gebhart/patrepeval huggingface dataset:
A method to maintain phase-change memory pre-coding data retention after high temperature solder bonding process in embedded systems (2011)

For the first time we demonstrate that a Phase Change Memory (PCM) packaged chip can hold pre-coded data after an industrial standard lead free solder bonding reflow process. Good “0” and “1” state distributions are retained in a 90nm 128Mb PCM chip after the soldering process. Furthermore, the tested chip endures more than 10 million write cycles after the pre-coding and high temperature process.
AjaxTracker: A Tool for High Fidelity Characterization of Ajax Applications (2008)

Interactive web applications powered by new technologies such as Asynchronous Javascript and XML (AJAX) have undeniably altered the course of the Web.Despite their popularity, the associated machinery for characterization, measurement, and monitoring of these AJAX-based applications has lagged behind significantly.Part of the problem is that there exists no systematic way to generate AJAX workloads and observe their network behavior today.This paper focuses on addressing this issue by developing a tool, called AjaxTracker, that automatically mimics a human interaction with an AJAX-powered web site and collects associated network traces.These traces can further be post-processed to understand various characteristics of AJAX applications.Given the completely automated nature of our tool, we can study several popular AJAX Web services, such as mail and maps applications from popular providers, both across time as well as space (different vantage points).Our results using a month-long study revealed that AJAX application signatures exhibit remarkable similarity along several features across days.Somewhat surprisingly, there seems to be a lot of similarity across applications that belong to the same category (such as maps, mail) but different providers (such as Google, Yahoo).
Arylimidamides Have Potential for Chemoprophylaxis against Blood-Transmitted Chagas Disease (2023)

Chagas disease (CD) affects over 6 million people worldwide and can be transmitted iatrogenically. Crystal violet (CV) was previously used for pathogen reduction but has harmful side-effects. In the present study, three arylimidamides (AIAs) and CV were used to sterilize mice blood samples experimentally contaminated with bloodstream trypomastigotes (BT) of <i>Trypanosoma cruzi</i>, at non hemolytic doses. All AIAs were not toxic to mouse blood cells until the highest tested concentration (96 µM). The previous treatment of BT with the AIAs impaired the infection establishment of cardiac cell cultures. In vivo assays showed that pre-incubation of mouse blood samples with the AIAs and CV (96 µM) significantly suppressed the parasitemia peak, but only the AIA DB1831 gave ≥90% animal survival, while vehicle treated samples reached 0%. Our findings support further studies regarding the potential use of AIAs for blood bank purposes.
Plasmonic coupling in nondipolar gold colloidal dimers (2011)

International audience
Data from Characterization of TMPRSS2:ETV5 and SLC45A3:ETV5 Gene Fusions in Prostate Cancer (2023)

&lt;div&gt;Abstract&lt;p&gt;Recurrent gene fusions involving oncogenic ETS transcription factors (including &lt;i&gt;ERG, ETV1&lt;/i&gt;, and &lt;i&gt;ETV4&lt;/i&gt;) have been identified in a large fraction of prostate cancers. The most common fusions contain the 5′ untranslated region of &lt;i&gt;TMPRSS2&lt;/i&gt; fused to &lt;i&gt;ERG&lt;/i&gt;. Recently, we identified additional 5′ partners in &lt;i&gt;ETV1&lt;/i&gt; fusions, including &lt;i&gt;TMPRSS2, SLC45A3, HERV-K_22q11.23, C15ORF21&lt;/i&gt;, and &lt;i&gt;HNRPA2B1&lt;/i&gt;. Here, we identify &lt;i&gt;ETV5&lt;/i&gt; as the fourth ETS family member involved in recurrent gene rearrangements in prostate cancer. Characterization of two cases with &lt;i&gt;ETV5&lt;/i&gt; outlier expression by RNA ligase–mediated rapid amplification of cDNA ends identified one case with a &lt;i&gt;TMPRSS2:ETV5&lt;/i&gt; fusion and one case with a &lt;i&gt;SLC45A3:ETV5&lt;/i&gt; fusion. We confirmed the presence of these fusions by quantitative PCR and fluorescence &lt;i&gt;in situ&lt;/i&gt; hybridization. &lt;i&gt;In vitro&lt;/i&gt; recapitulation of &lt;i&gt;ETV5&lt;/i&gt; overexpression induced invasion in RWPE cells, a benign immortalized prostatic epithelial cell line. Expression profiling and an integrative molecular concepts analysis of RWPE-&lt;i&gt;ETV5&lt;/i&gt; cells also revealed the induction of an invasive transcriptional program, consistent with &lt;i&gt;ERG&lt;/i&gt; and &lt;i&gt;ETV1&lt;/i&gt; overexpression in RWPE cells, emphasizing the functional redundancy of ETS rearrangements. Together, our results suggest that the family of 5′ partners previously identified in &lt;i&gt;ETV1&lt;/i&gt; gene fusions can fuse with other ETS family members, suggesting numerous rare gene fusion permutations in prostate cancer. [Cancer Res 2008;68(1):73–80]&lt;/p&gt;&lt;/div&gt;
Response of shear thickening materials to uniaxial shock compression (2011)

