gebhart/patrepeval huggingface dataset:
Melanoma-Associated Hypopigmentation: Where Are the Antibodies? (1996)

Antibodies to the B16 melanoma cell line and to tyrosinase have been recently defined in our laboratory in sera of patients with vitiligo, melanoma, melanoma-associated hypopigmentation (MAH), and in healthy subjects. The antibody titers in each subject were measured by enzyme-linked immunosorbent assay, were compared with the mean optical density (OD) of the control group, and were expressed as relative OD. The titers of anti-B16 antibodies (relative OD +/- standard error) were 1.000 (0.058) in the controls, 1.025 (0.077) in patients with metastatic melanoma, 0.5862 (0.15) in MAH, 1.377 in surgery-induced MAH, 1.087 in vaccination with anti-idiotypic antibodies, and 2.098 (0.15) in autoimmune vitiligo. The titers in vitiligo were significantly higher (p < 0.0001) than in MAH or in healthy controls. Antityrosinase antibodies were found in titers of 1.000 (0.1024) in the controls, 1.516 (0.225) in metastatic melanoma, 1.027 (0.180) in MAH, 1.075 in surgery-induced MAH, 2.308 in vaccination-induced MAH, and 4.536 in vitiligo. Differences were found between vitiligo and MAH (p = 0.008), surgery-induced MAH (p = 0.009), vaccination-induced MAH (p = 0.059), and healthy subjects (p < 0.0001). The results of this study point to the cross-antigenicity between melanocytes and melanoma cells, and to participation of antibodies against melanoma-associated membrane antigens in the mechanism leading to the development of MAH in patients with melanoma.
Memory Packaging Challenges for a Growing Market (2021)

Abstract Increasing demands for storage and high-performance memory in applications such as artificial intelligence (AI), machine learning and processing storage are driving long-term growth in the market. This paper will highlight the key challenges encountered in packaging next-generation memory devices and discuss some of the technological developments required to address them while considering performance, cost, and yield. An evaluation is highlighted of a remote microwave plasma process to remove damage caused by laser ablation during the wafer dicing process that shows an improvement in die strength using this process.
Advances in the application of nanomaterials for the electrocatalytic detection of drugs of abuse (2023)

Drug abuse has proliferated at an unprecedented rate worldwide, posing significant public health challenges that directly impact society, criminality, and the economy. This review presents the application of nanomaterials for qualitative and quantitative electrocatalytic analysis of drugs of abuse, mostly opioids (such as heroin (HER), morphine (MOR), codeine (COD), fentanyl (FEN), and tramadol (TR)), and addictive stimulants (such as cocaine (COC) and methamphetamine (MAM)) via direct oxidation. Electroanalytical techniques have attracted attention for generating point-of-use sensors because of their low cost, portability, ease of use, and the possibility of miniaturization. Electroanalytical-based devices can assist first responders with tools to identify unknown powders and to treat victims of drug abuse. Based on the drug therapeutic and usage purposes, research advances in drug electroanalysis can be classified and discussed with special emphasis on the electrochemical reaction mechanism of the drug. Therefore, this review discusses sensor enhancement based on the electrocatalytic properties introduced by various strategies, such as surface nanostructuring, the use of conducting polymers, and anodization of electrode surfaces Finally, a critical outlook is presented with recommendations and prospects for future development.
Nano-scale resonant sensors for gas and bio detection: Expectations and challenges (2009)

It is the purpose of this paper to show expectations, challenges and initial steps concerning the realization of resonant chemical NEMS sensors able to meet the needs of future applications. Here, we focus on the functionalization principles of the sensing Self-Assembled Monolayer (SAM), modeling and simulation of CMOS-SOI resonant NEMS sensor with electrostatic actuation and MOSFET detection, first CMOS-SOI experimental results for making Si nano wire for piezoresistive detection schemes, noise limits of the resonant nano-sensors, challenges for the design of the on-chip readout circuitry, and the specific reliability issues of resonant NEMS. Some of the simulated sensitivity results of about 5 Hz/zg at 433 MHz and MOSFET detection are close to the best state- of- art experimental data from literature of 0.7 Hz/zg at 127 MHz. It is our challenge to pursuit at experimental level with our nanosensor concepts for making reliable nanodevices addressing the needs of integrated sensing.
MODMatcher: Multi-Omics Data Matcher for Integrative Genomic Analysis (2014)

