gebhart/patrepeval huggingface dataset:
Asymmetrically Substituted Quadruplex-Binding Naphthalene Diimide Showing Potent Activity in Pancreatic Cancer Models (2020)

Targeting of genomic quadruplexes is an approach to treating complex human cancers. We describe a series of tetra-substituted naphthalene diimide (ND) derivatives with a phenyl substituent directly attached to the ND core. The lead compound (SOP1812) has 10 times superior cellular and <i>in vivo</i> activity compared with previous ND compounds and nanomolar binding to human quadruplexes. The pharmacological properties of SOP1812 indicate good bioavailability, which is consistent with the <i>in vivo</i> activity in xenograft and genetic models for pancreatic cancer. Transcriptome analysis shows that it down-regulates several cancer gene pathways, including Wnt/β-catenin signaling.
Centrosome hypertrophy in human breast tumors: Implications for genomic stability and cell polarity (1998)

The centrosome plays an important role in maintenance of cell polarity and in progression through the cell cycle by determining the number, polarity, and organization of interphase and mitotic microtubules. By examining a set of 35 high grade human breast tumors, we show that centrosomes of adenocarcinoma cells generally display abnormal structure, aberrant protein phosphorylation, and increased microtubule nucleating capacity in comparison to centrosomes of normal breast epithelial and stromal tissues. These structural and functional centrosome defects have important implications for understanding the mechanisms by which genomic instability and loss of cell polarity develop in solid tumors.
The microsomal glucose-6-phosphatase enzyme of pancreatic islets (1988)

Microsomal fractions isolated from pancreatic islet cells were shown to contain high specific glucose-6-phosphatase activity. The islet-cell glucose-6-phosphatase enzyme has the same Mr (36,500), similar immunological properties and kinetic characteristics to the hepatic microsomal glucose-6-phosphatase enzyme.
Identifying Twitter Location Mentions (2014)

This paper describes our system in the ALTA shared task 2014. The task is to identify location mentions in Twitter messages, such as place names and point-ofinterests (POIs). We formulated the task as a sequential labelling problem, and explored various features on top of a conditional random field (CRF) classifier. The system achieved 0.726 mean-F measure on the held-out evaluation data. We discuss our results and suggest ideas for future work on location mention recognition in social media.
Temperature Dependence of Strain Induced by Electric Field in Piezoelectric Ceramics (1995)

The temperature dependence of piezoelectric constant (d31) and the strain characteristics of the (Pb0.845Ba0.105Sr0.05) ((ZrxTi1-x)0.95Sn0.045Nb0.005)O3 series (x=0.49, 0.52, 0.55), in which the grain size was controlled by hot-pressing (HP), were investigated between -196 and 90°C. The piezoelectric constant (d31) was measured using an impedance analyzer (YHP4192A). The strain characteristics were measured by applying DC electric field (1.0kV/mm) and the durability under repetitious DC electric field (1.0kV/mm, 1Hz). The results showed that the piezoelectric constant (d31) and the actually found strain (δ) under DC electric field increase with increasing temperature. Between -196 and 90°C, the actually found strain (δ) was larger than calculated value (δcal), obtained by multiplying the d31 with DC electric field. This difference (δ-δcal) was caused by the strain (δp) of domainial reorientation alone the intensity of electric field. It is found that the δp was nearly zero at -196°C (liquid nitrogen temperature), and increases with increasing temperature. Furthermore, it was clarified that the temperature dependence of δp varied with the composition and grain size. It is shown that the temperature dependence of δp is related to that of the binding force of domain (σb). In the durability test between -196 to 90°C, the δ became small after the test. The change of δ increased with increasing temperature. It is found that the decrease of δp led to that of δ. We found that the change of δp is dependent on the composition and grain size.
Sympathetic nervous tone influences the development and function of natural killer cells (2020)

