gebhart/patrepeval huggingface dataset:
Abstract LB567: Dramatic in vivo efficacy of the EZH2-inhibitor tazemetostat in PBRM1-mutated human chordoma xenograft (2022)

Abstract Background: Chordomas are considered as rare bone neoplasms characterized by a high level of recurrence and a poor long-term prognosis. Considering their chemo-radio-resistance, alternative treatment strategies are therefore strongly requested, but their development is limited by the paucity of relevant preclinical models. Mutations affecting genes of the SWI/SNF complex including PBMR1 are frequently found in chordomas, suggesting a potential therapeutic effect of epigenetic regulators in this indication. Methods: Thirty-eight chordoma specimens derived from primary patients’ tumors were grafted into nude mice. Relationship between grafted tumors and clinical, biological and therapeutic features of corresponding patients were investigated. We subjected the established PDX models to histopathological and genetic examination; finally, a therapeutic program focused on the EZH2-inhibition was performed in one PDX model. Results: Twelve PDX models were established and characterized on histological and biomolecular features. Patients whose tumors were able to grow into mice had a statistically significant lower progression-free survival than those whose tumors did not grow after in vivo transplantation (p=0.007). All PDXs maintained the same histopathological features as patients’ tumors. Homozygous deletions of CDKN2A/2B (58.3%) and PBRM1 (25%) variants were the most common genomic alterations found. In the tazemetostat treated PDX model harboring a PBRM1 variant, an overall survival of 100% was observed. Conclusion: Our panel of chordoma PDXs represents a useful preclinical tool for both pharmacologic and biological assessments. The first demonstration of a high antitumor activity of tazemetostat in a PDX model harboring a PBRM1variant supports further evaluation of EZH2-inhibitors in this subgroup of chordomas. Citation Format: Thibault Passeri, Ahmed Dahmani, Julien Masliah-Planchon, Adnan Naguez, Marine Michou, Rania El-Botty, Sophie Vacher, Rachida Bouarich, André Nicolas, Marc Polivka, Coralie Franck, Anne Schnitzler, Fariba Némati, Sergio Roman-Roman, Franck Bourdeaut, Homa Adle-Biassette, Hamid Mammar, Sébastien Froelich, Ivan Bièche, Didier Decaudin. Dramatic in vivo efficacy of the EZH2-inhibitor tazemetostat in PBRM1-mutated human chordoma xenograft [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2022; 2022 Apr 8-13. Philadelphia (PA): AACR; Cancer Res 2022;82(12_Suppl):Abstract nr LB567.
Multiple Lessons for Multiple Sclerosis (2008)

Multiple sclerosis is a cruel disease. It strikes young adults, runs a chronic, unpredictable course, and is eventually disabling for many patients.1 Both inherited and environmental factors influence the risk and course of the disease.2 Multiple sclerosis is one of the great unsolved mysteries in modern medicine, with a number of striking epidemiologic features, including an increasing global frequency, an inverse relationship between serum 25-hydroxyvitamin D levels and disease risk, and a tantalizing association with Epstein–Barr virus infection.Multiple sclerosis usually begins as a relapsing–remitting disease, but in most patients a steadily progressive neurologic disorder ultimately ensues. As a general . . .
Ultrametric watersheds: a bijection theorem for hierarchical edge-segmentation (2010)

Abstract. We study hierachical segmentation in the framework of edgeweighted graphs. We define ultrametric watersheds as topological watersheds null on the minima. We prove that there exists a bijection between the set of ultrametric watersheds and the set of hierarchical edgesegmentations. We end this paper by showing how the proposed framework allows to see constrained connectivity as a classical watershed-based morphological scheme, which provides an efficient algorithm to compute the whole hierarchy.
Systemic inhibition of myeloid dendritic cells by circulating HLA class I molecules in HIV-1 infection (2012)

During progressive HIV-1 infection, soluble HLA class I molecules can contribute to systemic immune dysfunction by inhibiting the antigen-presenting properties of myeloid dendritic cells through interactions with inhibitory myelomonocytic HLA class I receptors.
Proceedings of the 1st international symposium on Non-photorealistic animation and rendering (2000)

