP-DTB is active in sera from immunocompetent mice for at least 1 hour, but absent after 16 hours, justifying use of daily dosing. Overall, we report that RRSP-DTB strongly regresses hard-to-treat KRAS-mutant PDX models of pancreatic cancer, warranting further development of this pan-RAS biologic for the management of RAS-addicted tumors.
SALIM: a layout generation tool for analog ICs (2003)

The authors present a system for analog layout generation of integrated microcircuits (SALIM). The program, which combines a set of algorithms with a knowledge base, features two working modes: automatic and interactive. In the automatic mode, a knowledge-based expert system drives the algorithms. In the interactive mode, the designer task is reduced to the choice of basic elements and their association sequence.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Time-optimal path planning: Real-time sea exercises (2017)

We report the results of sea exercises that demonstrate the real-time capabilities of our fundamental time-optimal path planning theory and software with real ocean vehicles. The exercises were conducted with REMUS 600 Autonomous Underwater Vehicles (AUVs) in the Buzzards Bay and Vineyard Sound Regions on 21 October and 6 December 2016. Two tests were completed: (i) 1-AUV time-optimal tests and (ii) 2-AUV race tests where one AUV followed a time-optimal path and the other a shortest-distance path between the start and finish locations. The time-optimal planning proceeded as follows. We first forecast, in real-time, the physical ocean conditions in the above regions and times utilizing our MSEAS multi-resolution primitive equation ocean modeling system. Next, we planned time-optimal paths for the AUVs using our level-set equations and real-time ocean forecasts, and accounting for operational constraints (e.g. minimum depth). This completed the planning computations performed onboard a research vessel. The forecast optimal paths were then transferred to the AUV operating system and the vehicles were piloted according to the plan. We found that the forecast currents and paths were accurate. In particular, the time-optimal vehicles won the races, even though the local currents and geometric constraints were complex. The details of the results were analyzed off-line after the sea tests.
A soft robotic exoskeleton utilizing granular jamming (2015)

This paper presents the development and design of an exoskeleton for the hand, utilising a physical phenomena known as granular jamming, where pressure within a soft membrane is varied to cause a granular material to change from a solid to fluid-like state. Experimentation and simulation is performed to discover and analyse the relationship between chamber size and the generation of resistive forces or bending stiffness, and to observe the general behaviour of granular beam systems under bending forces. A prototype was developed and tested. It was found that increasing the chamber size of a jammed granular beam increases the generated resistive forces. There also appears to be two regions of bending for a jammed granular beam identified by a change in gradient on a graph of deflection versus weight. This indicates a change in the granular structure during bending and is theorised to be caused by two mechanisms, buckling and longitudinal strain. The prototype indicates that the exoskeleton is functional and is able to stabilise the hand, but fails to provide significant force. The work done in this project can be used as a foundation for further design and investigation.
Solid-State Drives: Memory Driven Design Methodologies for Optimal Performance (2017)

Solid-state drives (SSDs) faced an astonishing development in the last few years, becoming the cornerstone to new paradigms and markets of the information technology, such as cloud computing and big data centers. So far, the SSD design approach has focused on the optimization of the Flash translation layer, the firmware devoted to fulfill the compatibility with traditional hard-disk drives. For hyperscaled SSDs this strategy is no longer valid since their performance and reliability are strictly linked to that of the NAND Flash memories that constitute the storage medium, in particular when the multilevel cell paradigm is considered. For this reason, the design flow must follow a bottom-up approach that, starting from an accurate knowledge of the time and use dependent reliability of the NAND Flash memories, selects the most appropriate error correction strategy to extend the SSD lifetime while reducing its performance degradation. Then, the design flow moves to that of the SSD controller and of the interface toward the host where the application is running. This paper will thoroughly discuss this bottom-up approach, and finally, it will show how it is possible to leverage new approaches, such as the software-defined storage system that, by exploiting a hardware/software codesign of the SSD controller architecture and of the host application, will be able to revolutionize the traditional computer/memory interaction.
Poly(amide-imide)-Silica Gel Hybrids: Synthesis and Characterization (2009)

