gebhart/patrepeval huggingface dataset:
Data from Notch1 Mutations Are Drivers of Oral Tumorigenesis (2023)

&lt;div&gt;Abstract&lt;p&gt;Disruption of NOTCH1 signaling was recently discovered in head and neck cancer. This study aims to evaluate NOTCH1 alterations in the progression of oral squamous cell carcinoma (OSCC) and compare the occurrence of these mutations in Chinese and Caucasian populations. We used a high-throughput PCR-based enrichment technology and next-generation sequencing (NGS) to sequence &lt;i&gt;NOTCH1&lt;/i&gt; in 144 samples collected in China. Forty-nine samples were normal oral mucosa from patients undergoing oral surgery, 45 were oral leukoplakia biopsies, and 50 were chemoradiation-naïve OSCC samples with 22 paired-normal tissues from the adjacent unaffected areas. &lt;i&gt;NOTCH1&lt;/i&gt; mutations were found in 54% of primary OSCC and 60% of premalignant lesions. Importantly, almost 60% of patients with leukoplakia with mutated &lt;i&gt;NOTCH1&lt;/i&gt; carried mutations that were also identified in OSCC, indicating an important role of these clonal events in the progression of early neoplasms. We then compared all known &lt;i&gt;NOTCH1&lt;/i&gt; mutations identified in Chinese patients with OSCC with those reported in Caucasians to date. Although we found obvious overlaps in critical regulatory &lt;i&gt;NOTCH1&lt;/i&gt; domains alterations and identified specific mutations shared by both groups, possible gain-of-function mutations were predominantly seen in Chinese population. Our findings demonstrate that premalignant lesions display &lt;i&gt;NOTCH1&lt;/i&gt; mutations at an early stage and are thus &lt;i&gt;bona fide&lt;/i&gt; drivers of OSCC progression. Moreover, our results reveal that NOTCH1 promotes distinct tumorigenic mechanisms in patients from different ethnical populations. &lt;i&gt;Cancer Prev Res; 8(4); 277–86. ©2014 AACR&lt;/i&gt;.&lt;/p&gt;&lt;p&gt;&lt;i&gt;See related perspectives, p. 259 and p. 262&lt;/i&gt;&lt;/p&gt;&lt;/div&gt;
Clinical event reductions in high-risk patients after renal denervation projected from the global SYMPLICITY registry (2022)

Model-based projections suggest radiofrequency renal denervation for patients with uncontrolled hypertension adds considerable clinical benefit across a spectrum of different cohort characteristics.
Poster Presentations at the 8th Canadian Conference on Dementia (CCD), Ottawa, October 2015 (2015)

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The Changing Approach to Cancer Surgery (1985)

Surgical approaches in cancer prevention, diagnosis, and treatment are changing with technical advances and better understanding of tumor biology. The use of surgery within combined-modality treatment programs has improved survival of patients with a variety of cancer types. Surgical resection of metastatic lung or liver disease can be curative in some cases.
The Expandable Split Window Paradigm for Exploiting Fine-grain Parallelism (2005)

We propose a new processing paradigm, called the Expandable Split Window (ESW) paradigm, for exploiting fine-grain parallelism. This paradigm considers a window of instructions (possibly having dependencies) as a single unit, and exploits fine-grain parallelism by overlapping the execution of multiple windows. The basic idea is to connect multiple sequential processors, in a decoupled and decentralized manner, to achieve overall multiple issue. This processing paradigm shares a number of properties of the restricted dataflow machines, but was derived from the sequential von Neumann architecture. We also present an implementation of the Expandable Split Window execution model, and preliminary performance results.
Self-trapping of necklace beams in self focusing Kerr media (2003)

Summary form only given. Solitons of the cubic nonlinear Schrodinger equation (NLSE) are probably the most studied solitons in nature. One of the reasons is the mathematical elegance and simplicity of this equation. But another more important reason is the vast number of physical systems that can be described by this equation. Single polarization envelope waves propagating in isotropic materials, when only the lowest order nonlinearity matters most often obey this equation. In optics, the cubic NLSE models temporal solitons in optical fibers, and low intensity solitons of all dimensions in any centrosymmetric media. Here, we present numerical simulations demonstrating the existence of what is to the best of our knowledge the first ever described (2+1)D self-trapped family of stable bright beams in the (2+1)D cubic NLSE.
Astaxanthin Improves Stem Cell Potency via an Increase in the Proliferation of Neural Progenitor Cells (2010)