International audience
Renal Artery Stenting: Efficacy and Complications (2009)

The physiologic sequelae of Renal Artery Stenosis (RAS) results from narrowing of renal artery lumen which leads to diminished renal perfusion. The consequences of RAS range from asymptomatic to refractory hypertension to ischemic nephropathy eventually leading to end-stage renal disease (ESRD).
Physiological Responses to Activity by Novice vs. Advanced Ikebana Practitioners (2017)

Meditation has been studied to determine its impact, if any, on neurophysiological, behavioral and psychosocial state. One study showed marked differences in brain wave activity between novice and advanced meditation monk practitioners. There are several mindfulness techniques and all of them are a form of meditation. Ikebana, an ancient Japanese tradition of arranging flowers employs mindfulness.
QR코드와 환경감시센서를 활용한 스마트 디바이스기반 증강현실형 환경모니터링 기술 연구 (2012)

현재 증강현실 기술은 IT융합을 통해 여러 가지 분야의 응용서비스로서 활용가치가 점점 늘어나고 있으며, 스마트디바이스에서도 증강현실기술과 융합된 App을 쉽게 찾아볼 수 있다. 때문에 증강현실 기술을 광고나 전시회, 공연 같은 곳에서 활용하려는 시도는 활성화 되었지만, 아직 다른 분야의 증강현실 기술보다는 상대적으로 전문성이 떨어지며, 그중 환경모니터링과 연동되어 사용되는 서비스는 부족한 현실이다. 이에 본 논문에서는 이미 많은 지역에 광고홍보물의 목적으로 구축되어 있는 QR코드를 증강현실 기술과 접목하여 무인빌딩이나 자동화설비장과 같은 산업 적으로 활용될 수 있는 QR코드와 환경감시센서를 활용한 스마트 디바이스기반 증강현실형 모니터링 기술을 제안하 고자 한다.
Addition of Tetrachloromethane to Styrene Catalyzed by Copper-Chiral Amine Complexes (1992)

Copper(I)-chiral amine complexes were found to be very efficient catalysts for addition reaction of tetrachloro- and bromotrichloromethane with styrene (yields over 90%). However, both monodentate and bidentate chiral amine ligands ( I - VIII ) gave a low asymmetric induction (up to 2.3% ee).
A Ménage à Trois in Two Configurations (2003)

The interaction of thrombin with the GpIb-IX-V complex on the surface of platelets is crucial for the formation of blood clots following vascular injury. In a Perspective, [Sadler][1] discusses two new crystallographic studies ([ Celikel et al .][2], [ Dumas et al .][3]) that shed new but perhaps conflicting light on this vital interaction.

 [1]: http://www.sciencemag.org/cgi/content/full/301/5630/177
 [2]: http://www.sciencemag.org/cgi/content/short/301/5630/218
 [3]: http://www.sciencemag.org/cgi/content/short/301/5630/222
Orai1 function is essential for T cell homing to lymph nodes (P5102) (2013)

Abstract In T lymphocytes, Ca2+ release-activated Ca2+ (CRAC) channels composed of Orai1 subunits trigger antigen-induced gene expression through the NFAT pathway. Lymphocyte homing into lymph nodes may also require CRAC channel function. We evaluated the requirements for human lymphocyte homing, using expression of a dominant-negative Orai1-E106A mutant to suppress Ca2+ signaling. To investigate homing and motility of human lymphocytes we transferred human T cells into immunocompromised mouse hosts following stable reconstitution. Human lymphocyte homing was assessed by flow cytometry, and cells were tracked within lymph nodes by two-photon microscopy. Our results demonstrate that human T lymphocytes home into and migrate within the lymph nodes of immunocompromised NOD.SCID.B2 mice, similar to murine lymphocytes. Human T cells migrated in a random walk at velocities of 12.8 ± 0.4 µm/min. Expression of Orai1-E106A inhibited CRAC channel function in human T cells and prevented homing from high endothelial venules into murine lymph nodes. Ca2+ signals induced by CCL21 were also inhibited in T cells expressing Orai1-E106A. With CRAC channels inhibited, the high-affinity form of LFA-1 failed to become active, and T cells failed to migrate across endothelial cells in a transwell model. These results establish a requirement for CRAC channel-mediated Ca2+ influx for T cell homing to lymph nodes mediated by high-affinity integrin activation and chemokine-induced transendothelial migration.
Ethnography, Storytelling, and the Cartography of Knowledge in a Global Organization: How a minor change in research design influenced the way our team sees, and is seen by our company (2010)