The present study is an experimental and computational investigation of shock wave propagation in multiphase suspensions. Particle suspensions are used as a means of obtaining a system in which there is limited initial inter-particle contacts with a large degree of parametric variability. The suspensions were prepared in ethylene glycol at several volume fractions (41%, 48%, and 54%) of silicon carbide particles, mixtures that have been shown to be shear thickening in rheological studies. The dynamic response of the shear thickening fluids is investigated in ranges of deformation relevant to ballistic impacts.A series of plate impact experiments were conducted to obtain the shock Hugoniots of the various suspensions at particle velocities in the range of 200-900 m/s. The experimental results show a transition in the wave propagation behaviour from a regime of propagation dominated by the compressibility of the liquid phase of the suspension to a regime where the response of the mixture becomes dominated by inter-particle contact networks. The transition in the shock Hugoniots of the suspensions indicates a shock-induced stiffening of the suspensions. In situ longitudinal and lateral stress measurements are made in the intermediate volume fraction suspension at two different impact velocities demonstrating a deviatoric stress component to the stress state within the suspension.Analytical and numerical models are employed to demonstrate the likely cause of the transition in the behaviour of the suspensions, resulting from the variation in the solid phase volume fraction of the suspension with increasing shock wave strengths. The results are discussed in terms of the development of extensive inter-particle contacts in a compression-induced mechanism analogous to classical shear thickening in dense suspensions.
A modified dipole model for target discrimination in EMI sensing (2005)

As an inverse problem, UXO (unexploded ordnance) discrimination requires fast forward models to estimate the response of target to sensor sources. In EMI sensing, the most well developed models approximate an object using frequency (or time) dependent magnetic dipoles. If the dipole moments at each frequency are independent model parameters, the number of unknowns in the inverse problem will be very large, particularly when multiple dipoles are required. Here we introduce a modified dipole model, in which a small number of model parameters are needed to describe each element of magnetization tensor. The modified model simplifies the inversion process, which makes it more suitable for real field applications, especially for highly contaminated UXO sites.
I Read but Don't Agree (2018)

With the continuing growth of the Internet landscape, users share large amount of personal, sometimes, privacy sensitive data. When doing so, often, users have little or no clear knowledge about what service providers do with the trails of personal data they leave on the Internet. While regulations impose rather strict requirements that service providers should abide by, the defacto approach seems to be communicating data processing practices through privacy policies. However, privacy policies are long and complex for users to read and understand, thus failing their mere objective of informing users about the promised data processing behaviors of service providers. To address this pertinent issue, we propose a machine learning based approach to summarize the rather long privacy policy into short and condensed notes following a risk-based approach and using the European Union (EU) General Data Protection Regulation (GDPR) aspects as assessment criteria. The results are promising and indicate that our tool can summarize lengthy privacy policies in a short period of time, thus supporting users to take informed decisions regarding their information disclosure behaviors.
Data from BAF Complex Maintains Glioma Stem Cells in Pediatric H3K27M Glioma (2023)