Several poly(amide-imide)-silica gel hybrids containing metal salts were prepared by the sol-gel reaction. Poly(amide-imide)s were prepared by low temperature polycondensation reaction of trimellitic anhydride (TMA) and diisocyanates [isophorone diisocyanate (IPDI), toluene diisocyanate (TDI), hexamethylene diisocyanate (HDI), and 4,4′-methylenebis(phenyl isocyanate) (MDI). The inherent viscosities of the poly(amide-imide)s obtained ranged from 0.39–0.69 dL/g in DMAc. The hydrolysis and condensation reaction of tetramethoxysilane (TMOS) to form a silica gel network was affected in DMAc containing 5% LiCl, CaCl2 or ZnCl2 during the formation of poly(amide-imide)s. Films could be cast from DMAc solution and gradual evaporation of the solvent afforded pale yellow to amber colored hybrids in which the salts were dispersed at the molecular level. About 30–60% polymer was incorporated in the hybrids. Pyrolysis of the polymer silica gel hybrid samples at 600°C resulted in the formation of porous silica. Pore size and surface area studies on representative porous silica gels, SiG–4, SiG–5, and SiG–8, obtained upon the pyrolysis of the corresponding hybrids HPAI-4, HPAI-5 and HPAI-8, indicated that the silica gels were mesoporous in nature and had narrow pore size distribution (pore radius = 1.8 nm) with a surface area of 371 m2/g, 335 m2/g and 300 m2/g, respectively. The bottle shaped pores exhibited a pore volume of 0.227 cm3/g, 0.314 cm3/g and 0.280 cm3/g, respectively. Computer simulation modeling studies indicated that the poly(amide-imide) chains were not coiled and there was no agglomeration of the chains.
Metabolism of sodium pentosan polysulphate in man measured by a new competitive binding assay for sulphated polysaccharides--comparison with effects upon anticoagulant activity, lipolysis and platelet alpha-granule proteins. (1985)

Three human volunteers were injected with a range of doses of pentosan polysulphate, SP54, i.v. or s.c. A competitive binding assay (CBA) for sulphated polysaccharides was used to detect circulating SP54 after doses as low as 1 mg i.v. and a linear relationship was observed between the peak plasma concentration of SP54 measured by CBA and the administered dose. A comparison was made between the clearance of SP54 measured by CBA and its anticoagulant and lipolytic activities. SP54 was detectable by CBA after doses which caused no alteration in activated partial thromboplastin time (APTT) or anti-factor Xa activity but after which a small increase of lipase activity was measurable. After SP54 at 10 mg i.v. or 100 mg s.c. anti-factor Xa activity was 4-6 times greater than would be expected from the in vitro activity of the concentrations of SP54 measured by CBA. Like heparin and other heparin analogues, SP54 caused an increase in plasma concentrations of platelet factor 4 (PF4) without a concomitant rise in beta-thromboglobulin (beta-TG). It is concluded that the newly developed CBA will provide a more sensitive means than conventional bioassays for the determination of plasma concentrations of SP54.
Phase I trial of Bermekimab with nanoliposomal irinotecan and 5-fluorouracil/folinic acid in advanced pancreatic ductal adenocarcinoma (2022)

In this phase I dose-escalation trial, we assess the maximum tolerated dose (MTD) of Bermekimab in combination with Nanoliposomal Irinotecan (Nal-Iri) and 5-Fluorouracil/Folinic Acid (5-FU/FA). Secondarily, we investigate effects on weight, lean body mass, quality-of-life, the gut microbiome composition, inflammatory biomarkers, progression-free survival, and overall survival. This was a single-arm, open-label adaptive Bayesian dose-escalation study of Bermekimab combined with Nal-Iri and 5FU/FA in patients with advanced or locally advanced PDAC who failed gemcitabine-based chemotherapy. 22 patients enrolled between 2017 and 2019. 3 of 21 patients experienced dose-limiting toxicities attributable to the chemotherapy backbone. 58% (10/17) of patients exhibited weight stability. Physical performance status was preserved among all subjects. Patients reported improvements in quality-of-life metrics via QLQ-PAN26 questioner (-3.6, p = 0.18) and functional well-being (1.78, p = 0.02). Subjects exhibited a decrease in inflammatory cytokines, notably, vascular endothelial growth factor (-0.86, p = 0.017) with Bermekimab. Bermekimab treatment was associated with an increased abundance of gut health-promoting bacterial genera Akkermansia, with 3.82 Log2-fold change from baseline. In sum, Bermekimab is safe to be used in conjunction with Nal-Iri and 5-FU/FA chemotherapy. This benign toxicological profile warrants further Phase I/II investigation of Bermekimab in combinatorial strategies, and the impact of anti-IL-1α antibodies on the gut microbiome.Clinical trials registration: NCT03207724 05/07/2017.
Infrared Pupillometry During Uncal Herniation (2002)

