gebhart/patrepeval huggingface dataset:
Pancreatic cancer in bloom syndrome (2019)

Bloom syndrome is a rare autosomal recessive disorder characterized by distinct physical features, such as short stature, genomic instability, and predisposition to numerous cancers. The <i>BLM</i> gene encodes for the RecQ helicase that plays an important role in genome editing, maintenance, and stability. Mutations in the <i>BLM</i> gene cause genomic instability that exposes the carriers to a variety of cancers, and in particular hematological and gastrointestinal cancers. Herein, we report the first case of pancreatic cancer in a 32-year-old patient with bloom syndrome.
Recent Advances in Flow Cytometry: Platforms, Tools, and Challenges for Data Analysis (2010)

This chapter contains sections titled: Introduction and Overview Current Instrumentation: Advances in Flexibility, Performance, and Throughput Advances in Operating Principles: Object Manipulation, Separation, Analysis, and Light Sources Advances in Platform Formats: Microflow and New Light Sources Reagents and Applications Facing the Challenge of High-Throughput Flow Cytometry Data Analysis References
Exploring Cryptococcus neoformans capsule structure and assembly with a hydroxylamine-armed fluorescent probe (2019)

ABSTRACT Chemical biology is an emerging field that allows the study and manipulation of biological systems using probes that inform on structure based on their reactivity. We report the synthesis of a hydroxylamine-armed fluorescent probe that reacts with reducing glycans and its application to study the architecture of the Cryptococcus neoformans capsule under a variety of conditions. The probe signal localized intracellularly and at the cell wall-membrane interface, implying the presence of reducing end glycans at this location where the capsule attachment to the cell body occurs. In contrast, there was no fluorescence signal in the body of the capsule. We observed vesicle-like structures containing the reducing-end probe, both intra- and extracellularly, consistent with the importance of vesicles in capsular assembly. Disrupting the capsule with DMSO, ultrasound, or mechanical shear-stress resulted in capsule alterations that affected the binding of the probe as reducing ends were exposed, and cell membrane integrity was compromised. In contrast to the polysaccharides in the assembled capsule, isolated exopolysaccharides contained reducing ends. The reactivity of the hydroxylamine-armed fluorescent probe suggests a model for capsule assembly where reducing ends localize to the cell wall surface, supporting previous work suggesting that this is an initiation point for capsular assembly. Chemical biology is a promising approach for studying the C. neoformans capsule and its associated polysaccharides.
Quick SAR measurement system by 2D array E-field sensors (2013)

The safety on human body against electromagnetic fields radiating from mobile devices has been investigated for a long time. The measurement method of RF power absorption to human body from wireless devices usually adopted robot scanning in the phantom in the past. But it takes a very long time to evaluate the SAR value of a mobile device. In this paper, a quick SAR measurement system using a 2D array of E-field probes having 3 axes isotropie characteristics is proposed. It is possible to fast estimate the volume SAR by a software with the 2D surface SAR data acquired by arrayed probes deleting robot moving time.
Resource Sharing Among mmWave Cellular Service Providers in a Vertically Differentiated Duopoly (2017)

With the increasing interest in the use of millimeter wave bands for 5G cellular systems comes renewed interest in resource sharing. Properties of millimeter wave bands such as massive bandwidth, highly directional antennas, high penetration loss, and susceptibility to shadowing, suggest technical advantages to spectrum and infrastructure sharing in millimeter wave cellular networks. However, technical advantages do not necessarily translate to increased profit for service providers, or increased consumer surplus. In this paper, detailed network simulations are used to better understand the economic implications of resource sharing in a vertically differentiated duopoly market for cellular service. The results suggest that resource sharing is less often profitable for millimeter wave service providers compared to microwave cellular service providers, and does not necessarily increase consumer surplus.
Inductively Coupled Plasma Reactive Ion Etching (ICP-RIE): Nanofabrication Tool for High Resolution Pattern Transfer (2001)

