gebhart/patrepeval huggingface dataset:
Abstract 3965: MicroRNA markers for the diagnosis of pancreatic cancer (2015)

Abstract It is recently reported that microRNAs (miRNAs) are stably present in serum and potentially useful in the diagnosis of cancer. Using highly sensitive microarray, 3D-Gene®, we examined comprehensive miRNA expression profiles in serum obtained from 66 pancreatic cancer patients and 100 matched healthy volunteer as the study set, and found that 122 miRNA markers differentiated pancreatic cancer patients from healthy control with a statistical significance. We then validated the diagnostic performance of these markers using serum obtained from 33 pancreatic cancer patients and 50 healthy controls. One of the single miRNA markers for pancreatic cancer yielded more than 90% diagnostic sensitivity and specificity, and combined use of two markers perfectly differentiated cancer and healthy samples. Furthermore, combinations of miRNAs that differentiated pancreatic cancer not only from healthy samples but also from non-malignant pancreatic diseases or other digestive (esophagus, stomach, liver and colon) cancers were also identified, and their diagnostic accuracies were superior to those of CEA or CA19-9. Our results suggest that these miRNA markers have clinical values to screen out pancreatic cancer patients. Citation Format: Motohiro Kojima, Hiroko Sudo, Junpei Kawauchi, Satoko Takizawa, Satoshi Kondou, Hitoshi Nobumasa, Atsushi Ochiai. MicroRNA markers for the diagnosis of pancreatic cancer. [abstract]. In: Proceedings of the 106th Annual Meeting of the American Association for Cancer Research; 2015 Apr 18-22; Philadelphia, PA. Philadelphia (PA): AACR; Cancer Res 2015;75(15 Suppl):Abstract nr 3965. doi:10.1158/1538-7445.AM2015-3965
1106. Results of a Phase I Clinical Trial of Adenoviral-Interferon-Beta Gene Therapy for Malignant Mesothelioma and Malignant Pleural Effusions (2006)

Our group is investigating intrapleural (IPl) interferon-beta (IFN- β) gene transfer for malignant pleural mesothelioma (MPM) and malignant pleural effusions (MPE). We previously conducted trials involving adenoviral (Ad)-mediated herpes simplex virus thymidine kinase gene (Ad.HSVtk) delivery and ganciclovir (GCV) in 34 MPM patients. These studies demonstrated dose-related gene transfer and anti-Ad immune responses. Two of 3 surviving patients have minimal residual disease 7.5 years after Ad.HSVtk/GCV. Because of the slow tumor course and anti-tumor immune responses, we next assessed cytokine gene delivery. Experiments in immunocompetent mice demonstrated MPM eradication with a single dose of Ad.muIFN-β. Based on these results, we initiated a Phase 1 trial of Ad.huIFN-β (Biogen-IDEC, Cambridge, MA) in patients with MPM and MPE. Ten patients underwent IPl infusion of a single dose of Ad.IFN-β at two dose levels. Seven had MPM; two had Stage IIIB non- small cell lung cancer; the other patient had metastatic ovarian cancer. One MPM patient received a second IPl dose under an FDA-approved amendment. The first three patients received 9×1011 vp of Ad.IFN-β. All tolerated dosing with mild to moderate toxicities. None experienced a dose limiting toxicity (DLT) or a serious adverse event (SAE). Lymphopenia was the most common side effect. Two of three patients in the first cohort are alive 30 and 25 months post Ad.IFN-β. Four patients with mesothelioma were enrolled at Dose Level 2 (3×1012 vp). One patient experienced transitory hypoxia post Ad.IFN-β. This patient has completed 19 months of evaluations without further complications. The next two patients at Dose Level 2 tolerated dosing and completed their six month evaluations; one died at 9 months from progressive disease; the other had progressive pleural involvement with minimal symptoms. The fourth patient developed transitory elevations in LFT’s. MTD was established at 9x1011 vp. Three additional patients were dosed at MTD without SAE’s. All 10 patients treated with IPl Ad.IFN-β underwent repeat Day 60 imaging. One patient with ovarian cancer had abdominal and pleural responses by PET scan. In our second cohort two MPM patients had stable disease at 60 days and 6 months. One had stable disease on CT and PET scans 12 months post, but showed evidence of disease progression at 18 months. Another patient with sarcomatoid MPM had evidence of metabolic response on PET scan at Day 60. We have thus completed the first Phase 1 dose escalation trial testing the safety and efficacy of single dose of Ad.IFN beta in patients with MPM and MPE. Based on preclinical data showing superior efficacy with repeated Ad.IFN beta, we have begun a new Phase 1 trial with two doses of Ad.IFN beta 2 weeks apart.
Lateral Root Development in Potato Is Mediated by Stu-mi164 Regulation of NAC Transcription Factor (2018)

