gebhart/patrepeval huggingface dataset:
Enhanced resting‐state dynamics of the hemoglobin signal as a novel biomarker for detection of breast cancer (2015)

The authors identified promising hemoglobin-based biomarkers for breast cancer from measures of the resting-state dynamics of the vascular bed. A notable feature of these biomarkers is that their spatial extent encompasses a large fraction of the breast volume, which is mainly independent of tumor size. Tumor-induced induction of nitric oxide synthesis, a well-established concomitant of many breast cancers, is offered as a plausible biological causal factor for the reported findings.
Applications of Highly Coherent Femtosecond Fiber Lasers (2008)

Coherent, broadband fiber lasers produce pulse trains with <1 femtosecond relative timing uncertainty and <1 mHz relative frequency uncertainty. These sources can advance many applications including optical frequency metrology, ranging LIDAR, and broadband molecular spectroscopy.
Calculation of brain atrophy using computed tomography and a new atrophy measurement tool (2015)

<strong>Purpose</strong>: To determine if brain atrophy can be calculated by performing volumetric analysis on conventional computed tomography (CT) scans in spite of relatively low contrast for this modality. <strong>Materials & Method</strong>: CTs for 73 patients from the local Veteran Affairs database were selected. Exclusion criteria: AD, NPH, tumor, and alcohol abuse. Protocol: conventional clinical acquisition (Toshiba; helical, 120 kVp, X-ray tube current 300mA, slice thickness 3-5mm). Locally developed, automatic algorithm was used to segment intracranial cavity (ICC) using (a) white matter seed (b) constrained growth, limited by inner skull layer and (c) topological connectivity. ICC was further segmented into CSF and brain parenchyma using a threshold of 16 Hu. <strong>Results</strong>: Age distribution: 25–95yrs; (Mean 67±17.5yrs.). Significant correlation was found between age and CSF/ICC(r=0.695, p<0.01 2-tailed). A quadratic model (y=0.06–0.001x+2.56x10<sup>-5</sup>x<sup>2</sup> ; where y=CSF/ICC and x=age) was a better fit to data (r=0.716, p < 0.01). This is in agreement with MRI literature. For example, Smith et al. found annual CSF/ICC increase in 58 – 94.5 y.o. individuals to be 0.2%/year, whereas our data, restricted to the same age group yield 0.3%/year(0.2–0.4%/yrs. 95%C.I.). Slightly increased atrophy among elderly VA patients is attributable to the presence of other comorbidities. <strong>Conclusion:</strong> Brain atrophy can be reliably calculated using automated software and conventional CT. Compared to MRI, CT is more widely available, cheaper, and less affected by head motion due to ~100 times shorter scan time. Work is in progress to improve the precision of the measurements, possibly leading to assessment of longitudinal changes within the patient.
Light Enabled Digital Microfluidics:A Technology Leading to a Programmable Lab on a Chip (2009)

This fluid dynamics video showcases how optically induced electrowetting can be used to manipulate liquid droplets in open space and particulate phases inside the droplet. A photoconductive layer is added to a conventional electrowetting-on-dielectric (EWOD) structure to generate light enabled virtual electrodes, hence resulting in an eletrowetting action. Coplanar electrodes deployed alternately on a substrate enable open droplet manipulations differentiating from a sandwiched configuration. An integration with an optoelectric method shows dynamic and rapid particle handling by strong micro fluidic vortices in conjunction with other electrokinetic forces inside a droplet. The droplet manipulations are realized with visible illumination and powered at 150 volts peat-to-peak with a low frequency (100 Hz-800 Hz). The particle concentration is achieved on the surface of the same chip but illuminated with a near-infrared (1064 nm) light source and biased with a high frequency (24 kHz) AC signal.
Delivery of siRNA Using CXCR4-targeted Nanoparticles Modulates Tumor Microenvironment and Achieves a Potent Antitumor Response in Liver Cancer (2015)