The present study was designed to investigate the question of whether or not astaxanthin improves stem cell potency via an increase in proliferation of neural progenitor cells (NPCs). Treatment with astaxanthin significantly increased proliferation and colony formation of NPCs. For identification of possible activated signaling molecules involved in active cell proliferation occurring after astaxanthin treatment, total protein levels of several proliferation-related proteins, and expression levels of proliferation-related transcription factors, were assessed in NPCs. In Western blot analysis, astaxanthin induced significant activation of phosphatidylinositol 3-kinase (PI3K) and its downstream mediators in a time-dependent manner. Results of RT-PCR analysis showed upregulation of proliferation-related transcription factors and stemness genes. To estimate the relevance of PI3K and mitogen-activated protein, or extracellular signal-regulated kinase kinase (MEK) signaling pathways in cell growth of astaxanthin-treated NPCs, inhibition assays were performed with LY294002, a specific inhibitor of PI3K, and PD98059, a specific inhibitor of MEK, respectively. These results clearly showed that astaxanthin induces proliferation of NPCs via activation of the PI3K and MEK signaling pathways and improves stem cell potency via stemness acting signals.
ChemInform Abstract: Electrochemical Deposition of Uniform Lithium on an Ni Substrate in a Nonaqueous Electrolyte. (1994)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Aerosol Matrix-Assisted Laser Desorption Ionization Mass Spectrometry (1994)

A new method of liquid sample introduction for a time-of-flight mass spectrometer (TOF-MS) has been developed by applying the method of matrix-assisted laser desorption ionization to aerosols. Analyte biomolecules are dissolved in a methanol solvent along with a UVabsorbing matrix and formed into an aerosol with a pneumatic nebulizer. The aerosol particles are dried in a heated skimmer tube before ionization by pulsed 355-nm UV laser radiation. Mass analysis is achieved in a linear TOF-MS. Results for the ionization of bovine insulin (5733.5 Mw) are reported.
Whi5 Regulation by Site Specific CDK-Phosphorylation in Saccharomyces cerevisiae (2009)

The Whi5 transcriptional repressor is a negative regulator of G1 cell cycle progression in Saccharomyces cerevisiae and is functionally equivalent to the Retinoblastoma (Rb) tumor suppressor protein in mammals. In early G1, Whi5 binds to and inhibits SBF (Swi4/Swi6) transcriptional complexes. At Start, Cln:Cdc28 kinases phosphorylate and inactivate Whi5, causing its dissociation from SBF promoters and nuclear export, allowing activation of SBF transcription and entry into late G1. In an analysis of Whi5 phosphorylation, we found that 10 of the 12 putative CDK phosphorylation sites on Whi5 were occupied in vivo in asynchronously growing cells. In addition, we identified 6 non-CDK Whi5 phosphorylation sites. Whi5 CDK and non-CDK phosphorylation mutants were functional and able to rescue the small cell size of whi5Delta cells. However, the Whi5 CDK mutant with all 12 putative CDK sites changed to alanine causes a dramatic cell cycle phenotype when expressed with a Swi6 CDK phosphorylation mutant. Mutational analysis of Whi5 determined that only four C-terminal CDK sites were necessary and sufficient for Whi5 inactivation when Swi6 CDK sites were also mutated. Although these four Whi5 CDK sites do not wholly determine Whi5 nuclear export, they do impact regulation of cell size. Taken together, these observations begin to dissect the regulatory role of specific phosphorylation sites on Whi5.
Design of a Wearable Vibrotactile Stimulation Device for Individuals With Upper-Limb Hemiparesis and Spasticity (2022)

