gebhart/patrepeval huggingface dataset:
Abstract 5822: Targeting an immortalization mutation to control glioblastoma (2020)

Abstract Glioblastoma multiforme (GBM), the most aggressive primary brain cancer, is a heterogeneous disease. Standard treatment of temozolomide and radiation therapy has remained unchanged for the past thirty years. However, over 80% of GBM tumors have a telomerase reverse transcriptase (TERT) promoter mutation, or TPM. Telomerase is an enzyme containing the catalytic subunit, telomerase reverse transcriptase (TERT), that mediates telomere elongation in the nucleus. In the absence of any effective molecular targeting therapy for GBM, the elucidation of oncogenic signaling of TERT could open new avenues in GBM treatment. Canonically, mutations of TERT, which result in TERT upregulation, maintain telomere length in the nucleus and promote indefinite proliferation of cancer cells. However, a non-canonical function of TERT in the mitochondria has recently been suggested. We screened GBM cell models against a novel small molecule inhibitor (RG1534, Reglagene Inc.) that interferes with the functionality of a mutated TERT promoter. RG1534 selectively suppresses glioma cell viability without affecting non-transformed normal human astrocytes. A dose dependent response was observed in glioma cell lines, resulting in a decrease in TERT mRNA expression. To validate this, TERT protein levels in glioma cells treated with RG1534 were measured and results showed a reduction in expression post treatment. More interestingly, RG1534 treatment leads to rapid induction of apoptosis in glioma cell line which does not correlate with the time course of the telomere shortening effect. Based on prior findings that mitochondrial TERT is involved in DNA damage, we conducted the fractionation of various glioma cell lines to measure the protein expression of TERT in subcellular compartments. We observed a higher expression of TERT in the mitochondria compared to the nucleus. This suggests that TERT may have non-canonical functions outside of telomeric elongation. In summary, our results demonstrate that non-canonical functions of TERT may play a critical role in glioma pathobiology and warrants further study. Citation Format: Jayashree S. Iyer, Nanyun Tang, Shayesteh R. Ferdosi, Vijay Gokhale, Laurence H. Hurley, Harshil D. Dhruv, Michael E. Berens. Targeting an immortalization mutation to control glioblastoma [abstract]. In: Proceedings of the Annual Meeting of the American Association for Cancer Research 2020; 2020 Apr 27-28 and Jun 22-24. Philadelphia (PA): AACR; Cancer Res 2020;80(16 Suppl):Abstract nr 5822.
Control of Common Milkweed (Asclepias syriaca) (1981)

Control of common milkweed ( Asclepias syriaca L.) with postemergence herbicides was investigated in greenhouse and field experiments. In greenhouse experiments, amitrole (3-amino- s -triazole), dicamba (3,6-dichloro- o -anisic acid), glyphosate [ N -(phosphonomethyl)glycine], and combinations of amitrole + dicamba, dicamba + 2,4-D [(2,4-dichlorophenoxy) acetic acid], glyphosate + 2,4-D, and glyphosate + dicamba reduced regrowth of 6-week-old common milkweed as compared with the untreated check. Postemergence herbicides commonly used in corn ( Zea mays L.), sorghum [ Sorghum bicolor (L.) Moench], and soybeans [ Glycine max (L.) Merr.] had little effect on emerged common milkweed. Removal of common milkweed top-growth as early as 1 day after treatment did not effect subsequent growth reduction from glyphosate at 0.3 kg/ha or higher. In the field, satisfactory control (70% or better) of common milkweed was obtained with glyphosate at 2.2 kg/ha applied at the early or late bud growth stage. Plots plowed 1 day after application of glyphosate at 2.2 kg/ha still retained satisfactory control of common milkweed 1 yr after treatment. Herbicides applied with a herbicide glove or a roller applicator resulted in common milkweed control similar to that obtained from broadcast spray applications.
Large Sequence Polymorphisms Unveil the Phylogenetic Relationship of Environmental and Pathogenic Mycobacteria Related to Mycobacterium ulcerans (2009)