&lt;div&gt;Abstract&lt;p&gt;Diffuse midline gliomas are uniformly fatal pediatric central nervous system cancers that are refractory to standard-of-care therapeutic modalities. The primary genetic drivers are a set of recurrent amino acid substitutions in genes encoding histone H3 (H3K27M), which are currently undruggable. These H3K27M oncohistones perturb normal chromatin architecture, resulting in an aberrant epigenetic landscape. To interrogate for epigenetic dependencies, we performed a CRISPR screen and show that patient-derived H3K27M-glioma neurospheres are dependent on core components of the mammalian BAF (SWI/SNF) chromatin remodeling complex. The BAF complex maintains glioma stem cells in a cycling, oligodendrocyte precursor cell–like state, in which genetic perturbation of the BAF catalytic subunit &lt;i&gt;SMARCA4&lt;/i&gt; (BRG1), as well as pharmacologic suppression, opposes proliferation, promotes progression of differentiation along the astrocytic lineage, and improves overall survival of patient-derived xenograft models. In summary, we demonstrate that therapeutic inhibition of the BAF complex has translational potential for children with H3K27M gliomas.&lt;/p&gt;Significance:&lt;p&gt;Epigenetic dysregulation is at the core of H3K27M-glioma tumorigenesis. Here, we identify the BRG1–BAF complex as a critical regulator of enhancer and transcription factor landscapes, which maintain H3K27M glioma in their progenitor state, precluding glial differentiation, and establish pharmacologic targeting of the BAF complex as a novel treatment strategy for pediatric H3K27M glioma.&lt;/p&gt;&lt;p&gt;&lt;i&gt;&lt;a href="https://aacrjournals.org/cancerdiscovery/article/doi/10.1158/2159-8290.CD-22-1030" target="_blank"&gt;See related commentary by Beytagh and Weiss, p. 2730&lt;/a&gt;.&lt;/i&gt;&lt;/p&gt;&lt;p&gt;&lt;i&gt;&lt;a href="https://aacrjournals.org/cancerdiscovery/article/doi/10.1158/2159-8290.CD-21-1492" target="_blank"&gt;See related article by Mo et al., p. 2906&lt;/a&gt;.&lt;/i&gt;&lt;/p&gt;&lt;p&gt;&lt;i&gt;&lt;a href="https://aacrjournals.org/cancerdiscovery/article/doi/10.1158/2159-8290.CD-12-12-ITI" target="_blank"&gt;This article is highlighted in the In This Issue feature, p. 2711&lt;/a&gt;&lt;/i&gt;&lt;/p&gt;&lt;/div&gt;
Data from Clinicopathologic Features and Long-term Outcomes of NUT Midline Carcinoma (2023)

&lt;div&gt;Abstract&lt;p&gt;&lt;b&gt;Purpose:&lt;/b&gt; NUT midline carcinoma (NMC) is a poorly differentiated squamous cancer characterized by rearrangement of the &lt;i&gt;NUT&lt;/i&gt; gene. Research advances have provided opportunities for targeted therapy in NMC, yet the clinical features of this rare disease have not been systematically characterized. We report on a large population of such patients to identify the disease characteristics and treatments, correlate them with outcome, and to consider clinical recommendations.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Experimental Design:&lt;/b&gt; A clinical database was established using retrospective demographic and outcomes data available on all known cases of NMC. Questionnaires were completed by treating physicians. Pathologic, demographic, and clinical variables were assessed for 63 patients, the largest cohort of patients with NMC studied to date. Outcome data from 54 patients were available for survival analyses.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Results:&lt;/b&gt; The diagnosis of NMC has increased annually since 2007. Since 2009, there has been an observed increase in the age at diagnosis (&lt;i&gt;P&lt;/i&gt; &lt; 0.05). Geographic distribution of patients with NMC has been concentrated in the United States (&lt;i&gt;n&lt;/i&gt; = 41, 65%). The median overall survival for patients with NMC was 6.7 months. The 2-year progression-free survival (PFS) was 9% with a 95% confidence interval (CI) of 1% to 17% [1-year PFS 15% (5–24%) and 2-year overall survival (OS) was 19% with a 95% CI of 7%–31% (1-year OS: 30% (27–34%)]. Multivariate analysis suggested that extent of surgical resection and initial radiotherapy were independent predictors of PFS and OS. Notably, no chemotherapeutic regimen was associated with improved outcome.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Conclusions:&lt;/b&gt; NMC portends a poor prognosis among all squamous cell neoplasms and seems to be frequently unrecognized. The finding that conventional chemotherapy has been inadequate indicates a pressing need for the development of targeted therapeutics. Intensive local therapies such as gross total resection and radiotherapy might be associated with enhanced survival. &lt;i&gt;Clin Cancer Res; 18(20); 5773–9. ©2012 AACR&lt;/i&gt;.&lt;/p&gt;&lt;/div&gt;
Applications of Parallel Synthesis to Lead Optimization (2003)