The NAC designation is derived from petunia (<i>Petunia hybrida</i>) gene <i>NO APICAL MERISTEM</i> (<i>NAM</i>) and <i>Arabidopsis</i> genes <i>ATAF1/ATAF2</i> and <i>CUP-SHAPED COTYLEDON2</i> (<i>CUC2</i>), which belongs to the family of plant-specific transcription factors (TFs), and plays important role in plant development processes, such as response to biotic and abiotic stress, and hormone signaling. MicroRNAs (miRNAs) are a class of small, non-coding endogenous RNAs which play versatile and significant role in plant stress response and development via negatively affecting gene expression at a post-transcriptional level. Here, we showed that Stu-mi164 had a complementary sequence in the CDS sequence of potato NAC TFs, and that NAC expression exhibited significant differences under osmotic stress. We measured expression levels of the Stu-mi164 target gene <i>StNAC262</i> between control and PEG-treated plants using real-time PCR, and the results demonstrated that they had inverse relationship. We suggested that Stu-miR164 might drive overexpression of <i>NAC</i> gene under osmotic stress in potato. To confirm the regulation of NAC TFs by Stu-mi164, we developed transgenic plants, using <i>Agrobacterium tumefaciens</i>-mediated transformation, of the potato cultivars "Gannongshu 2" and "Kexin 3" overexpressing the Stu-mi164 or the TF <i>StNAC262</i>. Real-time PCR analysis of transgenic potato plants under osmotic (PEG) stress, showed that potato plants overexpressing Stu-mi164 had reduced expression of <i>StNAC262</i> and their osmotic resistance decreased. Furthermore, these plants had low number of lateral roots although the same length as the control. Our findings support the regulatory role of Stu-miRNAs in controlling plant response to osmotic stress via <i>StNAC262</i>.
Supplementary Figure S1 from Integrative Analysis of DCE-MRI and Gene Expression Profiles in Construction of a Gene Classifier for Assessment of Hypoxia-Related Risk of Chemoradiotherapy Failure in Cervical Cancer (2023)

&lt;p&gt;Comparing classification based on ABrix and 6-gene classifier.&lt;/p&gt;
Synthetic equivalents of alkynyl and propargyl radicals (2001)

Radicals derived from β-ketoesters can, depending on the position of the unpaired electron, represent synthetic equivalents to the high energy and elusive alkynyl radicals or to the stabilised and relatively unreactive propargyl radicals by application of the xanthate transfer reaction followed by nitrosative cleavage of the corresponding isoxazolinones.
A non-aqueous procedure to synthesize amino group bearing nanostructured organic–inorganic hybrid materials (2014)

Amino-functionalized organic-inorganic hybrid materials with a narrow distributed nanostructure of 2-4 nm in size were obtained by means of a template-free and non-aqueous procedure. Simultaneous twin polymerization of novel amino group containing twin monomers with 2,2'-spirobi[4H-1,3,2-benzodioxasiline] has been applied for this purpose. The amino groups of the organic-inorganic hybrid material are useful for post derivatization.
Fast and Automatic 3D Modeling of Antenna Structure Using CNN-LSTM Network for Efficient Data Generation (2023)