Vibratory stimulation may improve post-stroke symptoms such as spasticity; however, current studies are limited by the large, clinic-based apparatus used to apply this stimulation. A wearable device could provide vibratory stimulation in a mobile form, enabling further study of this technique. An initial device, the vibrotactile stimulation (VTS) Glove, was deployed in an eight-week clinical study in which sixteen individuals with stroke used the device for several hours daily. Participants reported wearing the glove during activities such as church, social events, and dining out. However, 69% of participants struggled to extend or insert their fingers to don the device. In a follow-up study, eight individuals with stroke evaluated new VTS device prototypes in a three-round iterative design study with the aims of creating the next generation of VTS devices and understanding features that influence interaction with a wearable device by individuals with impaired upper-limb function. Interviews and interaction tasks were used to define actionable design revisions between each round of evaluation. Our analysis identified six new themes from participants regarding device designs: hand supination is challenging, separate finger attachments inhibit fit and use, fingers may be flexed or open, fabric coverage impacts comfort, a reduced concern for social comfort, and the affected hand is infrequently used. Straps that wrap around the arm and fixtures on the anterior arm were other challenging features. We discuss potential accommodations for these challenges, as well as social comfort. New VTS device designs are presented and were donned in an average time of 48 seconds.
8‐4: Degradation Analysis of InP‐Quantum Dot Light‐Emitting Diodes (2022)

We demonstrate the degradation analysis of red indium phosphide (InP) quantum dot light‐emitting diodes (QLEDs) by measuring the stability of each layer. Our analysis shows that InP‐QDs are very unstable against electron‐exciton stress and we anticipate that this is the cause of the degradation of QLED.
Proportionate Adaptive Filtering Algorithms Derived Using an Iterative Reweighting Framework (2020)

In this paper, based on sparsity-promoting regularization techniques from the sparse signal recovery (SSR) area, least mean square (LMS)-type sparse adaptive filtering algorithms are derived. The approach mimics the iterative reweighted <i>ℓ</i> <sub>2</sub> and <i>ℓ</i> <sub>1</sub> SSR methods that majorize the regularized objective function during the optimization process. We show that introducing the majorizers leads to the same algorithm as simply using the gradient update of the regularized objective function, as is done in existing approaches. Different from the past works, the reweighting formulation naturally leads to an affine scaling transformation (AST) strategy, which effectively introduces a diagonal weighting on the gradient, giving rise to new algorithms that demonstrate improved convergence properties. Interestingly, setting the regularization coefficient to zero in the proposed AST-based framework leads to the Sparsity-promoting LMS (SLMS) and Sparsity-promoting Normalized LMS (SNLMS) algorithms, which exploit but do not strictly enforce the sparsity of the system response if it already exists. The SLMS and SNLMS realize proportionate adaptation for convergence speedup should sparsity be present in the underlying system response. In this manner, we develop a new way for rigorously deriving a large class of proportionate algorithms, and also explain why they are useful in applications where the underlying systems admit certain sparsity, e.g., in acoustic echo and feedback cancellation.
Enhancement of Hole Mobility and Cut-off Characteristics of Strained Ge Nanowire pMOSFETs by using Plasma Oxidized GeOx Inter-layer for Gate Stack (2013)

We demonstrate a record-high hole mobility ( μeff = 1922 cm2/Vs) of a Ge nanowire MOSFET using Al2O3/GeOx gate stacks having a metal (Schottky) source and drain structure employing doping-free processes. Inserting a plasma-oxide (GeOx) inter-layer between the high-k dielectric and the strained Ge nanowire channel greatly improved not only the mobility but the cut-off characteristics. High intrinsic Gmsat (1.21 mS/μm at Vd = -0.5V) and low off-current (2.7×10-9A/μm at Vd = -0.5V) were achieved for the device with the gate length of 45nm thanks to the reduced interface state density.
Flexible graphene–PZT ferroelectric nonvolatile memory (2013)

We report the fabrication of a flexible graphene-based nonvolatile memory device using Pb(Zr0.35,Ti0.65)O3 (PZT) as the ferroelectric material. The graphene and PZT ferroelectric layers were deposited using chemical vapor deposition and sol–gel methods, respectively. Such PZT films show a high remnant polarization (Pr) of 30 μC cm−2 and a coercive voltage (Vc) of 3.5 V under a voltage loop over ±11 V. The graphene–PZT ferroelectric nonvolatile memory on a plastic substrate displayed an on/off current ratio of 6.7, a memory window of 6 V and reliable operation. In addition, the device showed one order of magnitude lower operation voltage range than organic-based ferroelectric nonvolatile memory after removing the anti-ferroelectric behavior incorporating an electrolyte solution. The devices showed robust operation in bent states of bending radii up to 9 mm and in cycling tests of 200 times. The devices exhibited remarkable mechanical properties and were readily integrated with plastic substrates for the production of flexible circuits.
Whole-Genome Sequencing to Characterize Monogenic and Polygenic Contributions in Patients Hospitalized With Early-Onset Myocardial Infarction (2019)