Errors in sample annotation or labeling often occur in large-scale genetic or genomic studies and are difficult to avoid completely during data generation and management. For integrative genomic studies, it is critical to identify and correct these errors. Different types of genetic and genomic data are inter-connected by cis-regulations. On that basis, we developed a computational approach, Multi-Omics Data Matcher (MODMatcher), to identify and correct sample labeling errors in multiple types of molecular data, which can be used in further integrative analysis. Our results indicate that inspection of sample annotation and labeling error is an indispensable data quality assurance step. Applied to a large lung genomic study, MODMatcher increased statistically significant genetic associations and genomic correlations by more than two-fold. In a simulation study, MODMatcher provided more robust results by using three types of omics data than two types of omics data. We further demonstrate that MODMatcher can be broadly applied to large genomic data sets containing multiple types of omics data, such as The Cancer Genome Atlas (TCGA) data sets.
Anomalous findings in cultured neurons in presence of laser pulses (2006)

The paper describes an experiment carried out activating a laser source in the near of a culture of
Supramolecular Lattice Deformation and Exciton Trapping in Nanotubular J-Aggregates (2022)

Interactions between excitons and molecular vibrational modes limit the extent of exciton delocalization and rate of energy transport in organic molecular aggregates, diminishing their performance in many optical device applications. This coupling leads to exciton self-trapping and subsequently changes their emission behavior. Certain amphiphilic cyanine dyes form nanotubular aggregates that demonstrate high exciton transport rates and show no such coupling between excitons and molecular vibrational modes. However, under sustained illumination these aggregates undergo photobrightening (PB) and can show a doubling in quantum yield. We investigate this reversible PB process through spectral- and time-resolved photoluminescence (PL) measurements under low illumination intensities. We observe lengthening exciton lifetimes with no corresponding spectral change. Furthermore, wide-angle X-ray scattering measurements show a change in the aggregate structure following PB. We propose a model of PB through large polaron formation, leading to trapping or shielding of these long coherence length excitons through interactions with supramolecular vibrations rather than the intramolecular vibrations typically observed in other aggregates. These excitons are then less able to access nonradiative recombination sites, which leads to the observed increase in quantum yield. The lattice deformations persist after emission and accumulate over time, resulting in brightening of the aggregate under sustained illumination. We support this model through temperature-, color-, and matrix-dependent photoluminescence measurements and show that the model correctly predicts the changes observed upon addition of a FRET quencher. Finally, we demonstrate control over PB behavior through rigidification of the aggregate with a silica shell, potentially enabling the development of long-term-photobrightened devices utilizing molecular aggregates with significantly higher photoluminescence quantum yields.
A phase 1 trial evaluating thioridazine in combination with cytarabine in patients with acute myeloid leukemia (2018)