Abstract : High resolution lithography and directional ion etching are increasingly important for the fabrication of nanostructures. As part of this equipment proposal, a reactive ion etching system was purchased from Oxford Instruments for $305,000. The Army Research Office provided $274,000, and Caltech cost share amounted to $31,500. This instrument was connected and etching conditions were optimized for the fabrication of nanostructures in silicon, silicon dioxide and gallium arsenide. In this final progress report, we will present some examples of functional devices which have been defined by using this very capable ion etching system.
Speech@home (2011)

To understand how people might use a speech dialog system in the public areas of their homes, we conducted an exploratory field study in six households. For two weeks each household used a system that logged motion and usage data, recorded speech diary entries and used Experience Sampling Methodology (ESM) to prompt participants for additional examples of speech commands. The results demonstrated our participants' interest in speech interaction at home, in particular for web browsing, calendaring and email tasks, although there are still many technical challenges that need to be overcome. More generally, our study suggests the value of using speech to enable a wide range of interactions.
Toward Coupled-Field Characterization and Design Optimization of Single-Wall Nanotube Composites for Hydrogen Storage Systems (2006)

We present an examination of the feasibility for simultaneous characterization and design optimization of various aspects of reactive systems under concurrent heat and mass transport presence. The analysis described in this paper is of a carbon nanotube composite system potentially usable for hydrogen storage applications. Three distinct activities were employed for this analysis. First, the forward continuum model of a multispecies diffusing system under simultaneous exposure to mass diffusion with chemical reactivity and to heat conduction was generated. Second, the problem of hydrogen storage was defined within a pragmatic product-design context where the appropriate design parameters of the system are determined via appropriate optimization methods, utilizing extensive experimental data encoding the systemic behavior. Third, this methodology is applied on a hydrogen storage nanocomposite reactor system and appropriate systemic parameter estimation is performed. Thus, the context of the work presented is defined by a data-driven characterization of coupled heat and mass diffusion models of hydrogen storage systems from a multifield perspective at the macro length scale. In particular, a single-wall nanotube (SWNT) based composite is modeled by coupled partial differential equations representing spatiotemporal evolution of distributions of temperature and hydrogen concentration. Analytical solutions of these equations are adopted for an inverse analysis that defines a nonlinear optimization problem for determining the parameters of the model by objective function minimization. Experimentally acquired and model-produced data are used to construct this objective function. Simulations demonstrating the applicability of the methodology and a discussion of its potential extension to multiscale and manufacturing process optimization are presented.
Repair of oligodeoxynucleotides containing O6-methylguanine by O6-alkylguanine-DNA-alkyltransferase (1986)

O6-Alkylguanine-DNA-alkyltransferase is a DNA repair protein known to carry out the transfer of alkyl groups from the O6-position of guanine in alkylated DNA to a cysteine acceptor site contained within its own protein sequence. We have examined the ability of this protein isolated from either E. coli or mammalian cells to perform this repair reaction in short oligodeoxynucleotides. Dodecadeoxynucleotides of the sequence 5'-dCGNGAATTCm6GCG-3' where N is any one of the normal four bases were all repaired very rapidly by the protein with 50% repair in less than 15 s at 0 degree C. The hexadeoxynucleotide 5'-dCGCm6GCG-3' was repaired slightly more slowly with 50% removal taking 7 min at 0 degree C and 1.5 min at 37 degrees C. The tetradeoxynucleotide 5'-dTm6GCA-3' was also a substrate but was repaired much more slowly requiring 45 min for 50% repair at 37 degrees C. These results indicate that (a) the AGT has a strong but not absolute preference for double-stranded DNA substrates; (b) the repair of O6-methylguanine is independent of the base opposite the lesion; and (c) that oligodeoxynucleotides as short as tetramers are substrates for repair by this protein.
ULTRATHIN LOUDSPEAKERS FROM ALD (2016)