Abstract Signals derived from the nervous system inform immune development and function in a variety of ways. For example, sympathetic nervous system (SNS) activity has been demonstrated to influence the function of innate lymphoid cells (ILCs) in the context of inflammation. Natural killer (NK) cells, a subset of ILCs, are important players in the anti-tumor immune response that possess the capability to respond to signals from the SNS via expression of adrenergic receptors (ARs) on their surface. Given the critical functions of NK cells in tumor immunity and their capacity to respond to SNS signals, we hypothesized that SNS input plays a key regulatory role in the NK-mediated anti-tumor response. Here, we demonstrate that the SNS delivers a critical maturation signal that promotes NK cell development and influences their cytotoxic capacity. Mice that lack functional SNS signaling after peripheral administration of 6-hydroxydopamine exhibit a higher proportion of poorly cytotoxic NK2 cells (CD11b−CD27+) and a lower proportion of potently cytotoxic NK1 cells (CD11b+CD27−) compared to controls. Furthermore, analysis of single-cell RNA sequencing establishes that SNS ablation disrupts normal NK development and that immature NK cells accumulate in SNS-ablated tumor-bearing mice. Together, these data demonstrate that tonic sympathetic nervous activity plays an important role in NK development. Further characterization of this role will improve our understanding of the consequences of neuroimmune interactions in cancer and inform the development of cancer immunotherapy.
Supplementary Figure S2 from Small-Molecule ONC201/TIC10 Targets Chemotherapy-Resistant Colorectal Cancer Stem–like Cells in an Akt/Foxo3a/TRAIL–Dependent Manner (2023)

&lt;p&gt;Post-sort validation and xenograft tumor studies.&lt;/p&gt;
Cree: a Performant Tool for Safety Analysis of Administrative Temporal Role-Based Access Control (ATRBAC) Policies (2019)

Access control deals with the roles and privileges to which a user is authorized, and is an important aspect of the security of a system. As enterprise access control systems need to scale to several users, roles and privileges, it is common for access control models to support delegation: a trusted security administrator is able to give semi-trusted users the ability to change portions of the authorization state. With delegation comes the danger that semi-trusted users, perhaps in collusion, may effect a state that violates enterprise policy, which in turn results in the problem called safety analysis, which is regarded as a fundamental and technically challenging problem in access control. Safety analysis is used by a trusted security administrator to answer “what if” questions before she grants privileges to a semi-trusted user. Safety analysis has been studied for various access control schemes in the literature; we address safety analysis in the context of Administrative Temporal Role-Based Access Control (ATRBAC), an administrative model for TRBAC, which is an extension to the traditional RBAC. ATRBAC has new features, which introduce new technical challenges for safety analysis: (i) a time-dimension: two new components in each administrative rule that specify in which time periods an administrative action may be effected, and a user is authorized to a role, and, (ii) two new kinds of rules for whether a role is enabled for administrative action. We propose a software tool, which we call Cree, for safety analysis of ATRBAC policies. In Cree we reduce ATRBAC-Safety to model checking and use an off-the-shelf model checker, NuSMV. The foundation for Cree is the observation from our prior work that ATRBAC safety is PSPACE. Along with an efficient reduction to model checking, we include in Cree four techniques to further improve performance: Polynomial Time Solving when possible, Forward and Backwards Pruning, Abstraction Refinement, and Bound Estimation. These are inspired by prior work, but our algorithms are different in that they address the new challenges that ATRBAC introduces. We discuss our design of Cree, and the results of a thorough empirical assessment across our approach, and five other prior tools for ATRBAC safety. Our results suggest that there are input classes for which Cree outperforms existing tools, and for the remainder, Cree's performance is no worse. We have made Cree available as open-source for public download.
Polymer Gradient Materials (2013)