We completed a phase 1 dose-escalation trial to evaluate the safety of a dopamine receptor D2 (DRD2) antagonist thioridazine (TDZ), in combination with cytarabine. Thirteen patients 55 years and older with relapsed or refractory acute myeloid leukemia (AML) were enrolled. Oral TDZ was administered at 3 dose levels: 25 mg (n = 6), 50 mg (n = 4), or 100 mg (n = 3) every 6 hours for 21 days. Intermediate-dose cytarabine was administered on days 6 to 10. Dose-limiting toxicities (DLTs) included grade 3 QTc interval prolongation in 1 patient at 25 mg TDZ and neurological events in 2 patients at 100 mg TDZ (gait disturbance, depressed consciousness, and dizziness). At the 50-mg TDZ dose, the sum of circulating DRD2 antagonist levels approached a concentration of 10 μM, a level noted to be selectively active against human AML in vitro. Eleven of 13 patients completed a 5-day lead-in with TDZ, of which 6 received TDZ with hydroxyurea and 5 received TDZ alone. During this period, 8 patients demonstrated a 19% to 55% reduction in blast levels, whereas 3 patients displayed progressive disease. The extent of blast reduction during this 5-day interval was associated with the expression of the putative TDZ target receptor DRD2 on leukemic cells. These preliminary results suggest that DRD2 represents a potential therapeutic target for AML disease. Future studies are required to corroborate these observations, including the use of modified DRD2 antagonists with improved tolerability in AML patients. This trial was registered at www.clinicaltrials.gov as #NCT02096289.
Electrochemical Biosensors: Graphene Enabled Low‐Noise Surface Chemistry for Multiplexed Sepsis Biomarker Detection in Whole Blood (Adv. Funct. Mater. 16/2021) (2021)

In article number 2010638, Donald E. Ingber and co-workers report an anti-fouling porous conductive nanocomposite coating for electrochemical biosensors made of albumin intercalated with reduced graphene oxide, which enables sensitive and selective multiplexed detection of biomarkers in complex biological samples such as whole human blood with an ultra-low electrochemic al background.
Recovery of Low-Rank Matrices Under Affine Constraints via a Smoothed Rank Function (2014)

In this paper, the problem of matrix rank minimization under affine constraints is addressed. The state-of-the-art algorithms can recover matrices with a rank much less than what is sufficient for the uniqueness of the solution of this optimization problem. We propose an algorithm based on a smooth approximation of the rank function, which practically improves recovery limits on the rank of the solution. This approximation leads to a non-convex program; thus, to avoid getting trapped in local solutions, we use the following scheme. Initially, a rough approximation of the rank function subject to the affine constraints is optimized. As the algorithm proceeds, finer approximations of the rank are optimized and the solver is initialized with the solution of the previous approximation until reaching the desired accuracy. On the theoretical side, benefiting from the spherical section property, we will show that the sequence of the solutions of the approximating programs converges to the minimum rank solution. On the experimental side, it will be shown that the proposed algorithm, termed SRF standing for smoothed rank function, can recover matrices, which are unique solutions of the rank minimization problem and yet not recoverable by nuclear norm minimization. Furthermore, it will be demonstrated that, in completing partially observed matrices, the accuracy of SRF is considerably and consistently better than some famous algorithms when the number of revealed entries is close to the minimum number of parameters that uniquely represent a low-rank matrix.
Nanoporous gold : from an ancient technology to a high-tech material (2012)

Abstract not provided
Involvement of Pseudomonas putida RpoN sigma factor in regulation of various metabolic functions (1989)

The RpoN protein was originally identified in Escherichia coli as a sigma (sigma) factor essential for the expression of nitrogen regulons. In the present study we cloned the Pseudomonas putida rpoN gene and identified its gene product as a protein with an apparent molecular weight of 78,000. A mutant rpoN gene was constructed by in vitro insertion mutagenesis with a kanamycin cassette. A P. putida rpoN mutant was then isolated by replacement of the intact chromosomal rpoN gene by the mutant rpoN gene through homologous recombination. Examination of the phenotypes of the P. putida rpoN mutant thus obtained allowed the identification of a series of metabolic functions whose expression depends upon the RpoN sigma factor. The rpoN mutation in P. putida affected the utilization by this organism of nitrate, urea, and uncharged amino acids, namely, alanine, glycine, isoleucine, leucine, and serine, as nitrogen sources. The mutation also affected the utilization of the above-mentioned amino acids, as well as lysine, C4-dicarboxylates (succinate, fumarate), and alpha-ketoglutarate, as carbon sources. In contrast to the P. putida wild-type strain, the rpoN mutant was nonmotile. The colony morphology of the mutant strain was different from that of the wild-type strain. Studies on the expression of the TOL plasmid catabolic operons in the mutant strain demonstrated that transcription from the upper-operon promoter and from the xylS gene promoter requires the RpoN sigma factor.
Therapeutic drug monitoring of mexiletine at a large academic medical center (2016)