Antiangiogenic therapy has recently emerged as a highly promising therapeutic strategy for treating hepatocellular carcinoma (HCC). However, the only clinically approved systemic antiangiogenic agent for advanced HCC is sorafenib, which exerts considerable toxicity. Moreover, acquired resistance to antiangiogenic therapy often develops and restricts the therapeutic efficacy of this treatment. Hence, in this study, we develop a CXCR4-targeted lipid-based nanoparticle (NP) formulation to specifically deliver vascular endothelial growth factor (VEGF) siRNA as an antiangiogenic substance into HCC. AMD3100, a CXCR4 antagonist, is added into NPs to serve as both a targeting moiety and a sensitizer to antiangiogenic therapy. We demonstrate that AMD-modified NPs (AMD-NPs) can efficiently deliver VEGF siRNAs into HCC and downregulate VEGF expression in vitro and in vivo. Despite the upregulation of the SDF1α/CXCR4 axis upon the induction of hypoxia after antiangiogenic therapy, CXCR4 inhibition by AMD-NPs in combination with either conventional sorafenib treatment or VEGF siRNA prevents the infiltration of tumor-associated macrophages. These dual treatments also induce synergistic antiangiogenic effects and suppress local and distant tumor growth in HCC. In conclusion, the tumor-targeted multifunctional AMD-NPs that co-deliver VEGF siRNA and AMD3100 provide an effective approach for overcoming tumor evasion of antiangiogenic therapy, leading to delayed tumor progression in HCC. Antiangiogenic therapy has recently emerged as a highly promising therapeutic strategy for treating hepatocellular carcinoma (HCC). However, the only clinically approved systemic antiangiogenic agent for advanced HCC is sorafenib, which exerts considerable toxicity. Moreover, acquired resistance to antiangiogenic therapy often develops and restricts the therapeutic efficacy of this treatment. Hence, in this study, we develop a CXCR4-targeted lipid-based nanoparticle (NP) formulation to specifically deliver vascular endothelial growth factor (VEGF) siRNA as an antiangiogenic substance into HCC. AMD3100, a CXCR4 antagonist, is added into NPs to serve as both a targeting moiety and a sensitizer to antiangiogenic therapy. We demonstrate that AMD-modified NPs (AMD-NPs) can efficiently deliver VEGF siRNAs into HCC and downregulate VEGF expression in vitro and in vivo. Despite the upregulation of the SDF1α/CXCR4 axis upon the induction of hypoxia after antiangiogenic therapy, CXCR4 inhibition by AMD-NPs in combination with either conventional sorafenib treatment or VEGF siRNA prevents the infiltration of tumor-associated macrophages. These dual treatments also induce synergistic antiangiogenic effects and suppress local and distant tumor growth in HCC. In conclusion, the tumor-targeted multifunctional AMD-NPs that co-deliver VEGF siRNA and AMD3100 provide an effective approach for overcoming tumor evasion of antiangiogenic therapy, leading to delayed tumor progression in HCC.
Application of Embryonic Lethal or Other Obvious Phenotypes to Characterize the Clinical Significance of Genetic Variants Found in <i>Trans</i> with Known Deleterious Mutations (2005)

This work describes an approach to characterize the clinical significance of genetic variants detected during the genetic testing of BRCA1 in patients from hereditary breast/ovarian cancer families. Results from transgenic mice and extensive clinical testing support the hypothesis that biallelic BRCA1 mutations result in embryonic lethality. Therefore, it is reasonable to conclude that variants of uncertain clinical significance found to reside in trans with known deleterious mutations impart reduced risk for cancer. This approach was applied to a large data set of 55,630 patients who underwent clinical BRCA1 screening by whole gene direct DNA sequencing. Fourteen common single nucleotide polymorphisms (SNPs) were used to assign 10 previously defined common, recurrent, or canonical haplotypes in 99% of these cases. From a total of 1,477 genetic variants detected in these patients, excluding haplotype-tagging SNPs, 877 (59%) could be unambiguously assigned to one or more haplotypes. In 41 instances, variants previously classified as being of uncertain clinical significance, mostly missense variants, were excluded as fully penetrant mutations due to their coincidence in trans with known deleterious mutations. From a total of 1,150 patients that harbored these 41 variants, 956 carried one as the sole variant of uncertain clinical significance reported. This approach could have widespread application to other disease genes where compound heterozygous mutations are incompatible with life or result in obvious phenotypes. This largely computational technique is advantageous because it relies upon existing clinical data and is likely to prove informative for prevalent genetic variants in large data sets.
Multi-Axis SMA Actuator Array for Driving Anthropomorphic Robot Hand (2006)