Arrays of suspended microbridges (Figures ! 1 !m have been fabricated and demonstrated to produce audible sound using the thermoacoustic effect.
An Analysis Of The Effect Of Larynx-Synchronous Averaging On Dereverberation Of Voiced Speech (2014)

Publication in the conference proceedings of EUSIPCO, Lisbon, Portugal, 2014
Highly transparent polypropylene cast films: Relationships between optical properties, additives, and surface structure (2007)

Abstract Polypropylene homopolymer and ethylene/propylene‐random‐copolymer cast films formulated with various amounts of slip and antiblocking aids as well as acid scavengers and produced under different processing conditions were characterized with respect to surface structure and optical properties. The topographical analysis was done by atomic force microscopy (AFM). Optical properties were determined using a hazemeter and an UV/Vis/NIR spectrophotometer. AFM height images revealed a significant influence of processing conditions on the development of surface structures. Besides the occurrence of scratches displaying the replica of the metallic chill roll, particularly characteristic eight‐shaped superlamellar crystalline features were affected by the cooling conditions. Relationships between surface enrichment of additives and vertical and lateral roughness parameters were established. In general, film types formulated without additives exhibit better optical properties. For film types formulated with polymer‐processing aids, the diffuse‐scattering power is reduced by low molecular weight, high amounts of acid scavenger aid, and antiblocking agents with low porosity. A separation of haze into its bulk and surface components indicated that total haze is dominated by surface haze. The comparison of haze and the vertical roughness parameters exhibited a tendency of a linear correlation. POLYM. ENG. SCI., 47:1021–1032, 2007. © 2007 Society of Plastics Engineers
Glial cell line-derived neutrotrophic factor and neurturin can act as paracrine growth factors stimulating DNA synthesis of Ret-expressing spermatogonia. (2000)

Glial cell line-derived neurotrophic factor (GDNF) and neurturin (NTN) are related growth factors which exert trophic effects on several neuronal populations and developing kidney. GDNF-family ligands interact with membrane receptors designated GFRalphas which, in turn, mediate stimulation of the Ret receptor tyrosine kinase. Here we show that Ret, GFRalpha-1 (the GDNF receptor), and GFRalpha-2 (the NTN receptor) are expressed by testicular germ cells, while GDNF and NTN are expressed by Sertoli cells. Both GDNF and NTN stimulate DNA synthesis in spermatogonia. Furthermore, Ret, ligands and co-receptors are expressed in germ cell tumors. Thus, GDNF-family ligands may act as paracrine factors in spermatogenesis and this circuit may be active in germ cell tumors.
Low power system-on-chip FPAs (2003)

Rockwell Scientific's 3rd generation FPAs and sensor chip assemblies (SCA) are complete imaging systems-on-chip for IR and visible cameras. They provide 12-bit to 16-bit digital video at very low power consumption in hybrid and monolithic configurations. A 1936 by 1088 i-SoC with 5&mu;m pixel pitch performs stand-alone visible imaging and a related application-specific integrated circuit supports SCAs. The former generates high-definition video at 30 Hz with &lt;30 e-read noise, -80 dB fixed pattern noise and up to 70dB dynamic range at standard 2/3 inch optical format. When coupled to a fiber optic faceplate with micro-channel plate, the i-SoC for HDTV is believed the first for low-light-level HDTV imaging with 12-bit output at &lt;200 mW. The latter, currently being developed to revolutionize space-and ground-based astronomy, is optimized for HAWAII-2RG 2048&times;2048 FPAs to provide 16-bit video at approximately 10mW for 10 Mbps imaging. The ASIC will help build very large mosaics for next-generation telescope sensors.
Pathogenesis of AF: Impact on intracardiac signals (2011)