Mexiletine concentrations are often drawn at inappropriate times and seldom influence a dose change. This study suggests that routine monitoring of mexiletine concentrations may not be necessary; however, therapeutic drug monitoring may be considered in patients with hepatic dysfunction or to confirm mexiletine absorption in patients where this represents a concern.
Model-based decentralised allocation of product flow paths (2010)

The model of product flow paths is a novel reference model for performing product transport operations in a correct and safe manner within processing plants. Thereby, the management of product flow paths is defined as a collection of tasks which enable process control systems to embrace the model of product flow paths and apply it to its operations. This paper presents an approach to the allocation of product flow paths in a plant, which is one of the tasks that a product flow path management system needs to fulfil. This allocation technique is based on a model of the plant and operates in a fully decentralised manner, thus supporting the implementation of decentralised product flow path management systems within current distributed process control systems.
Donor Morbidity Including Biliary Complications in Living-Donor Liver Transplantation (2012)

This study demonstrates the safety of donor hepatectomy. Complications were relatively minor and easily controlled. The incidence of biliary complications and donor age was inversely correlated. The procedural experience of the surgeons was not associated with the donor complication rate.
Fabrication of SU8/SWCNT films as saturable absorbers (2010)

We report the fabrication of novel SU8/SWCNT composite materials as saturable absorbes. The film can be easily inserted between two FC/APC connectors in order to have an inline saturable absorber. A passive mode-locked laser is created by placing this device in an Erbium doped fiber (L-band) ring cavity laser. The laser produces 871 fs pulses with a repetition rate of 21.26 MHz.
Transient absorption and linear dichroism in self-assembled InAs/GaAs quantum dots (2004)

Time-resolved and polarization-resolved measurements are preformed on InAs/GaAs\nquantum dots by means of time-resolved differential reflection spectroscopy. With this\ntechnique, the polarization anisotropy of the absorption bleaching in a quantum dot is\nmeasured. The excitation density dependent measurements of the bleaching magnitude,\nshow a strong polarization dependence, which corresponds to linear dichroism.\nDichroism with a magnitude of 1.3 is observed, governed by strain within the sample.
In situ x-ray diffraction study of CoSi{sub 2} formation during annealing of a Co/Ti bilayer on Si*(100) (1995)

X-ray diffraction (XRD) was performed in situ during annealing of a Co/Ti/Si(001) multilayer, which produced an epitaxial CoSi{sub 2} layer. The results indicate that the Ti layer did. not stay intact during the reaction, and thus could not act like a membrane, moderating Co/Si interdiffusion. A strongly textured metastable phase (M) formed prior to CoSi{sub 2} nucleation. This intermediary reaction product was unobservable upon completion of the anneal. We report that nucleation and growth of CoSi{sub 2} on Si(100) took place in the presence of M, a new Co-Ti-Si-(O) phase, located at the metal/Si interface. M might play an important role in the perfection of the silicide. Ti and Co metals intermix already below 300{degrees}C, and there was evidence that metallic Ti precipitated at the surface, commencing at 550{degrees}C.
Voltage‐Controlled Surface Wrinkling of Elastomeric Coatings (2013)

Wrinkling of elastomeric coatings by an electric field is reported. The associated changes in the coating's optical properties yield switchable mirrors and windows. The field Ec needed to induce wrinkling is a factor of 4.4 lower than the theoretically predicted value, which is attributed to space-charge injection.
Dual Angle Control for Line-Frequency-Switched Static Synchronous Compensators Under System Faults (2013)