This thesis deals with the preparation and characterization of longitudinal polymer gradient materials (PGMs).The inspiration for this work comes from nature: mussel byssus threads are soft-hard gradient biomaterials.These gradient threads are formed by a polyaddition process, show unique mechanical properties and demonstrate how nature solves the engineering problem of connecting two materials of different modulus.Therefore, the adaptation to synthetic polymer gradient materials is very interesting in terms of the development of materials with unique properties.In this thesis, the prepared PGMs were systematically prepared and studied concerning the influence of the gradient structure on the tensile properties.Furthermore, the preparation of biopolymer gradient materials was envisioned for biomedical applications.PGMs were also utilized to continuously change the surface topography.In summary, this work reveals how bulk, longitudinal PGMs can be prepared, analyzed, and adapted to obtain materials with unique mechanical properties, biomedical relevance or tailored topography.Each preCol is a monomer that can be polymerized.However, every single preCol in itself already consists of a modular structure, resembling a blockcopolymer with a kinked triplehelical collagen core, variable flanking domains and terminal histidine-rich domains (Figure 3). [15,[21][22][23]
Pulmonary Surfactant Preserves Viability of Alveolar Type II Cells Exposed to Polymyxin B In Vitro (2013)

PxB alone shows negative effects on ATIIC, which are counterbalanced in mixtures with surfactant. So far, our studies found no results discouraging the concept of a combined treatment with PxB and surfactant mixtures.
Design of the Miniaturized UWB BandPass Filter Using the 1 Unit of CRLH-TL (2007)

본 논문을 통해, 메타 재질 특성을 가지는 CRLH-TL 구조를 이용하는 새로운 개념의 초광대역(UWB) 대역 통과 여파기의 설계법이 제시된다. 기존의 주기성 혹은 유한 다단 구조의 CRLH-TL가 아닌, 단일 구조만을 이용하여, 관내 파장의 0.25배 길이의 공진기를 기반으로 하는 여파기에서 가질 수 없는 초소형 구조를 형성한다. 특히 초광대역 통과 특성을 위해 필요한 강결합은 인터디즈틀 평행 결합 선로 양단의 접지된 스터브 구조를 통해 구현된다. 제안하는 설계 방안의 타당함은 전자기 모의 시험과 제작품의 측정을 통해 증명되며, 여파기의 전체크기가 '관내 파장/9.4'로의 축소, UWB 100 % 이상의 통과 대역폭, 1 dB 이하의 삽입 손실, 높은 평탄도의 군지연 등의 주파수 영역 특성 결과를 보인다. This paper presents a new design method of the Ultra-Wide-Band BandPass Filter using the CRLH-TL(Composite Right- and Left-Handed Transmission-line) having the Metamaterials' properties. Instead of the periodic type or many cells of the CRLH-TL, only the unit cell is used to miniaturize the target component, which can not be realized by the conventional quarter guided-wavelength resonator-based filters. Particularly, the strong coupling essential to the Ultra Wide Band is enabled by the interdigital coupled lines between the grounded stubs. The proposed design scheme is validated by the electromagnetic simulation and measurement of the fabricated filter which shows the total size of 'the guided-wavelength/9.4', the 100 % fractional bandwidth for the UWB, the insertion loss of less than 1 dB and the flat group-delay.
ROLLOVER CAUSED BY CONCRETE SAFETY-SHAPED BARRIER (1989)

The results of a study sponsored by the Federal Highway Administration and conducted at the Texas Transportation Institute that examined the issue of rollovers caused by concrete safety-shaped barriers are presented. The study objectives were to determine the extent and severity of overturn collisions with concrete safety-shaped barriers, identify the causes of rollover of vehicles in impacts with concrete safety-shaped barriers, and identify potential countermeasures to reduce concrete safety-shaped barrier rollovers. The study approach consisted of a critical review of the literature, clinical and statistical analysis of accident data files, and computer simulation. The extent of the rollover problem on concrete safety-shaped barriers was found to be less than reported in previous literature. A number of impact conditions were identified from accident studies and confirmed by simulation as potential contributory factors to rollovers. Three alternative barrier shapes were evaluated as potential countermeasures: F-shape, constant slope, and vertical wall. Results of the evaluation indicate that the F-shaped barrier offers little performance improvement over the existing safety shape. The vertical wall barrier offers the greatest reduction in rollover potential, but with the greatest increase in lateral accelerations. The constant sloped barrier may provide the best compromise solution.
Demonstration of Broadband Wavelength Conversion at 40 Gb/s in Silicon Waveguides (2008)