Our team unites qualitative researchers, designers, and prototyping engineers to investigate workplace technologies using a four‐step process: ethnography, analysis, intervention, measurement. Projects develop in relation to the needs of internal corporate units identified as project stakeholders. An experiment with a more ethnography‐centered research approach, conducted without a specific internal sponsor, led us to develop findings we believed could benefit many groups in our organization—designers, product teams, salespeople, corporate strategists—but presented us with some unfamiliar challenges. First, we needed new storytelling and social media tools to disseminate our message. Second, we needed a way to find out who, in our organization of 75,000 globally distributed employees, might value our findings. In response, we initiated an internal project investigating and mapping out social networks of knowledge exchange and strategic influence in our company. We foresee using this strategy map to guide future efforts to share our findings to a more diverse audience in our company.
Study of surfaces and interfaces using quantum chemistry techniques (1979)

There are a number of difficulties in elucidating the microscopic details of the electronic states at surfaces and interfaces. The first step should be to determine the structure at the surface or interface, but this is difficult experimentally even for the clean, ordered surface and extremely difficult for cases with impurity atoms (e.g., nonordered oxide layers). The theoretical study of such geometries and energy surfaces is the subject of quantum chemistry. We present a review of some of the theoretical techniques from quantum chemistry that are being applied to surfaces. The procedure consists of treating a finite piece of the surface or interface as a molecule. Ab initio calculations are then carried out on the molecule using the generalized valence bond (GVB) method (with additional configuration interaction), thereby incorporating the dominant many-body effects. The reliability of these techniques is discussed by giving some examples from molecular chemistry and the surfaces of solids. The strengths and weaknesses of this approach are compared with more traditional band theory related methods and are illustrated with various examples.
Polar Coordinate Drawing of Planar Graphs with Good Angular Resolution (2003)

We present a novel way to draw planar graphs with good angular resolution. We introduce the polar coordinate representation and describe a family of algorithms which use polar representation. The main advantage of using a polar representation is that it allows us to exert independent control over grid size and bend positions. Polar coordinates allow us to specify different vertex resolution, bend-point resolution and edge separation. We first describe a standard (Cartesian) representation algorithm (CRA) which we then modify to obtain a polar representation algorithm (PRA). In both algorithms we are concerned with the following drawing criteria: angular resolution, bends per edge, vertex resolution, bend-point resolution, edge separation, and drawing area. The CRA algorithm achieves 1 bend per edge, unit vertex and bend resolution, \( \sqrt 2 /2\) edge separation, \( 5n \times \tfrac{{5n}} {2}\) drawing area and \( \tfrac{1} {{2d(\upsilon )}}\) angular resolution, where d(v) is the degree of vertex v. The PRA algorithm has an improved angular resolution of \( \tfrac{\pi } {{4d(\upsilon )}}\) , 1 bend per edge, and unit vertex resolution. For the PRA algorithm, the bend-point resolution and edge separation are parameters that can be modified to achieve different types of drawings and drawing areas. In particular, for the same parameters as the CRA algorithm (unit bend-point resolution and \( \sqrt 2 /2\) edge separation), the PRA algorithm creates a drawing of size \( 9n \times \tfrac{{9n}} {2}\).
Biological treatment of waste gas containing volatile hydrocarbons (1995)

NRC publication: Yes
miR-21, miR-99b and miR-375 combination as predictive response signature for preoperative chemoradiotherapy in rectal cancer (2018)

miR-21, miR-99b and miR-375 could add valuable information for individualizing treatment in locally advanced rectal cancer patients.
Crystallographic and Glycan Microarray Analysis of Human Polyomavirus 9 VP1 Identifies N -Glycolyl Neuraminic Acid as a Receptor Candidate (2014)