Voltage-sourced converter (VSC)-based static synchronous compensators (STATCOMs) are used for voltage regulation in transmission and distribution systems. Unlike PWM-controlled STATCOMs, angle-controlled STATCOMs are switched at line frequency to limit the system losses. In recent years, angle-controlled STATCOMs have been deployed by utilities for the purpose of transmission system voltage regulation, voltage stability improvement, and increasing operational functionality. Despite the superior feature on voltage waveform quality and efficiency, the practical angle-controlled STATCOMs suffer from the over-current (and trips) and possible saturation of the interfacing transformers caused by negative sequence current during unbalanced conditions and faults in the utility. This paper specifically proposes a control structure to improve the angle-controlled STATCOMs performance under unbalanced conditions and faults. The main improvement is a substantial decrease in the negative sequence current and dc-link voltage oscillations under power system faults by the proposed control. This eliminates the need to redesign the STACOM power components to operate under fault current and dc-link voltage oscillations. The proposed control structure is designed based on adding appropriate oscillations to the conventional angle-controller output that is the control angle by which the VSC voltage vector leads/lags the line voltage vector. Since this control structure uses two angles for controlling the VSC output voltage, it is called dual angle control (DAC). PSCAD/EMTDC and experimental results verify the validity of the proposed control structure under unbalanced system conditions and faults. The experiments were conducted on a transient network analyzer, a unique hardware-based flexible ac transmission system simulator which was designed to study system faults and transients for a 2 × 100 MVA STATCOM field installation.
Sub-band Convolutional Neural Networks for Small-footprint Spoken Term Classification (2019)

This paper proposes a Sub-band Convolutional Neural Network for spoken term classification. Convolutional neural networks (CNNs) have proven to be very effective in acoustic applications such as spoken term classification, keyword spotting, speaker identification, acoustic event detection, etc. Unlike applications in computer vision, the spatial invariance property of 2D convolutional kernels does not fit acoustic applications well since the meaning of a specific 2D kernel varies a lot along the feature axis in an input feature map. We propose a sub-band CNN architecture to apply different convolutional kernels on each feature sub-band, which makes the overall computation more efficient. Experimental results show that the computational efficiency brought by sub-band CNN is more beneficial for small-footprint models. Compared to a baseline full band CNN for spoken term classification on a publicly available Speech Commands dataset, the proposed sub-band CNN architecture reduces the computation by 39.7% on commands classification, and 49.3% on digits classification with accuracy maintained.
Advances in the Development of Non-Human Viral DNA-Vectors for Gene Delivery (2002)

Within the last two decades, various vectors based on human viruses have been developed as gene transfer vehicles for gene therapy applications and vaccination. However, one yet unresolved problem connected to the use of viral vectors in humans is the pre-existing immunity to most of these vectors in the vast majority of the population which can result in impaired gene transfer efficiency and increased secondary toxicity. One approach to solve this problem is the development of recombinant viruses of non-human origin as vectors for gene transfer. The major rationale for using such vectors is the avoidance of vector neutralization by pre-existing antibodies directed against the virus on which the vector is based. Use of vectors based on non-human viruses may therefore allow the use of lower initial vector doses to achieve efficient gene transfer. Side-effects caused by interactions between vectors derived from human viruses with a primed immune system or with blood components could also be reduced. Furthermore, these vectors might show new cell type tropisms and could therefore infect tissue and organs that are not accessible to current viral vectors. This review outlines some of the problems inherent in the human origin of current viral vectors and describes features and progress with non-human adenovirus and baculovirus-derived vectors that may provide alternatives.
Bionanoarrays (2007)

This chapter contains sections titled: Overview Methods Atomic Force Microscope-Based Methods Nanopipet Deposition Beam-Based Methods Contact Printing Assembly-Based Patterning Protein Nanoarrays Strategies for Immobilizing Proteins on Nanopatterns Bio-Analytical Applications Dynamic and Motile Nanoarrays Cell-Surface Interactions DNA Nanoarrays Strategies for Preparing DNA Nanoarrays DNA-Based Schemes for Biodetection Applications of Rationally Designed, Self-Assembled 2-D DNA Nanoarrays Virus Nanoarrays Outlook References