Atrial fibrillation (AF) is the most common cardiac arrhythmia, and is responsible for the highest number of rhythm-related disorders and cardioembolic strokes worldwide. Intracardiac signal analysis during the onset of paroxysmal AF led to the discovery of pulmonary vein as a triggering source of AF, which has led to the development of pulmonary vein ablation--an established curative therapy for drug-resistant AF. Complex, multicomponent and rapid electrical activity widely involving the atrial substrate characterizes persistent/permanent AF. Widespread nature of the problem and complexity of signals in persistent AF reduce the success rate of ablation therapy. Although signal processing applied to extraction of relevant features from these complex electrograms has helped to improve the efficacy of ablation therapy in persistent/permanent AF, improved understanding of complex signals should help to identify sources of AF and further increase the success rate of ablation therapy.
Bimetallic Ni Alloys for the Electrooxidation of Hydrazine in Alkaline Media (2010)

Bimetallic Ni alloys and solid solutions have been synthesized using spray pyrolysis of metal nitrates. Characterization of synthesized Ni compounds was performed using XRD, SEM, TEM, and EDS, in order to confirm phase compositions. The electrochemical performance for the oxidation of hydrazine in alkaline media for four different compositions of NixZny, Ni80Zn20, Ni66Zn33, Ni50Zn50, and Ni33Zn66, and one composition of NiCo, Ni50Co50, was tested and compared to that of Ni. Highest mass activity was found in the Ni80Zn20 sample, which according to geometry matching has a Ni-Ni distance that matches the gas phase groundstate geometry of hydrazine. This finding highlights the importance of matching surface structure and molecular geometry for this and possibly other catalytic reactions.
Full- or half-duplex? A capacity analysis with bounded radio resources (2012)

Full duplex communication requires nodes to cancel their own signal which appears as an interference at their receive antennas. Recent work has experimentally demonstrated the feasibility of full duplex communications using software radios. In this paper, we address capacity comparisons when the total amount of analog radio hardware is bounded. Under this constraint, it is not immediately clear if one should use these radios to perform full-duplex self-interference cancellation or use the radios to give additional MIMO multiplexing advantage. We find that repurposing radios for cancellation, instead of using all of them for half-duplex over-the-air transmission, can be beneficial since the resulting full-duplex system performs better in some practical SNR regimes and almost always outperforms half duplex in symmetric degrees-of-freedom (large SNR regime).
Solid freeform fabrication of hydrogel structures and cell encapsulation (2010)

We aim to fabricate computer-controlled hydrogel structures containing viable encapsulated cells to overcome the low seeding densities which are inherent to most pre-fabricated scaffold systems.
Using dynamic synapse based neural networks with wavelet preprocessing for speech applications (2004)

One major problem in the field of voice recognition is noise robustness. This project involved the design of a system that is both robust in the presence of noise as well as being capable of two major tasks in voice recognition: speaker verification on a closed set of speakers and speech recognition on a closed set of speakers using a set of command phrases. The system uses a wavelet processing technique that allows for either speaker-dependent or word-dependent feature set extraction. Both tasks are accomplished using a dynamic synapse based neural network with noise resistance properties that is trained using a genetic algorithm technique. Using these techniques, the system was able to perform the speaker verification task as well as the speech recognition task without being adversely affected by normal levels of noise, and perform verification despite low variability between speakers or words.
Evaluation of dietary effects of transgenic corn pollen expressing Cry3Bb1 protein on a non‐target ladybird beetle, Coleomegilla maculata (2002)