A novel multi-axis Shape Memory Alloy (SMA) array actuator has been developed for driving five-fingered anthropomorphic robot hand. The new actuator array uses Segmented Binary Control (SBC), which controls the SMA wires segment by segment in a digital manner. Normally, SMA wires are hard to control and require nonlinear controllers to control each wire. SBC simplifies the control of SMA wire but increases the complexity of the design and the number of control loops. A multi-axis segmentation theory has been developed to reduce the design complexity and the number of control loops by reducing the number of segments. Segmentation architecture of an actuator array is designed for five-fingered robotic hand that performs fourteen different postures. The segmentation architecture is implemented with ten SMA wires sandwiched between a layer of thermoelectric modules embedded on a printed circuit board and a layer of acrylic substrate board with grooves. Initial results of the segmented binary controlled SMA wire are verified with minimum segment architecture of a single axis.
Inkjet-printed electrochromic devices utilizing polyaniline–silica and poly(3,4-ethylenedioxythiophene)–silica colloidal composite particles (2008)

Polyanline (PANI)–silica and poly(3,4-ethylenedioxythiophene) (PEDOT)–silica colloidal composite particles having a diameter of 200–300 nm were synthesized, then converted to intrinsically conducting polymer (ICP)-inks viasolvent exchange. These inks could be inkjet-printed on indium tin oxide-coated poly(ethylene terephthalate) films (ITO-PET film) using a commercial desktop inkjet printer. These PANI–silica or PEDOT–silica/ITO-PET assemblies were utilized as the active layer in electrochromic devices (ECDs). A number of devices were fabricated that exhibited 500 µm size patterning and utilized spatially controlled printing of the particles to allow for a dual image display. In addition, the PANI and PEDOT-based particles were blended into a single ICP ink that allowed for a wider absorption tuning range of the final ECD.
Compressive sampling for streaming signals with sparse frequency content (2010)

Compressive sampling (CS) has emerged as significant signal processing framework to acquire and reconstruct sparse signals at rates significantly below the Nyquist rate. However, most of the CS development to-date has focused on finite-length signals and representations. In this paper we discuss a streaming CS framework and greedy reconstruction algorithm, the Streaming Greedy Pursuit (SGP), to reconstruct signals with sparse frequency content. Our proposed sampling framework and the SGP are explicitly intended for streaming applications and signals of unknown length. The measurement framework we propose is designed to be causal and implementable using existing hardware architectures. Furthermore, our reconstruction algorithm provides specific computational guarantees, which makes it appropriate for real-time system implementations. Our experimental results on very long signals demonstrate the good performance of the SGP and validate our approach.
<p>Innovative Rotary Displacer Stirling Engine: Sustainable Power Generation for Private and Fleet Vehicle Applications</p> (2011)

The Stirling cycle and related terminology is defined. Selected contemporary research involving the cycle in environmentally friendly applications is cited. Three conventional engine configurations that utilize a reciprocating power piston and crank shaft (the Alpha, Beta, and Gamma) are characterized, in terms of minimum number of components, advantages, and disadvantages. A new type of Stirling engine that employs a segmented rotary displacer and other related design improvements is presented along with preliminary findings from engine test runs.
Reduction/enlargement gradient-index lens array (1984)

A novel concept of a gradient-index lens array for reduction and enlargement is described. The array is composed of radial gradient-index rod lenses arrayed in a fanlike manner. Design and radiometric equations are presented. Some image aberrations are discussed in a qualitative fashion. The imaging performance and radiometric properties of a sample lens array are given.
Oral Administration of .BETA.-Cryptoxanthin Induces Anabolic Effects on Bone Components in the Femoral Tissues of Rats in Vivo (2004)

The effect of beta-cryptoxanthin on bone components in the femoral tissues of rats was investigated. Beta-cryptoxanthin was isolated from Satsuma mandarin (Citrus unshiu MARC.). Bone tissues were cultured for 48 h in serum-free Dulbecco's modified Eagle's medium containing either vehicle or beta-cryptoxanthin (10(-7) or 10(-6) M). The presence of beta-cryptoxanthin (10(-7) or 10(-6) M) caused a significant increase in calcium content and alkaline phosphatase activity in the femoral-diaphyseal and femoral-metaphyseal tissues. These increases were completely abolished in the presence of cycloheximide (10(-6) M), an inhibitor of protein synthesis. Thus beta-cryptoxanthin had an anabolic effect on bone calcification in vitro. Moreover, beta-cryptoxanthin (10, 25, or 50 microg/100 g body weight) was orally administered once daily for 7 d to young male rats. The administration of beta-cryptoxanthin (10, 25, or 50 microg/100 g body weight) caused a significant increase in calcium content and alkaline phosphatase activity in the femoral-diaphyseal and femoral-metaphyseal tissues. Femoral-diaphyseal and femoral-metaphyseal DNA contents were significantly increased by the dose of 25 or 50 microg/100 g body weight. A significant increase in metaphyseal DNA content was also seen with the dose of 10 microg/100 g body weight of beta-cryptoxanthin. This study demonstrates that beta-cryptoxanthin has an anabolic effect on bone components in rats in vitro and in vivo.
Differential antagonism of amylin's metabolic and vascular actions with amylin receptor antagonists (1995)