Mycolactone is an immunosuppressive cytotoxin responsible for the clinical manifestation of Buruli ulcer in humans. It was believed to be confined to its etiologic agent, Mycobacterium ulcerans. However, the identification of other mycolactone-producing mycobacteria (MPMs) in other species, including Mycobacterium marinum, indicated a more complex taxonomic relationship. This highlighted the need for research on the biology, evolution, and distribution of such emerging and potentially infectious strains. The reliable genetic fingerprinting analyses presented here aim at both the unraveling of phylogenetic relatedness and of dispersal between environmental and pathogenic mycolactone producers and the identification of genetic prerequisites that enable lateral gene transfer of such plasmids. This will allow for the identification of environmental reservoirs of virulence plasmids that encode enzymes required for the synthesis of mycolactone. Based on dynamic chromosomal loci identified earlier in M. ulcerans, we characterized large sequence polymorphisms for the phylogenetic analysis of MPMs. Here, we identify new insertional-deletional events and single-nucleotide polymorphisms that confirm and redefine earlier strain differentiation markers. These results support other data showing that all MPMs share a common ancestry. In addition, we found unique genetic features specific for M. marinum strain M, the genome sequence strain which is used widely in research.
Genetic mapping of a cone and rod dysfunction (Aland Island eye disease) to the proximal short arm of the human X chromosome. (1993)

A five generation family with an X linked ocular disorder has been investigated. The major clinical features were reduced visual acuity, nystagmus, and myopia. Although impaired night vision was not a symptom, using psychophysical and electrophysiological testing both rod and cone function were found to be abnormal in all affected males. No abnormality was detected in carrier females. Gene location studies showed X linked transmission of a gene that maps to proximal Xp11. The findings observed in this cohort are similar to those previously reported in both congenital stationary night blindness type 2 (CSNB2) and Aland Island eye disease (AIED). This study addresses whether CSNB2 and AIED are a single entity or whether the latter is a subset of the former.
Digitally assisted analog circuits (2005)

This article consists of a collection of slides from the authors' conference presentation on digitally assisted analog circuits. The following topics are addressed: system performance for digital circuits versus analog circuits; the special features of digitally assisted A/D converters; the use of digital computing as the driver to improve A/D conversion; examples of digital assisted A/D converter technologies and performance evaluation; and next generation designs and technological developments.
Influence of treatment on leptin levels in patients with obstructive sleep apnoea (2004)

Obstructive sleep apnoea syndrome (OSAS) is a common disorder in obesity. Leptin, an adipocyte-derived signalling factor, plays an important role in metabolic control. There is growing evidence that leptin regulation is altered in OSAS. Therefore, the aim of this study was to test the hypothesis that effective treatment will influence leptin levels in OSAS patients. Serum leptin levels were determined in 86 consecutive patients (aged 57.5 +/- 11.0 yrs) with polysomnographically verified OSAS. In addition, leptin levels were reassessed and treatment efficacy was evaluated by polysomnography after 6 months of therapy. Patients were treated with continuous or bilevel positive airway pressure, a mandibular advancement device or conservatively, depending on the clinical symptoms. Mean serum leptin levels did not change with treatment in the whole study group (7.3 +/- 5.0 versus 7.5 +/- 4.8 ng.mL-1), however, leptin levels decreased in effectively treated patients (8.5 +/- 5.0 versus 7.4 +/- 5.1 ng.mL-1) while they increased in ineffectively treated patients (5.0 +/- 4.0 versus 7.7 +/- 4.1 ng.mL-1). Furthermore, not only was there a significant and independent correlation between the change in leptin levels with treatment and the change in body mass index, but also with the change in apnoea/hypopnoea index. Effective treatment of sleep-disordered breathing may have significant effects on leptin levels in obstructive sleep apnoea syndrome patients. Changes in leptin levels are related to changes in apnoea/hypopnoea index in obstructive sleep apnoea syndrome patients.
Radiation Loading of Cylindrical and Spherical Surfaces (1952)

This paper presents a series of curves of acoustic reactance and resistance ratios for partial waves emitted by cylindrical and spherical sound radiating sources whose dynamic configuration is expressible by infinite series. This information permits the calculation of sound pressure at the radiating surface, power of sound emitted, and accession to inertia for wavelengths and sound radiators in the range 0⩽ka⩽10.
Mesoporous Titanosilicate Molecular Sieves Prepared at Ambient Temperature by Electrostatic (S+I-, S+X-I+) and Neutral (S°I°) Assembly Pathways:  A Comparison of Physical Properties and Catalytic Activity for Peroxide Oxidations (1996)