Deep learning-assisted antenna design methods such as surrogate models have gained significant popularity in recent years due to their potential to greatly increase design efficiencies by replacing the time-consuming full-wave electromagnetic (EM) simulations. However, a large number of training data with sufficiently diverse and representative samples (antenna structure parameters, scattering properties, etc.) is mandatory for these methods to ensure good performance. Traditional antenna modeling methods relying on manual model construction and modification are time-consuming and cannot meet the requirement of efficient training data acquisition. In this study, we proposed a deep learning-assisted and image-based intelligent modeling approach for accelerating the data acquisition of antenna samples with different physical structures. Specifically, our method only needs an image of the antenna structure, usually available in scientific publications, as the input while the corresponding modeling codes (VBA language) are generated automatically. The proposed model mainly consists of two parts: Convolutional Neural Network (CNN) and Long Short Term Memory (LSTM) networks. The former is used for capturing features of antenna structure images and the latter is employed to generate the modeling codes. Through training, the proposed model can achieve fast and automatic data acquisition of antenna physical structures based on antenna images. Experiment results show that the proposed method achieves a significant speed enhancement than the manual modeling approach. This approach lays the foundation for efficient data acquisition needed to build robust surrogate models in the future.
ChemInform Abstract: Hexa‐peri‐hexabenzocoronenes — Controlling Their Self‐Assembly by Engineering the Lateral Substituents (2009)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 200 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.
Automatic Image-Based Scene Model Acquisition and Visualization. (2000)

In this paper we present the design and realization of an integrated automatic framework for capturing, reconstructing and rendering real world scenes with image-based techniques. We use uncalibrated 2D video streams from a consumer video camera recording the scene data in an overlapping move pattern and reconstruct a calibrated view sequence from it. This view data is then compressed and transformed to a lightfield representation used for storage and rendering. The system design allows the usage of different compression techniques and lightfield parameterizations. We show the different steps of the process chain and describe the details of the underlying system architecture and its modular design which is capable of transparently supporting various different file formats and data representations required at different stages. As a result we present the application of the framework with a sample scene. Finally we outline current limitations and possibilities for future extensions of the system. 1
Direct Observation of 3D Mesoporous Structure by Scanning Electron Microscopy (SEM): SBA‐15 Silica and CMK‐5 Carbon (2003)

No metal jacket required: The surface structures of mesoporous materials were accurately determined by using electron-microscopy techniques—without the need for metal plating. The effectiveness of these techniques was demonstrated with SBA-15 mesoporous silica (see image) and its CMK-5 carbon replica, for which high-resolution images of the surfaces were obtained.
Infection of phytoplankton by aerosolized marine viruses (2015)

Marine viruses constitute a major ecological and evolutionary driving force in the marine ecosystems. However, their dispersal mechanisms remain underexplored. Here we follow the dynamics of Emiliania huxleyi viruses (EhV) that infect the ubiquitous, bloom-forming phytoplankton E. huxleyi and show that EhV are emitted to the atmosphere as primary marine aerosols. Using a laboratory-based setup, we showed that the dynamic of EhV aerial emission is strongly coupled to the host-virus dynamic in the culture media. In addition, we recovered EhV DNA from atmospheric samples collected over an E. huxleyi bloom in the North Atlantic, providing evidence for aerosolization of marine viruses in their natural environment. Decay rate analysis in the laboratory revealed that aerosolized viruses can remain infective under meteorological conditions prevailing during E. huxleyi blooms in the ocean, allowing potential dispersal and infectivity over hundreds of kilometers. Based on the combined laboratory and in situ findings, we propose that atmospheric transport of EhV is an effective transmission mechanism for spreading viral infection over large areas in the ocean. This transmission mechanism may also have an important ecological impact on the large-scale host-virus "arms race" during bloom succession and consequently the turnover of carbon in the ocean.
Monolithic Dual-Mode DFB Laser for Tunable Continuous-Wave THz Generation (2009)

We report a monolithic dual-mode DFB laser operating in the 1550-nm range as an optical beat source for tunable THz generation. The THz emission from InGaAs photomixers is continuously tuned from 0.17 to 0.49 THz.
Facing the defect characterization and localization challenges of bridge defects on submicronic technology (45nm and below) (2010)

International audience
L-Histidine Decarboxylase and Tourette's Syndrome (2010)

Tourette's syndrome is a common developmental neuropsychiatric disorder characterized by chronic motor and vocal tics. Despite a strong genetic contribution, inheritance is complex, and risk alleles have proven difficult to identify. Here, we describe an analysis of linkage in a two-generation pedigree leading to the identification of a rare functional mutation in the HDC gene encoding L-histidine decarboxylase, the rate-limiting enzyme in histamine biosynthesis. Our findings, together with previously published data from model systems, point to a role for histaminergic neurotransmission in the mechanism and modulation of Tourette's syndrome and tics.
Application of new technologies to studies of neural crest migration and differentiation (1988)