We present ultra-broadband wavelength conversion in silicon photonic waveguides at a data rate of 40 Gb/s. The dispersion-engineered device demonstrates a conversion bandwidth spanning the entire <i xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">S</i> -, <i xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">C</i> -, and <i xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">L</i> -bands of the ITU grid. Using a continuous-wave <i xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">C</i> -band pump, an input signal of wavelength 1513.7 nm is up-converted across nearly 50 nm at a data rate of 40 Gb/s, and bit-error-rate measurements are performed on the converted signal.
Abstract 2270: Hyperlipidemia promotes aggressive variant prostate cancer via RNA-binding protein Quaking (2022)

Abstract Introduction: Hyperlipidemia has been associated with increased risk of advanced stage and high Gleason grade prostate cancer (PCa), yet the underlying mechanism is not completely understood. Quaking (QKI) is an RNA-binding protein (RBP) that regulate lipid metabolism. For PCa, QKI overexpression has been associated with increased chance of metastatic recurrence. Method: We performed RNA sequencing of prostate cancer tissues of hyperlipidemia (n = 12) and normolipidemia (n=32). Tissue samples were acquired by MRI-US fusion targeted biopsy. DESeq2 and GSEA was used to identify differently expressed genes and enriched genesets. A web-based RBP motif screening tool TRANSITE was utilized to identify active RBPs in hyperlipidemia-associated PCa. Results: PCa samples of hyperlipidemia patients exhibited poorer histology than normolipidemia PCA. RNA sequencing found that hyperlipidemia-associated PCa is enriched of Myc-regulated genes as well as interferon or innate immunity-associated genes. Interestingly, hyperlipidemia-associated PCa gene expression signature identified PCa samples devoid of common PCa genetic alterations - TMPRSS2-ERG fusion and PTEN deletion/mutation. RBP motif screening found QKI as one of the top enriched RBP in hyperlipidemia-associated PCa transcriptome. In a separate a consecutive radical prostatectomy series (n=190), we found that QKI-high (immunohistochemistry staining score 2-3) tumors had significantly higher serum cholesterol than QKI-low (score 0-1) tumors. Overexpression and knockdown experiments proved that QKI is responsible of rapid cell proliferation and interferon-related inflammatory gene expressions, In silico analysis predicted QKI overexpressing cancer cells are susceptive to stain-mediated ferroptosis-like cell death. Mechanistically, QKI regulates expression of acyl-CoA synthetase long-chain family member 4 (ACSL4), which dictates the sensitivity of QKI overexpressing cells to ferroptosis. Conclusion: Hyperlipidemia was associated with aggressive pathologic characteristics of PCa without TMPRSS2-ERG fusion or PTEN deletion/mutation, and high tissue expression of QKI, an RNA-binding protein. QKI overexpression in PCa increased sensitivity to ACSL4-mediated ferroptosis by statins. This explains the epidemiological associations between hyperlipidemia and PCa, and will guide molecular subtype-driven drug repurposing studies. Citation Format: Hyun Ho Han, Jin Sol Sung, Dong Wook Song, Cheol Keun Park, Nam Hoon Cho, Young Deuk Choi, Woo Jin Ko. Hyperlipidemia promotes aggressive variant prostate cancer via RNA-binding protein Quaking [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2022; 2022 Apr 8-13. Philadelphia (PA): AACR; Cancer Res 2022;82(12_Suppl):Abstract nr 2270.
Rigid gas-permeable contact lens–assisted cataract surgery in patients with severe keratoconus (2014)