Hexagonal mesoporous titanosilicates with distinguishable framework charges and textural mesoporosity, namely, Ti-MCM-41 and Ti-HMS, were prepared at ambient temperature by electrostatic and neutral assembly processes, respectively. Titanium incorporation at the 2 mol % level for both materials was accompanied by increases in lattice parameters and wall thicknesses, but the framework pore sizes remained unaffected. Cross-linking of the anionic framework of as-synthesized Ti-substituted MCM-41 prepared by electrostatic S+I- and S+X-I+ assembly pathways (where S+ is a quaternary ammonium surfactant and I- and I+ are ionic silicon precursors) was enhanced significantly by Ti substitution, as judged by 29Si MAS NMR. The neutral framework of as-synthesized Ti-HMS formed by S°I° assembly (where S° is a primary amine and I° is a neutral silicon precursor) exhibited the same high degree of cross-linking as the unsubstituted silica analog. UV−vis and XANES spectra for the calcined forms of Ti-MCM-41 and Ti-HMS indicated (i) the presence of site-isolated Ti species in the framework, (ii) predominantly tetrahedral coordination for Ti, along with some rehydrated five- and six-coordinated sites, and (iii) Ti siting that was virtually independent of the framework assembly pathway. All mesoporous molecular sieves exhibited catalytic activities superior to that of titanium silicalite for the liquid phase peroxide oxidations of methyl methacrylate, styrene, and 2, 6-di-tert-butylphenol. The exceptional catalytic activity in the case of Ti-HMS, especially toward larger substrates, was attributable to the small crystallite size and complementary textural mesoporosity that facilitates substrate access to framework Ti sites.
At Night in the Wig Shop (2014)

At night in the wig shop, the models come to life. They flutter their eyelashes and smack their lips. During the day, they must hold their eyes open, pulled wide, no blinking. Their lips must be pursed just so, in a closed-mouth smile, the corners barely turned up like they are each keeping a coy secret. But at night, after the store has been locked, they can feel the cool relief of their eyelids. They can unclench their jaws, rolling them left and then right...
Self-Assembled Supramolecular M9 (Mn(II), Fe(III), Zn(II)), M5 (Fe(III)), and [M3]2 (Pb(II)) Complexes:  Structural, Magnetic, and Mössbauer Properties (2002)

The tritopic ligand 2poap self-assembles in the presence of Zn(NO(3))(2) and Fe(NO(3))(3) to form homoleptic [3 x 3] nonanuclear M(9) (M = Zn(II), Fe(III)) square grid structures and with Pb(ClO(4))(2) to form a dimerized linear trinuclear [Pb(3)](2) structure. Cl2poap and Cl2poapz form self-assembled homoleptic [3 x 3] Mn(II)(9) square grids with Mn(ClO(4))(2) and Mn(NO(3))(2), respectively, but an unusual incompletely metalated Fe(III)(5) square grid is formed on reaction of Cl2poap with Fe(ClO(4))(3). X-ray structures are reported for [Mn(9)(Cl2poap-2H)(6)](ClO(4))(6).10H(2)O (3), [Mn(9)(Cl2poapz-2H)(6)] (NO(3))(6).22H(2)O (4), [Zn(9)(2poap-2H)(3)(2poap-H)(3)](NO(3))(9).24H(2)O (5), [Pb(3)(2poap-2H) (ClO(4))(4)](2).8H(2)O (6), and [Fe(5)(Cl2poap-H)(6)](ClO(4))(9).34.5H(2)O (7). Compound 3 crystallized in the monoclinic system, space group P(-)1, with a = 18.179(1) A, b = 18.857(1) A, c = 25.871(2) A, alpha = 70.506(2) degrees, beta = 86.440(1) degrees, gamma = 75.175(2) degrees, and z = 2. Compound 4 crystallized in the monoclinic system, space group P(-)1, with a = 16.900(2) A, b = 20.02393) A, c = 25.663() A, alpha = 84.743(3) degrees, beta = 84.885(2) degrees, gamma = 67.081(2) degrees, and z = 2. Compound 5 crystallized in the monoclinic system, space group P(-)1, with a = 18.482(1) A, b = 18.774(1) A, c = 28.112(2) A, alpha = 104.020(1) degrees, beta = 97.791(1) degrees, gamma = 117.036(1) degrees, and z = 2. Compound 6 crystallized in the monoclinic system, space group P(-)1, with a = 10.0513(6) A, b = 11.0958(6) A, c = 17.334(1) A, alpha = 100.932(1) degrees, beta = 100.387(1) degrees, gamma = 94.565(1) degrees, and z = 2. Compound 7 crystallized in the monoclinic system, space group P(-)1, with a = 19.164(1) A, b = 19.587(2) A, c = 26.673(2) A, alpha = 76.430(2) degrees, beta = 78.834(2) degrees, gamma = 64.973(1) degrees, and z = 2. Compound 3 exhibits intramolecular antiferromagnetic exchange within the nonanuclear [Mn(9)(mu-O)(12)] grid structure (J = -4.6 cm(-1)), while the analogous nonanuclear complex [Fe(9)(2poap-2H)(6)](NO(3))(15).18H(2)O (8) is dominated by intramolecular antiferromagnetic coupling at high temperatures but exhibits a low-temperature feature indicative of additional ferromagnetic interactions. The isolated pentanuclear Fe(5) [4 + 1] square grid in 7, with distant Fe-Fe bridging, exhibits very weak antiferromagnetic coupling (J = -0.2 cm(-1)). Mössbauer spectroscopy data are consistent with high-spin Fe(III)(9) and Fe(III)(5) structures.
The XGIS instrument on-board THESEUS: the detection plane and on-board electronics (2021)