High affinity amylin binding sites are present in the rat nucleus accumbens. These sites bind [125I]amylin with an affinity of 27 pM and have high affinity for salmon calcitonin (sCT) and moderately high affinity for calcitonin gene related peptide (CGRP). N-terminally truncated peptides were tested for their ability to compete for [125I]amylin binding to these sites and to antagonize the metabolic and vascular actions of amylin. CGRP(8-37), sCT(8-32), and ac-[Asn30,Tyr32]sCT(8-32) (AC187) inhibited [125I]amylin binding to rat nucleus accumbens. Order of potency at inhibiting amylin binding (AC187 > sCT(8-32) > CGRP(8-37)) differed from the order of potency at inhibiting [125I]CGRP binding to SK-N-MC neuroblastoma cells (CGRP(8-37) > AC187 > sCT(8-32)) . AC187 was the most potent antagonist of amylin's effects on isolated rat soleus muscle glycogen metabolism, and it was more effective than either sCT(8-32) or CGRP(8-37) at reducing amylin-stimulated hyperlactemia in rats. In contrast, CGRP(8-37) was the most potent peptide at antagonizing amylin-induced hypotension in rats. Amylin's hypotensive actions appear to be mediated by a weak action at CGRP receptors, while its metabolic actions are mediated by receptors with a distinct antagonist profile. AC187 is a potent antagonist of amylin binding sites in nucleus accumbens and of amylin's metabolic actions.
Sustained relief of ongoing experimental neuropathic pain by a CRMP2 peptide aptamer with low abuse potential (2016)

Uncoupling the protein-protein interaction between collapsin response mediator protein 2 (CRMP2) and N-type voltage-gated calcium channel (CaV2.2) with an allosteric CRMP2-derived peptide (CBD3) is antinociceptive in rodent models of inflammatory and neuropathic pain. We investigated the efficacy, duration of action, abuse potential, and neurobehavioral toxicity of an improved mutant CRMP2 peptide. A homopolyarginine (R9)-conjugated CBD3-A6K (R9-CBD3-A6K) peptide inhibited the CaV2.2-CRMP2 interaction in a concentration-dependent fashion and diminished surface expression of CaV2.2 and depolarization-evoked Ca influx in rat dorsal root ganglia neurons. In vitro studies demonstrated suppression of excitability of small-to-medium diameter dorsal root ganglion and inhibition of subtypes of voltage-gated Ca channels. Sprague-Dawley rats with tibial nerve injury had profound and long-lasting tactile allodynia and ongoing pain. Immediate administration of R9-CBD3-A6K produced enhanced dopamine release from the nucleus accumbens shell selectively in injured animals, consistent with relief of ongoing pain. R9-CBD3-A6K, when administered repeatedly into the central nervous system ventricles of naive rats, did not result in a positive conditioned place preference demonstrating a lack of abusive liability. Continuous subcutaneous infusion of R9-CBD3-A6K over a 24- to 72-hour period reversed tactile allodynia and ongoing pain, demonstrating a lack of tolerance over this time course. Importantly, continuous infusion of R9-CBD3-A6K did not affect motor activity, anxiety, depression, or memory and learning. Collectively, these results validate the potential therapeutic significance of targeting the CaV-CRMP2 axis for treatment of neuropathic pain.
Breakthroughs in Photonics 2013: Organic Nanostructures for Antireflection (2014)

The processing of organic substances by vacuum deposition is opening new possibilities for the properties of optical surfaces. Organic small molecules can be evaporated and deposited like optical thin films. Plasma etching, which has been successfully applied to generate nanostructures on polymer substrates, is now used for obtaining antireflective nanostructures on top of interference stacks on glass. The latest results in achieving excellent antireflective properties for a wide range of light incidence angles were accomplished through multiple etching of polymer substrates and organic layers.
Bio-Inspired Polymer Composite Actuator and Generator Driven by Water Gradients (2013)