Infrared pupillary scans have been used extensively as an objective measure of pupillary reflexes during pharmacological studies of human subjects, but no previous scans have documented the pupillary changes during transtentorial uncal herniation. We present infrared pupillary scans from three patients with brain stem compression secondary to expanding intracranial mass lesions. The scans were made with a portable device permitting infrared pupillometry at the patient's bedside. Portable infrared pupillometry records objective measurements of pupillary light reflexes, which provides information useful for diagnosing transtentorial herniation and affords objective measurements of an important endpoint in the management of patients with head trauma or supratentorial mass lesions.
Freezing-and-Thawing Durability of Pervious Concrete under Simulated Field Conditions (2011)

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Quasicrystals, networks, and molecules of fivefold symmetry (1990)

Crystals and five-fold symmetry generalizing chrystallography - puzzles and problems in dimension 1 dynamical origin of five-fold symmetry computer-stimulated images of icosahedral, pentagonal and decagonal clusters of atoms x-ray diffraction study of slowly solidified icosahedral alloys analysis of x-ray powder diffraction patterns of rapidly quenched al-based alloys on the basis of quasicrystalline and cubic models finite automata, quasicrystals and Robinson tilings fivefold symmetry in high dimensional spaces and generalized penrose patterns planar patterns with fivefold symmetry as sections of periodic structures in 4-space non-discrete regular honeycombs a two-dimensional quasiperiodic dodecagonal tiling by two pentagons new quasiperiodic lattices from the grid method fivefold symmetry in the context of potential surfaces, moleclar conformations and chemical reactions buckminsterfullerene part a - introduction buckminsterfullerene part b - polyhedra carbon ions as good candidates to a solution of the longest unsolved spectroscopical problem in astronomy buckminsterfullerene part c - huckel energy levels buckminsterfullerene part d - kekule structures buckminsterfullerene part e - molecular vibrations centropolyindans - benzoannelated polyquinanes with a central carbon atom.
Fastpath Optimizations for Cluster Recovery in Shared-Disk Systems (2005)

We describe the design and implementation of a clustering service for a high-performance, shared-disk file system. The service provides failure detection and recovery, reliable end-to-end messaging, and a centralized and recoverable management interface. We implement novel optimizations in the voting protocol that resolves cluster membership. Optimizations allow clusters to form as quickly as possible without introducing livelock or requiring timeout parameters to be tuned carefully. Our treatment includes performance results that quantify the scalability of the system and measure recovery times.
Heterozygous Screen in <i>Saccharomyces cerevisiae</i> Identifies Dosage-Sensitive Genes That Affect Chromosome Stability (2008)

Current techniques for identifying mutations that convey a small increased cancer risk or those that modify cancer risk in carriers of highly penetrant mutations are limited by the statistical power of epidemiologic studies, which require screening of large populations and candidate genes. To identify dosage-sensitive genes that mediate genomic stability, we performed a genomewide screen in Saccharomyces cerevisiae for heterozygous mutations that increase chromosome instability in a checkpoint-deficient diploid strain. We used two genome stability assays sensitive enough to detect the impact of heterozygous mutations and identified 172 heterozygous gene disruptions that affected chromosome fragment (CF) loss, 45% of which also conferred modest but statistically significant instability of endogenous chromosomes. Analysis of heterozygous deletion of 65 of these genes demonstrated that the majority increased genomic instability in both checkpoint-deficient and wild-type backgrounds. Strains heterozygous for COMA kinetochore complex genes were particularly unstable. Over 50% of the genes identified in this screen have putative human homologs, including CHEK2, ERCC4, and TOPBP1, which are already associated with inherited cancer susceptibility. These findings encourage the incorporation of this orthologous gene list into cancer epidemiology studies and suggest further analysis of heterozygous phenotypes in yeast as models of human disease resulting from haplo-insufficiency.