We describe rigid gas-permeable (RGP) contact lens-assisted cataract surgery in patients with severe keratoconus. During cataract surgery in cases with severe keratoconus, the intraocular images are distorted and visual perspective is lost because of irregular corneal astigmatism. Poor visibility can lead to complications, including posterior capsule rupture and corneal endothelial cell damage. To overcome these problems, an RGP contact lens was placed on the cornea in 2 cases. The image distortion decreased markedly, and the visual perspective improved. Intraocular manipulations such as irrigation/aspiration were performed safely. Improvement in transillumination led to good visualization of the anterior and posterior capsules. No intraoperative or postoperative complications developed in either case. This technique provided excellent visualization during cataract surgery in patients with severe keratoconus.
Production of Isoflavones in Seeds and Seedlings of Different Peanut Genotypes (2007)

ABSTRACT The present study compares concentrations of medicinally important isoflavones in seeds versus seedlings of 20 selected peanut genotypes derived from widely different geographic sources and compares the total isoflavone concentrations in peanut ( Arachis hypogaea L.) with those present in soybean [ Glycine max (L.) Merr.] and kudzu [ Pueraria montana (Lour.) Merr.]. Results of analyses of 20 different peanut genotypes showed that wide variation occurs in isoflavone concentrations both in peanut seeds and peanut seedlings; that peanut seedlings possess 0.8‐fold to 27‐fold higher concentrations of isoflavones than peanut seeds; that peanut seeds and seedlings possess little or no genistein; that peanut seeds contain one‐half the concentrations of isoflavones as soybean seeds, and soybean seedlings contain four times higher concentrations of isoflavones than peanut seedlings; and that kudzu seeds and seedlings, in contrast, contain significantly higher concentrations of isoflavones than either peanut or soybean seeds and seedlings. In conclusion, because peanut seedlings and sprouts are better sources of isoflavones than peanut seeds, we recommend that the former be grown as a vegetable so as to use them in our diet as a good source of isoflavones. Furthermore, the wide variation in isoflavone concentrations in different peanut genotypes, as shown in this study, could be exploited by plant breeders as an easy and reasonable production strategy.
GRAFS: Graphical Faceted Search System to Support Conceptual Understanding in Exploratory Search (2023)

When people search for information about a new topic within large document collections, they implicitly construct a mental model of the unfamiliar information space to represent what they currently know and guide their exploration into the unknown. Building this mental model can be challenging as it requires not only finding relevant documents but also synthesizing important concepts and the relationships that connect those concepts both within and across documents. This article describes a novel interactive approach designed to help users construct a mental model of an unfamiliar information space during exploratory search. We propose a new semantic search system to organize and visualize important concepts and their relations for a set of search results. A user study ( n =20) was conducted to compare the proposed approach against a baseline faceted search system on exploratory literature search tasks. Experimental results show that the proposed approach is more effective in helping users recognize relationships between key concepts, leading to a more sophisticated understanding of the search topic while maintaining similar functionality and usability as a faceted search system.
Rational proofs (2012)

We study a new type of proof system, where an unbounded prover and a polynomial time verifier interact, on inputs a string x and a function f, so that the Verifier may learn f(x). The novelty of our setting is that there no longer are "good" or "malicious" provers, but only rational ones. In essence, the Verifier has a budget c and gives the Prover a reward r ∈ [0,c] determined by the transcript of their interaction; the prover wishes to maximize his expected reward; and his reward is maximized only if he the verifier correctly learns f(x). Rational proof systems are as powerful as their classical counterparts for polynomially many rounds of interaction, but are much more powerful when we only allow a constant number of rounds. Indeed, we prove that if f ∈ #P, then f is computable by a one-round rational Merlin-Arthur game, where, on input x, Merlin's single message actually consists of sending just the value f(x). Further, we prove that CH, the counting hierarchy, coincides with the class of languages computable by a constant-round rational Merlin-Arthur game. Our results rely on a basic and crucial connection between rational proof systems and proper scoring rules, a tool developed to elicit truthful information from experts.