Parallel synthesis of focused compound libraries for hit confirmation and lead optimization are certainly important drivers for shortening the lead discovery phase in the pharmaceutical and crop protection industries. In this article we show with permission of Roche and Syngenta three real case studies where Polyphor synthesized focused libraries for lead validation and optimization using high-throughput parallel synthesis and purification techniques. The three examples differ significantly in the synthetic strategies which were employed as well as in the chemical complexity of the final products. A multigeneration approach towards insecticidal triazines, the application of a sequential three-component reaction towards insecticidal and fungicidal thiazoles and finally a multistep synthesis approach of advanced building blocks followed by a two-step final derivatization towards novel antiviral N-hydroxy-indolin-2-ones are presented. In all cases 100–200 analogues were synthesized using parallel synthesis in solution followed by purification of the final products by parallel flash or high-throughput (unattended) HPLC (coupled to MS) within four months. Promising biological results were obtained in all three cases.
Watermarking multiple constant multiplications solutions (2005)

Multiplications and multipliers dominate area, power and speed requirements of modern designs. A standard technique to reduce these requirements is to use combinations of shifts and additions to execute multiplications. The approach is particularly effective when multiple constant multiplications are necessary. We introduce a simple, yet effective multiple constant multiplication (MCM) algorithm based on the iterative probabilistic greedy principle. Reusability and time to market constraints and therefore rapid implementations of integrated circuits placed design intellectual property at risk for piracy. We introduce a new intellectual property protection (IPP) technique for the protection of IP during the process of implementing constant multiplications using shifts and additions. Specifically, we introduce eight hard and soft watermarking techniques applied during the preprocessing phase of the MCM process. We demonstrate the technique on a number of constant multiplication benchmarks. The technique consistently achieves high statistical proof of authorship while introducing acceptable overhead in terms of required shifters and adders.
Orthogonal, dual protein labelling by tandem cycloaddition of strained alkenes and alkynes to ortho-quinones and azides (2018)

Reaction of cyclopropanated trans-cyclooctene (cpTCO) with in situ generated ortho-quinone is an efficient tool for bioorthogonal protein conjugation. The (4+2)-cycloaddition of cpTCO with ortho-quinone is significantly faster than its cyclooctyne counterpart (BCN). Orthogonal, tandem cpTCO-quinone and BCN-azide cycloadditions afforded a homogeneous, dual labelled antibody-drug conjugate.
Differential Activation of Visual Areas V1 and V5 by Pattern Reversal Stimulation – An MEG Study (2004)

We have studied the differential activation of visual areas V1 and V5 during early visual information processing in eight healthy subjects in a full-field pattern reversal task (black and white checkerboard). Magnetic fields were registered with a whole-head magnetometer system (Magnes 2500 WH, 4D-Neuroimaging) with 148 SQUIDS and averaged relative to stimulus onset. The underlying current source density was determined by means of the magnetic field tomography [1]. Brain areas displaying stimulus-locked responses were anatomically identified with anatomical probability maps [2]. Our approach revealed that V1 and V5 generate pronounced stimulus-locked responses. The time courses of the V1 and the V5 responses displayed a pattern which was consistent over all subjects: The averaged response in V1 was maximal at 109 ms (standard deviation=10 ms), whereas the maximum of the averaged response of V5 appeared at 168 ms after stimulus onset (standard deviation=11 ms). Our findings contribute to assess the functional role of the different parallel pathways activating V5. References: [1] Ioannides AA, Bolton JPR et al. Continuous probabilistic solutions to the biomagnetic inverse problem. Inverse Problems 1999; 6: 523–542. [2] Amunts K, Malikovic A et al. Brodmann's area 17 and 18 brought into stereotaxic space – Where and how variable? NeuroImage 2000; 11: 66–84.
Core level photoelectron microscopy with synchrotron radiation (invited) (1989)

The capabilities of a direct imaging photoelectron microscope (MicroESCA from Surface Science Instruments) have been demonstrated in a set of experiments carried out at the Stanford Synchrotron Radiation Laboratory (SSRL) using a torroidal grating monochromator in the photon energy range 20–170 eV. Photoelectrons from a 300×300 μm2 sample area are projected in the diverging magnetic field of a superconducting solenoid and an image reflecting the variation in photoelectron yield is recorded digitally with a resistive anode imaging detector. Lateral resolution is better than 5 μm. A retarding field analyzer located in front of the imaging detector acts as a high-pass filter and allows us to obtain a series of spectrally resolved images which can be processed to give a spot XPS analysis of areas as small as 5×5 μm2. Images from a sample of patterned aluminum on silicon are presented to demonstrate the potential of the instrument.
1,25-Dihydroxyvitamin D3 Stimulates Expression and Translocation of Protein Kinase Cα and Cδ via a Nongenomic Mechanism and Rapidly Induces Phosphorylation of a 33-kDa Protein in Acute Promyelocytic NB4 Cells (1996)