URL: https://www.clinicaltrials.gov . Unique identifier: NCT00597922.
Stereocontrolled Total Synthesis of (+)‐Streptazolin by a Palladium‐Catalyzed Reductive Diyne Cyclization (2004)

Neues zur (+)-Streptazolin-Synthese: Die Schlüsselreaktion einer elfstufigen Totalsynthese von (+)-Streptazolin (3), die von D-Mannitdiacetonid ausgeht, ist die Palladium-katalysierte reduktive Cyclisierung der beiden Alkinarme von 1, die das 1,3-Dien 2 mit der gewünschten Struktur liefert. TBS=tert-Butyldimethylsilyl. Supporting information for this article is available on the WWW under http://www.wiley-vch.de/contents/jc_2001/2004/z460058_s.pdf or from the author. Please note: The publisher is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.
Ultrasound elastography monitoring reveals a decline in shear wave attenuation and clot viscosity after recombinant tissue plasminogen activator treatment of blood clots (2019)

Deep vein thrombosis is one of the leading causes of disability and serious illness and can become fatal. The lytic recombinant tissue plasminogen activator (rt-PA) is the main drug used for clot lysis and rapid normalization of venous blood flow. Less than 40% of patients who receive rt-PA treatment have improved blood flow. In this study, we quantitatively monitor the rt-PA treatment in in-vitro blood clots with ultrasound elastography. An acoustic radiation force imaging sequence was implemented on a research ultrasound system to remotely generate shear waves inside the blood clot samples. Porcine blood samples from two different pigs were bought from a local slaughterhouse. Clots of varying viscoelasticity were prepared by allowing different coagulation time between 30 min to 3 days in borosilicate glass pipettes. The clots were then embedded in gelatin-agar phantoms to perform ultrasound measurements. Another batch of clots from the same blood samples was treated with rt-PA drug for 30 min, and ultrasound measurements were performed after treatment. In 11 samples, variations in SW speed before and after rt-PA treatment were not found to be statistically significant (&amp;gt;0.05). However, SW attenuation and clot viscosity declined significantly after rt-PA treatment by 33.49% ± 31.07% (&amp;lt;0.05) and 33.33% ± 35.72% (&amp;lt;0.05). The results indicate that SW attenuation and viscosity can be used to monitor DVT treatment, and clot viscosity may emerge as an important biomarker for clot staging.
Tumor cell intrinsic androgen biosynthesis by 3β-hydroxy steroid dehydrogenase (HSD3B1) to modulate radiosensitivity in prostate cancer cells. (2020)

349 Background: Resistance to ADT is associated with a gain of function mutation in the 3β-HSD enzyme, which catalyzes extragonadal/intratumoral DHT synthesis. As androgen signaling is known to upregulate the DNA damage response (DDR), we investigated whether HSD3B1 genotype modulates DDR and radiosensitivity in PCa. Methods: We stably knocked down HSD3B1 in LNCaP, C42 and VCaP cell lines (which carry the protein stabilizing variant allele) and overexpressed the variant HSD3B1 allele in LAPC4 (harbors a WT allele which readily undergoes degradation). We examined the proliferative and clonogenic capacity of these cells in presence and absence of substrate, DHEA, followed by treatment with IR (400-800 cGy, single fraction). We studied DNA DSB formation and resolution kinetics using γH2AX foci formation in response to radiation. We also measured changes in mRNA expression of DDR response genes pre- and post-radiation. Results: Control shRNA transduced cell lines had increased cell proliferation (p&lt;0.001) and clonogenic survival (2 logs at 800cGy single fraction radiation, p&lt;0.001) in the presence of DHEA compared to HSD3B1 knockdown cells. Variant HSD3B1 cell lines were more radioresistant and exhibited more efficient γH2AX foci resolution at 24 hrs (p &lt;0.05) in a DHEA dependent manner. We observe increased mRNA expression of DDR genes from specific repair networks including non-homologous end joining (PRKDC, XRCC4, XRCC5) and homologous recombination (RAD51, RAD54) in variant HSD3B1 cells. Transcriptional induction of DDR genes following radiation in presence of DHEA was significantly more pronounced in HSD3B1 variant cells, suggesting a more permissive chromatin context. Conclusions: Increased intracellular 3β-HSD drives transcription of NHEJ and HR genes, more rapid resolution of γH2AX foci, and radioresistance in prostate cancer. This work has therapeutic implications related to strategies for combined radiation and androgen directed therapy in localized and metastatic prostate cancer. Prospective validation of treatment strategies combining blockade of adrenal steroid precursor synthesis, ADT, and XRT in high risk disease is warranted.
Optical analysis of CH3NH3SnxPb1−xI3 absorbers: a roadmap for perovskite-on-perovskite tandem solar cells (2016)