Abstract A transgenic corn event (MON 863) has been recently developed by Monsanto Company for control of corn rootworms, Diabrotica spp. (Coleoptera: Chrysomelidae). This transgenic corn event expresses the cry3Bb1 gene derived from Bacillus thuringiensis (Berliner), which encodes the insecticidal Cry3Bb1 protein for corn rootworm control. A continuous feeding study was conducted in the laboratory to evaluate the dietary effect of MON 863 pollen expressing the Cry3Bb1 protein on the survival, larval development, and reproductive capacity of the non‐target species, Coleomegilla maculata DeGeer (Coleoptera: Coccinellidae). First instar C. maculata (less than 24 h old) and newly emerging adults (less than 72 h old) were fed individually on a diet mixture containing 50% of MON 863 pollen, non‐transgenic (control) corn pollen, bee pollen (a component of normal rearing diet), or potassium arsenate‐treated control corn pollen. In the larval tests, 96.7%, 90.0%, and 93.3% of C. maculata larvae successfully pupated and then emerged as adults when fed on MON 863 pollen, non‐transgenic corn pollen, and bee pollen (normal rearing) diets, respectively. Among the larvae completing their development, there were no significant differences in the developmental time to pupation and adult emergence among the transgenic corn pollen, non‐transgenic corn pollen, and bee pollen diet treatments. All larvae fed on arsenate treated corn pollen diet died as larvae. For tests with adults, 83.3%, 80.0%, and 100% of adult C. maculata survived for the 30 days of the test period when reared on diets containing 50% of MON 863 pollen, non‐transgenic corn pollen, and bee pollen respectively. While the adult survival rate on MON 863 pollen diet was significantly less than that on the bee pollen diet, there was no significant difference between the MON 863 and non‐transgenic corn pollen treatments. During the period of adult testing, an average of 77, 80, and 89 eggs per female were laid by females fed on the MON 863 pollen, control corn pollen, and bee pollen, respectively; no significant differences were detected in the number of eggs laid among these treatments. These results demonstrate that when offered at 50% by weight of the dietary component, transgenic corn (MON 863) pollen expressing Cry3Bb1 protein had no measurable negative effect on the survival and development of C. maculata larvae to pupation and adulthood nor any adverse effect on adult survival and reproductive capacity. Relevance of these findings to ecological impacts of transgenic Bt crops on non‐target beneficial insects is discussed.
Differentiation of myeloid cells is accompanied by increased levels of pp60c-src protein and kinase activity. (1986)

We have detected a significant increase in the levels of pp60c-src kinase activity associated with the differentiation of myeloid cell lines HL-60 and U-937. The induction of pp60c-src kinase activity becomes apparent approximately 14 hr after the addition of phorbol 12-myristate 13-acetate and increases 20-fold by 72 hr. The enhanced kinase activity can be accounted for by elevated levels of c-src protein in the differentiated cells. When nonleukemic bone marrow cells were examined, myeloid progenitor cells exhibited a low level of pp60c-src kinase activity. As these cells are allowed to differentiate in culture, the resulting adherent monocytes are as high in pp60c-src kinase activity as HL-60 cells induced to differentiate into monocytes. A strong correlation is found between the levels of pp60c-src kinase activity and the degree of monocytic differentiation of the cells from patients with acute myeloid leukemia. Our findings suggest that the activation of pp60c-src kinase activity is a normal physiological event associated with myeloid differentiation.
Far-field optical nanoscopy of diamond color centers (2009)

Fluorescent nitrogen vacancies (NV) in diamond have drawn much interest because of their potential for computation and quantum cryptography, as well as for nanoscale magnetic imaging and biolabeling due to their special spin and fluorescence properties. However, their optical detection and control is compromised by the diffraction resolution barrier of far-field optics. We showed that stimulated emission depletion (STED) microscopy is capable of imaging NV centres with nanoscale resolution and Ångström precision using focused visible light [1].
Darwin: A Genomics Coprocessor (2019)

Long read sequencing is promising as it provides knowledge of a full spectrum of mutations in the human genome and generates more contiguous de novo assemblies. But high error rate in long reads imposes a computational barrier for genome assembly. Darwin, a specialized coprocessor, which provides orders of magnitude speedup over conventional processors in long read assembly, can eliminate this barrier.
Preparation and evaluation of anti-inflammatory potential of some sesquiterpene lactones: X-ray structure of psilostachyin (2011)

bases play an important role in inorganic chemistry as they easily form stable complexes with most transition metal ions. The development of the field of bioinorganic chemistry has increased the interest in Schiff base complexes, since it has been recognized that many of these complexes may serve as models for biologically important species [1],