This review describes the application of new techniques for examining some longstanding questions in the neural crest system concerning pathways of migration, cell lineage decisions, and importance of the extracellular matrix. The first issue examined involves the migratory pathways followed by neural crest cells. In birds, it has been possible to map crest migratory routes accurately using antibodies that selectively recognize neural crest cells. These antibodies permit the identification of migrating cells in the absence of the surgical trauma incurred by neural tube transplantations. In amphibian embryos, which are more readily accessible to embryological manipulation than are birds, neural fold grafts using two new cell markers have made it possible to map the early stages of neural crest migration using both interspecific and intraspecific chimerae. In both birds and amphibians, a metameric pattern of neural crest migration was observed; this presumably results from interactions with the adjacent somites. A second novel experimental paradigm tests the role of cell surface-extracellular matrix interactions in neural crest migration. Using antibodies to perturb interactions between the cell surface and the extracellular matrix selectively, it has been possible to identify some molecular interactions that are important for aspects of neural crest migration in situ. New techniques have also made it possible to examine the cell lineage decisions of neural crest cells. Using a retrograde labeling technique and a method of microinjecting cells into embryos, we have found that neural crest-derived cholinergic neurons remain plastic with respect to their neurotransmitter expression even after overt differentiation. New cell-marking techniques have made it possible to study neural crest cell lineage by means of clonal analysis. Individual neural crest precursors can be injected with a cell lineage tracer that is passed to all of its progeny. Thus, we can examine the developmental potential of individual neural crest cells. The various experimental paradigms presented in this review illustrate the utility of recent technological advances to study embryological questions that have long concerned investigators interested in the neural crest and in other developmental systems.
Electrically tunable ring resonators incorporating nematic liquid crystals as cladding layers (2003)

We have demonstrated electrical tuning in ring resonators fabricated from silicon-on-insulator wafers by incorporating nematic liquid crystals (NLCs) as the waveguide top and side cladding material. Photolithographically defined electrodes aligned around the ring resonator were used to control the orientation of the NLCs to modulate the cladding refractive index and, hence, the resonant wavelengths of the ring resonator.
Measurement of the Branching Fraction for D8+ rarr tau+nu_tau and Extraction of the Decay Constant f_D_s (2010)

The branching fraction for the decay D{sub s}{sup +} {yields} {tau}{sup +}{nu}{sub {tau}} with {tau}{sup +} {yields} e{sup +}{bar {nu}}{sub {tau}}, is measured using a data sample corresponding to an integrated luminosity of 427 fb{sup -1} collected at center of mass energies near 10.58 GeV with the BABAR detector at the PEP-II asymmetric-energy e{sup +}e{sup -} collider at SLAC. In the process e{sup +}e{sup -} {yields} c{bar c} {yields} D*{sub s}{sup +} {bar D}{sub TAG}{bar K}X, the D*{sub s}{sup +} meson is reconstructed as a missing particle, and the subsequent decay D*{sub s}{sup +} {yields} D{sub s}{sup +}{gamma} yields an inclusive D{sub s}{sup +} data sample. Here {bar D}{sub TAG} refers to a fully reconstructed hadronic {bar D} decay, {bar K} is a K{sup -} or {bar K}{sup 0}, and X stands for any number of charged or neutral pions. The decay D{sub s}{sup +} {yields} K{sub S}{sup 0}K{sup +} is isolated also, and from ratio of event yields and known branching fractions, {Beta}(D{sub s}{sup +} {yields} {tau}{sup +}{nu}{sub {tau}}) = (4.5 {+-} 0.5 {+-} 0.4 {+-} 0.3)% is determined. The pseudoscalar decay constant is extracted to be f{sub D{sub s}} = (233 {+-} 13 {+-} 10 {+-} 7) MeV, where the first uncertainty is statistical, the second is systematic, and the third results from the uncertainties on the external measurements used as input to the calculation.
System Level Thermal Performance Evaluation of Inverted Exposed Pad Packages (2010)