1,25-Dihydroxyvitamin D3 (1,25-(OH)2D3) primes NB4 cells for 12-O-tetradecanoylphorbol-13-acetate-induced monocytic differentiation in a dose- and sequence-dependent fashion. Experiments utilizing 1,25-(OH)2D3 analogues and kinase/phosphatase inhibitors suggested that tyrosine kinase and serine/threonine phosphorylation cascades, rather than vitamin D3 receptor-mediated signals, were involved in 1,25-(OH)2D3 action. Here we show that NB4 cells express the alpha and delta (but not the beta, epsilon, and theta) isoforms of protein kinase C (PKC). Both authentic 1, 25-(OH)2D3 and the nongenomic analogue 1alpha,25-dihydroxyprevitamin D3 (HF) increased expression of PKCalpha and PKCdelta. PKCalpha and PKCdelta were translocated to the nucleus of the cell in response to 1,25-(OH)2D3 or HF. The effects of HF were attenuated by the nongenomic antagonist 1beta,25-dihydroxyvitamin D3, suggesting that changes in PKC expression are mediated by a nongenomic signaling pathway. Consistent with the involvement of serine, threonine, and tyrosine phosphorylation cascades mediating 1,25-(OH)2D3 action, enhanced phosphorylation of a variety of cellular proteins at serine and threonine residues and the specific enhanced phosphotyrosyl content of a 33-kDa protein (vdrp33) were observed immediately after 1,25-(OH)2D3 addition. We propose that 1,25-(OH)2D3 primes NB4 cells for 12-O-tetradecanoylphorbol-13-acetate-induced monocytic differentiation by increasing the expression of specific PKC isoforms and inducing the specific phosphorylation of key protein signaling intermediates.
Vortex wave stability in homogeneous excitable media: simulations on a randomized discrete lattice (2002)

The authors studied the stability of vortex waves in 2D homogeneous excitable media using a cellular automaton model on a randomized square lattice. The authors performed two different sets of simulations using both square and circular regions for the interaction neighborhood. In both cases, the spontaneous breaking of the vortex waves was eliminated by randomizing the positions of the lattice nodes beyond a minimum length scale /spl lambda//sub c/. This scale was substantially smaller for the circular interaction region.
Effect of Grain Size on Reaction between Pb-Free Solder and Plated Iron (2005)

This DOI is not currently attached to any metadata records. DOIs can’t actually ever be deleted (they’re persistent), but sometimes our members create DOIs in error. We do have a process to approximate deletion which we follow only in rare cases where the DOI has been genuinely created in error, and most crucially, if the DOI has never been published anywhere online or in print and never otherwise distributed to or communicated with anyone (authors, readers, reviewers, etc.
Influence of 10-(6′-plastoquinonyl)decyltriphenylphosphonium (SkQ1) on oxidative status in rats with protamine sulfate-induced hyperglycemia (2015)

An influence of 10-(6'-plastoquinonyl)decyltriphenylphosphonium (SkQ1) on oxidative status and activity of some antioxidant enzymes in the liver and blood serum from rats was examined during experimental hyperglycemia developed after injecting protamine sulfate. It was found that SkQ1 lowered glycemic level in rats treated with protamine sulfate. Moreover, it was also accompanied by restoration of the normal range of biochemiluminescence parameters indicating the rate of ongoing free radical processes, magnitude of primary products of lipid peroxidation such as diene conjugates, activity of aconitate hydratase, and level of citrate in rat liver and blood. Hence, it was demonstrated that activity of superoxide dismutase and catalase, increasing during hyperglycemia, was decreased after administering SkQ1. This might be related to the ability of SkQ1 to normalize free-radical homeostasis imbalanced during hyperglycemia.
miR-34a as hub of T cell regulation networks (2019)

By simultaneous targeting of 14 mRNAs miR-34a acts as major hub of T cell regulatory networks suggesting to utilize miR-34a as target of intervention towards a modulation of the immune responsiveness of T-cells in a broad tumor context.
Using SAML to protect the session initiation protocol (SIP) (2006)

The security assertion markup language (SAML) standard supports the expression of security assertions such as authentication, role membership, or permissions. SAML assertions may be used to realize single-sign-on between Web servers located in different domains. After a short introduction to SAML, this article describes the application of SAML to protect session initiation protocol (SIP) signaling