Organic-inorganic perovskite structures in which lead is substituted by tin are exceptional candidates for broadband light absorption. Herein we present a thorough analysis of the optical properties of CH<sub>3</sub>NH<sub>3</sub>Sn <sub><i>x</i></sub> Pb<sub>1-<i>x</i></sub> I<sub>3</sub> films, providing the field with definitive insights about the possibilities of these materials for perovskite solar cells of superior efficiency. We report a user's guide based on the first set of optical constants obtained for a series of tin/lead perovskite films, which was only possible to measure due to the preparation of optical quality thin layers. According to the Shockley-Queisser theory, CH<sub>3</sub>NH<sub>3</sub>Sn <sub><i>x</i></sub> Pb<sub>1-<i>x</i></sub> I<sub>3</sub> compounds promise a substantial enhancement of both short circuit photocurrent and power conversion efficiency in single junction solar cells. Moreover, we propose a novel tandem architecture design in which both top and bottom cells are made of perovskite absorbers. Our calculations indicate that such perovskite-on-perovskite tandem devices could reach efficiencies over 35%. Our analysis serves to establish the first roadmap for this type of cells based on actual optical characterization data. We foresee that this study will encourage the research on novel near-infrared perovskite materials for photovoltaic applications, which may have implications in the rapidly emerging field of tandem devices.
Pack ice stress and convergence measurements by satellite-tracked ice beacons (2002)

Relationships between pack ice stress, ice convergence and atmospheric conditions are investigated with data collected by satellite-tracked ice beacons deployed on the pack ice off the Canadian east coast in March 1996. Ice beacons containing Global Positioning System (GPS) sensors monitored pack ice convergence and divergence. Stationary tests showed that on average the beacons provided hourly data 93% of the time with an absolute positional accuracy of 37m. The mean relative distance accuracy was 17m with a 87% data return when positions from all satellite constellations were used. When only positions from similar satellite constellation were used the relative distance accuracy was 1.7m with a 55% data return. Ice stress data were collected by a 3-directional ice stress sensor deployed on a floe that was the centre of a pack ice triangle monitoring ice convergence/divergence with GPS ice beacons. The pressure sensor facing the thick offshore pack ice recorded pressures between 20 and 40 kPa when ice temperatures at the sensor were between -3.5/spl deg/C and -2.5/spl deg/C. Multi-variate regression analysis showed that the response of the major principal stress was 0.36 kPa for each 1 m/s of wind forcing and that the wind and the ice temperature effects explained 85% of the variance in the major principal ice stress. Since at these warm ice temperatures both the ice volume and ice strength decrease when ice warms, the thermal response of the major principal stress was a decrease of 24.9 kPa for each 1/spl deg/C of ice warming.
An electrostatic micromechanical biosensor for electrical detection of label-free DNA (2012)

An electrostatic micromechanical biosensor is demonstrated for the label-free electrical detection of DNA, based on electrostatic actuation of a double-clamped micromechanical cantilever by driving gate electrodes to establish a current path through drain and source electrodes. Intrinsic charges in DNA alter surface charges on the gate by pre-charging concept and change the pull-in voltage (VPI), the voltage required to bring the suspended cantilever into contact with the drain electrode by induced electrostatic force. Its operation principle is verified by a numerical simulation and a capacitive model. The proposed biosensor represents a breakthrough for practical exploitation of electro-mechanical based sensors.