The most common sialic acid in humans is 5-N-acetyl neuraminic acid (Neu5Ac), but various modifications give rise to more than 50 different sialic acid variants that decorate the cell surface. Unlike most mammals, humans cannot synthesize the sialic acid variant 5-N-glycolyl neuraminic acid (Neu5Gc) due to a gene defect. Humans can, however, still acquire this compound from dietary sources. The role of Neu5Gc in receptor engagement and in defining viral tropism is only beginning to emerge, and structural analyses defining the differences in specificity for Neu5Ac and Neu5Gc are still rare. Using glycan microarray screening and high-resolution protein crystallography, we have examined the receptor specificity of a recently discovered human polyomavirus, HPyV9, and compared it to that of the closely related simian polyomavirus LPyV. Our study highlights critical differences in the specificities of both viruses, contributing to an enhanced understanding of the principles that underlie pathogen selectivity for modified sialic acids.
Efficient measurement of quantum dynamics via compressive sensing (2009)

The resources required to characterise the dynamics of engineered quantum systems-such as quantum computers and quantum sensors-grow exponentially with system size. Here we adapt techniques from compressive sensing to exponentially reduce the experimental configurations required for quantum process tomography. Our method is applicable to dynamical processes that are known to be nearly-sparse in a certain basis and it can be implemented using only single-body preparations and measurements. We perform efficient, high-fidelity estimation of process matrices on an experiment attempting to implement a photonic two-qubit logic-gate. The data base is obtained under various decoherence strengths. We find that our technique is both accurate and noise robust, thus removing a key roadblock to the development and scaling of quantum technologies.
[Regulation of terpene metabolism]. [Mentha piperita, Mentha spicata] (1989)

Progress in understanding of the metabolism of monoterpenes by peppermint and spearmint is recorded including the actions of two key enzymes, geranyl pyrophosphate:limonene cyclase and a UDP-glucose dependent glucosyl transferase; concerning the ultrastructure of oil gland senescence; enzyme subcellular localization; regulation of metabolism; and tissue culture systems.
Elderly Subjects' Ability to Recover Balance With a Single Backward Step Associates With Body Configuration at Step Contact (2001)

These results suggest that elderly subjects' ability to recover balance with a single backward step depends primarily on the configuration of the body (in particular, the ratio of stepping angle to body lean angle) at step contact.
Design of Lipid Nanocapsule Delivery Vehicles for Multivalent Display of Recombinant Env Trimers in HIV Vaccination (2014)

Immunization strategies that elicit antibodies capable of neutralizing diverse virus strains will likely be an important part of a successful vaccine against HIV. However, strategies to promote robust humoral responses against the native intact HIV envelope trimer structure are lacking. We recently developed chemically cross-linked lipid nanocapsules as carriers of molecular adjuvants and encapsulated or surface-displayed antigens, which promoted follicular helper T-cell responses and elicited high-avidity, durable antibody responses to a candidate malaria antigen. To apply this system to the delivery of HIV antigens, Env gp140 trimers with terminal his-tags (gp140T-his) were anchored to the surface of lipid nanocapsules via Ni-NTA-functionalized lipids. Initial experiments revealed that the large (409 kDa), heavily glycosylated trimers were capable of extracting fluid phase lipids from the membranes of nanocapsules. Thus, liquid-ordered and/or gel-phase lipid compositions were required to stably anchor trimers to the particle membranes. Trimer-loaded nanocapsules combined with the clinically relevant adjuvant monophosphoryl lipid A primed high-titer antibody responses in mice at antigen doses ranging from 5 μg to as low as 100 ng, whereas titers dropped more than 50-fold over the same dose range when soluble trimer was mixed with a strong oil-in-water adjuvant comparator. Nanocapsule immunization also broadened the number of distinct epitopes on the HIV trimer recognized by the antibody response. These results suggest that nanocapsules displaying HIV trimers in an oriented, multivalent presentation can promote key aspects of the humoral response against Env immunogens.
Extraction of instantaneous frequencies from ridges in time–frequency representations of signals (2016)