An extensive 3-D conjugate numerical study is conducted to assess the thermal performance of the 54 lead SOIC (with inverted exposed Cu pad) packages for advanced automotive applications. The thermal performance of the modified designs with exposed pad are investigated, ranging from smaller die/flag size to larger ones, with single or multiple heat sources operating under various powering conditions. The thermal performance is compared to other existing packages with typical application to the automotive industry. The impact of the lead frame geometrical structure and die attach material on the overall thermal behavior is evaluated. Under one steady state (4W) operating scenario, the package reaches a peak temperature of 117.1°C, corresponding to a junction-to-heatsink thermal resistance Rj-hs of 4.27°C/W. For the design with a slightly smaller Cu alloy exposed pad (Cu Alloy), the peak temperature reached by the FETs is 117.8°C, slightly higher than for the design with the intermediate size flag. In this case, the junction-to-heatsink thermal resistance Rj-hs is 4.45°C/W. The worst case powering scenario is identified, with 1.312W/FET and total power of 10.5W, barely satisfying the overall thermal budget. The variation of the peak (junction) temperature is also evaluated for several powering scenarios. Finally, compared different exposed pad packages. The impact of the higher thermal conductivity (solder) die attach is evaluated and compared to the epoxy die attach in the 54 lead SOIC package.
5G CHAMPION - Rolling out 5G in 2018 (2016)

The 5G CHAMPION Consortium will provide the first fully integrated and operational 5G prototype in 2018 - this effort is a major leap ahead compared to existing punctual technology trials, such as, e.g., Proof-of-Concept platforms focusing on mmWave communication in specific bands, etc. This paper describes the overall set-up including a synergetic combination of technologies such as beamforming based mmWave & Satellite service provisioning, virtualized infrastructure, software reconfiguration across the entire stack, accurate positioning and high-speed solutions. The key enablers are described in detail and related efforts in standards and regulation organizations are discussed.
Fully Digital Adaptive Control of a Feed-Forward Amplifier Implemented with Digital Signal Processor (1998)

A complete digital adaptive control is introduced for the mulling and the error loop of a 1.96 GHz feed-forward linearization system. The nulling loop is controlled with a well known power gradient method and the error loop is controlled with a frequency domain cancellation method using a Digital Signal Processor (DSP). To our knowledge it is the First time that experimentals results show 20 dB improvement on the inter-modulations product regardless of the input power level
Evaluation of High-Speed Linear Air-Knife Based Wafer Dryer (2012)

With the downscaling of devices, due to device geometry shrinkage, the total number of cleaning steps has increased dramatically. As a result, the number of drying cycles after cleaning has increased as well. As the device shrinks with the integration density increase, it is noteworthy that a perfect drying efficiency is mandatory to obtain a high performance device [. Basically, the mechanism of wafer drying in semiconductor industry can be explained as: first reducing the amount of liquid on the wafer surface by mechanical forces. There are some approaches for removing the liquid such as spinning, high pressure gas blowing by nozzle or air-jet, vertical withdrawal from the liquid bath, using surface gradient tension and so on [2]. Second: if the mechanical forces in the liquid removal part are not sufficient for drying and some droplets or a thin liquid layer remain on the wafer surface, complete drying will be achieved by evaporation of the remaining layer on the wafer. After this evaporation step, known as state transformation, the wafers will be completely dried. Evaporation of the remaining liquid layer is the main mechanism for generating drying defects (watermarks, residues, particles, and etc.)[3]. In this study, we propose a new methodology for semiconductor wafer drying based on a high-pressure gas flow. In comparison to conventional drying tools, the new drying set up combines high speed drying (wafer drying time down to 2 sec at 150mm.s -1 ) and a low number of added drying defects.
The dependencies of phase velocity and dispersion on volume fraction in cancellous-bone-mimicking phantoms (2009)

Frequency-dependent phase velocity was measured in eight cancellous-bone-mimicking phantoms consisting of suspensions of randomly oriented nylon filaments (simulating trabeculae) in a soft-tissue-mimicking medium (simulating marrow). Trabecular thicknesses ranged from 152 to 356 mum. Volume fractions of nylon filament material ranged from 0% to 10%. Phase velocity varied approximately linearly with frequency over the range from 300 to 700 kHz. The increase in phase velocity (compared with phase velocity in a phantom containing no filaments) at 500 kHz was approximately proportional to volume fraction occupied by nylon filaments. The derivative of phase velocity with respect to frequency was negative and exhibited nonlinear, monotonically decreasing dependence on volume fraction. The dependencies of phase velocity and its derivative on volume fraction in these phantoms were similar to those reported in previous studies on (1) human cancellous bone and (2) phantoms consisting of parallel nylon wires immersed in water.