Here we describe the development of a water-responsive polymer film. Combining both a rigid matrix (polypyrrole) and a dynamic network (polyol-borate), strong and flexible polymer films were developed that can exchange water with the environment to induce film expansion and contraction, resulting in rapid and continuous locomotion. The film actuator can generate contractile stress up to 27 megapascals, lift objects 380 times heavier than itself, and transport cargo 10 times heavier than itself. We have assembled a generator by associating this actuator with a piezoelectric element. Driven by water gradients, this generator outputs alternating electricity at ~0.3 hertz, with a peak voltage of ~1.0 volt. The electrical energy is stored in capacitors that could power micro- and nanoelectronic devices.
A broadband optical frequency comb generator with parametric gain (2003)

Summary form only given. An optical frequency comb generator (OFCG) provides an array (comb) of equally-spaced spectral lines about a carrier frequency f/sub o/. The comb is formed by placing an electro-optic modulator (EOM) inside a resonant cavity, such that the modulation frequency, f/sub m/, is equal to the cavity mode spacing, or an integer multiple thereof. When operated with known values of f/sub o/ and f/sub m/, the OFCG is a valuable precision link between unknown optical frequencies and known standards separated by many terahertz. The attainable bandwidth of an OFCG is typically limited to a few terahertz by finite modulation index of the EOM, finite cavity finesse, and the cavity dispersion. We propose a new implementation of an OFCG with parametric gain that should provide means to overcome these obstacles to broadband optical frequency control and measurement.
Calibration Tests of New Type Flow-Metering System by Ultrasonic Pulse-Doppler Profile-Velocimetry at National Standard Loops (2006)

To verify high accuracy of a new type flow-metering system based on the measurements of line velocity profiles, eliminating Profile Factors, calibration tests of “UDF”, the flow-metering system by ultrasonic pulse-Doppler profile-velocimetry, were conducted at national standard loops worldwide, including the National Institute of Standard Technology (NIST) of the U.S. Department of Commerce, the National Metrology Institute of Japan (NMIJ) of the National Institute of Advanced Industrial Science and Technology (AIST) in Japan, the Nederlands Meetinstituut (NMI) in Netherlands, and the Centro National de Metrologia (CENAM) in Mexico. The deviations of UDF to the standard loops in the calibration tests for water were found between −0.23% and +0.26% at NIST, 0.1% and 0.4% at NMIJ, and −0.52% and +0.59% at NMI in terms of the average values of each measurement. Following improvements to the UDF System, the calibration tests at CENAM exhibited the deviations between −0.18% and +0.23% and the expanded uncertainty with ±0.21%.
Probe design for Photoacoustic imaging of prostate (2010)

Prostate cancer is the most common malignancy in males and the second leading cause of death due to cancer in the United States. Ultrasound combined with Transrectal ultrasound guided biopsy (TRUS) is the only diagnostic modality in use; however it has low sensitivity and specificity. Need for an improved imaging modality is deeply felt by the community. We propose a novel method and a device for imaging of the prostate, C-scan Photoacoustic (PA) imaging of the prostate. The basic principle, our imaging system design, fabrication and preliminary results are described in this paper.
A 12 V Substrate-Integrated PbO<sub>2</sub>-Activated Carbon Asymmetric Hybrid Ultracapacitor with Silica-Gel-Based Inorganic-Polymer Electrolyte (2012)

A 12 V Substrate-Integrated PbO2-Activated Carbon hybrid ultracapacitor (SI-PbO2-AC HUCs) with silica-gel sulfuric acid electrolyte is developed and performance tested. The performance of the silica-gel based hybrid ultracapacitor is compared with flooded and AGM-based HUCs. These HUCs comprise substrate-integrated PbO2 (SI-PbO2) as positive electrodes and high surface-area activated carbon with dense graphite-sheet substrate as negative electrodes. 12 V SI-PbO2-AC HUCs with flooded, AGM and gel electrolytes are found to have capacitance values of 308 F, 184 F, and 269 F at C-rate and can be pulse charged and discharged for 100,000 cycles with only a nominal decrease in their capacitance values. The best performance is exhibited by gel-electrolyte HUCs.