The X and Gamma Imaging Spectrometer instrument on-board the THESEUS mission (selected by ESA in the framework of the Cosmic Vision M5 launch opportunity, currently in phase A) is based on a detection plane composed of several thousands of single active elements. Each element comprises a 4.5x4.5x30 mm 3 CsI(Tl) scintillator bar, optically coupled at both ends to Silicon Drift Detectors (SDDs). The SDDs acts both as photodetectors for the scintillation light and as direct X-ray sensors. In this paper the design of the XGIS detection plane is reviewed, outlining the strategic choices in terms of modularity and redundancy of the system. Results on detector-electronics prototypes are also described. Moreover, the design and development of the low-noise front-end electronics is presented, emphasizing the innovative architectural design based on custom-designed Application-Specific Integrated Circuits (ASICs).
A dynamic ultrasound simulation of a pulsating three‐layered CCA for validation of two‐dimensional wall motion and blood velocity estimation algorithms (2017)

The simulated results present static sizes and dynamical variations according with preset values; echo distributions conforming to clinical versions. Therefore, the presented simulation model could be useful as a data source to evaluate the performance of studies on measurements of ultrasound-based tissue structures and dynamic parameters for the CCA layers.
Uplink-Oriented Optimization in Heterogeneous Networks (2017)

This chapter discusses the opposite uplink transmission mode. The focus is on examining the conditions under which the secondary base stations (BSs) can share the same communication channel with the primary BSs, given constraints on predefined quality of service such as a minimum signal-to-interference-plus-noise ratio (SINR) for each transmission accommodated in the common interference-limited channel. Of interest is the global achievability of the uplink target SINRs via distributed closed-loop power control—the basic tool for uplink interference control. The chapter also offers solutions to the problems of BS placement, cell coverage optimization, and target SINR adaptation in wide-band code division multiple access (WCDMA) heterogeneous networks, as well as a discussion on their compatibility with standard downlink-oriented deployment guidelines. Subsequently, it considers uplink interference management in 4G long-term evolution (LTE) networks and discusses a measurement data-driven machine learning paradigm for self-optimizing power control.
Characterization of the long-terminal repeat single-strand tail-binding site of Moloney-MuLV integrase by crosslinking (2008)

Processing of viral DNA by retroviral integrase leaves a dinucleotide single-strand overhang in the unprocessed strand. Previous studies have stressed the importance of the 5' single-stranded (ss) tail in the integration process. To characterize the ss-tail binding site on M-MuLV integrase, we carried out crosslinking studies utilizing a disintegration substrate that mimics the covalent intermediate formed during integration. This substrate carried reactive groups at the 5' ss tail. A bromoacetyl derivative with a side chain of 6 A was crosslinked to the mutant IN 106-404, which lacks the N-terminal domain, yielding a crosslinked complex of 50 kDa. Treatment of IN 106-404 with N-ethylmaleimide (NEM) prevented crosslinking, suggesting that Cys209 was involved in the reaction. The reactivity of Cys209 was confirmed by crosslinking of a more specific derivative carrying maleimide groups that spans 8A approximately. In contrast, WT IN was not reactive, suggesting that the N-terminal domain modifies the reactivity of the Cys209 or the positioning of the crosslinker side chain. A similar oligonucleotide-carrying iodouridine at the 5'ss tail reacted with both IN 106-404 and WT IN upon UV irradiation. This reaction was also prevented by NEM, suggesting that the ss-tail positions near a peptide region that includes Cys209.
A self-learning automaton with variable resolution for high precision assembly by industrial robots (1982)