The extraction of oscillatory components and their properties from different time-frequency representations, such as windowed Fourier transform and wavelet transform, is an important topic in signal processing. The first step in this procedure is to find an appropriate ridge curve: a sequence of amplitude peak positions (ridge points), corresponding to the component of interest. This is not a trivial issue, and the optimal method for extraction is still not settled or agreed. We discuss and develop procedures that can be used for this task and compare their performance on both simulated and real data. In particular, we propose a method which, in contrast to many other approaches, is highly adaptive so that it does not need any parameter adjustment for the signal to be analysed. Being based on dynamic path optimization and fixed point iteration, the method is very fast, and its superior accuracy is also demonstrated. In addition, we investigate the advantages and drawbacks that synchrosqueezing offers in relation to curve extraction. The codes used in this work are freely available for download.
A framework for intelligent notification management in multitasking domains (2008)

Interruptions in the workplace are becoming increasingly prevalent due to the proliferation of proactive behavior within communication applications and collaborative practices. Interruptions caused by notifications from communication applications (email, instant messaging clients) or operating systems, phone calls and collocated individuals often cause a forced break in the user's activity as they may require action on the user's behalf or cause them to switch their attention to the incoming request. Research has shown that interruptions at inopportune moments often result in substantial costs to users and their tasks, e.g. frustration and reduced productivity. However, information conveyed by notifications is also often beneficial to users. A current thrust within the HCI community has been to develop solutions that reduce the cost of interruption caused by notifications while maintaining their utility. 
In this work, we focus on one class of interruption, notifications in the desktop, and present one solution to managing such notifications— intelligently timing their delivery. Our solution is based on a deep theoretical understanding of how humans process information and what moments during a user's task execution exhibit lower mental workload. We leverage breakpoints, transitions between units of action as potential moments for presenting notifications, as we empirically show these moments to have lower mental workload. Through a series of empirical studies, we demonstrate how presenting interruptions at breakpoints lowers interruption costs and how the cost varies based on the granularity of the breakpoint, how these breakpoints can be detected using known task structures and how breakpoints can be detected without any knowledge of the underlying task. We develop O ASIS, a computational framework that can detect and differentiate three levels of breakpoints with reasonable accuracy without requiring any complex machinery. OASIS is the first system of its kind that can detect breakpoints and schedule notifications. We evaluate how O ASIS picks breakpoints for novel users and novel tasks, and how scheduling notifications at breakpoints reduces interruption costs. This work provides the first empirical evidence that intelligent notification management benefits the end user and contributes new lessons for designing effective notification management systems.
Cost Benefit Analysis Tool Incorporating Probabilistic Risk Assessment for Structural Health Monitoring (2006)

Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Twitter Facebook Reddit LinkedIn Tools Icon Tools Reprints and Permissions Cite Icon Cite Search Site Citation John C. Aldrin, Enrique A. Medina, Jeremy Knopp; Cost Benefit Analysis Tool Incorporating Probabilistic Risk Assessment for Structural Health Monitoring. AIP Conf. Proc. 6 March 2006; 820 (1): 1910–1918. https://doi.org/10.1063/1.2184752 Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search Dropdown Menu toolbar search search input Search input auto suggest filter your search All ContentAIP Publishing PortfolioAIP Conference Proceedings Search Advanced Search |Citation Search
Robotic execution of a surgical plan (2003)

The ROBODOC Surgical Assistant was developed to eliminate some common problems associated with total hip replacement surgery: improper fit and placement of the prosthetic implant due to imprecise preparation of the femoral canal. The system combines two separate technologies: CAD/CAM (computer-aided design/computer-aided manufacturing) for preoperative planning and robotics for surgical preparation of a cavity in the femur. The ROBODOC's preoperative planning system blends 3-D imaging technology with a user interface designed for novice computer users. In the operating room, the robot executes the surgeon's plan for femoral canal preparation, replacing mallet-driven broaches and other hand-held tools. The most outstanding feature of the integrated system is the tight link between preoperative planning and surgical execution: no longer will surgeons rely on hand-eye coordination and surgical 'feel' to execute a plan that consists of a 2-D blueprint for a complex operation.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>