This paper reports on the use of the stochastic automaton theory to configure control algorithms for high precision assembly operations performed with a force-sensing robot. The basic principle of the stochastic automation, i.e., its variable structure, has been extended to the dimensionality of the automaton by gradually optimizing the resolution of the input variables.
2301 Influence of the dimple dimensions on tribological properties under surface contact (2012)

In this paper, the effect of texture dimensions, which are textured area and aspect ratio of cross section, on sliding characteristic of the parallel plate was described. The sliding tests were carried out using block on disk type friction tester. The dimple patterns which have five kinds of dimensions were processed on block surface by laser processor. The friction coefficient, film thickness, pitch angle of block and behavior of oil flow were observed under varying the sliding velocity and viscosity of oil. The results showed that the friction reduction in mixed lubrication regime was influenced by the textured area, which was, friction coefficient was larger when textured area was smaller. The change of friction reduction was caused by the change of film thickness. In these experimental conditions, cavitation was not observed in contact area.
Microcavity-Integrated Graphene Photodetector (2012)

There is an increasing interest in using graphene (1, 2) for optoelectronic applications. (3-19) However, because graphene is an inherently weak optical absorber (only ≈2.3% absorption), novel concepts need to be developed to increase the absorption and take full advantage of its unique optical properties. We demonstrate that by monolithically integrating graphene with a Fabry-Pérot microcavity, the optical absorption is 26-fold enhanced, reaching values >60%. We present a graphene-based microcavity photodetector with responsivity of 21 mA/W. Our approach can be applied to a variety of other graphene devices, such as electro-absorption modulators, variable optical attenuators, or light emitters, and provides a new route to graphene photonics with the potential for applications in communications, security, sensing and spectroscopy.
Identifying optimal multicore cache hierarchies for loop-based parallel programs via reuse distance analysis (2012)

Understanding multicore memory behavior is crucial, but can be challenging due to the complex cache hierarchies employed in modern CPUs. In today's hierarchies, performance is determined by complicated thread interactions, such as interference in shared caches and replication and communication in private caches. Researchers normally perform extensive simulations to study these interactions, but this can be costly and not very insightful. An alternative is multicore reuse distance (RD) analysis, which can provide extremely rich information about multicore memory behavior. In this paper, we apply multicore RD analysis to better understand cache system design. We focus on loop-based parallel programs, an important class of programs for which RD analysis provides high accuracy. We propose a novel framework to identify optimal multicore cache hierarchies, and extract several new insights. We also characterize how the optimal cache hierarchies vary with core count and problem size.
Figure S8 from Genomic Analysis of Circulating Tumor DNA in 3,334 Patients with Advanced Prostate Cancer Identifies Targetable BRCA Alterations and AR Resistance Mechanisms (2023)

&lt;p&gt;Variant allele fractions of DDR genes.&lt;/p&gt;
A novel design of Quad-band power divider for 3G and 4G applications (2012)

This paper presents a novel Quad-band power divider with equal division ratio operating at four arbitrary frequency bands. Two sections of transmission line transformers based on coupled microstrip lines are applied to obtain quad-band power divider. In addition, design methodology is proposed for the novel structure. A prototype is designed, simulated, fabricated and measured to operate at 2.1, 2.5, 3.5, and 3.8 GHz to fulfill the requirements of 3G and 4G applications. The proposed structure features reduced size and less resistors than other conventional techniques. Measurements are in very good agreement with simulations which verifies the proposed idea and design methodology.
An improved dual active bridge DC/DC converter (2002)

This paper proposes a novel control scheme for a dual active bridge (DAB) DC/DC converter. The proposed control scheme eliminates the large feedback energy problem existing in previous DAB converters and achieves ZVZCS of all switches. The efficiency and output capacitor current ripple are improved. Simulation results and experimental results from a prototype are presented.
Basic Techniques for the Efficient Coordination of Very Large Numbers of Cooperating Sequential Processors (1983)

In this paper we implement several basic operating system primitives by using a "replace-add" operation, which can supersede the standard "test and set" and which appears to be a universal primitive for efficiently coordinating large numbers of independently acting sequential processors. We also present a hardware implementation of replace-add that permits multiple replace-adds to be processed nearly as efficiently as loads and stores. Moreover, the crucial special case of concurrent replace-adds updating the same variable is handled particularly well: If every processing element simultaneously addresses a replace-add at the same variable, all these requests are satisfied in the time required to process just one request.