gebhart/patrepeval huggingface dataset:
Abstract 3331: RP6530, a dual PI3K δ/γ inhibitor attenuates cancer stem cell proliferation in serous adenocarcinoma of ovary (2016)

Abstract The overall survival of patients with advanced serous adenocarcinoma of the ovary (EOC) has not significantly improved for the past 3 decades despite advances in treatment. In part, this is due to resistance of malignant cells and it is currently hypothesized that this could be due to persistence of cancer stem cells (CSC). Elimination of these cells may improve the survival of patients. RP6530 is a novel, potent, and selective PI3K δ/γ inhibitor that demonstrated high potency against PI3Kδ (IC50 = 25 nM) and γ (IC50 = 33 nM) enzymes with selectivity over α (&amp;gt;300-fold) and β (&amp;gt;100-fold) isoforms. A Phase-1 dose-escalation study to evaluate the safety and efficacy of RP6530 in patients with hematological malignancies in currently underway at several sites in Europe. The objective of this study was to test the efficacy of RP6530 against the CSC of EOC. A spheroid assay enriched for CSC was employed for this study. Initially, we have analyzed 3 cell lines (PEO4, OVCAR-5 and CAOV-2) with and without addition of 5 μM RP6530. In addition, MTT assay for cell viability was performed for the molecule to evaluate for non-selective cytotoxicity. To confirm that the target was CSC, we performed analysis of Side population (SP) based on H33342 dye exclusion. In the screening assay (triplicate and repeated thrice), RP6530 significantly inhibited spheroid formation in PEO4 and OVCAR-5 (p&amp;lt;0.05) and CAOV-2 (p&amp;lt;0.0005). In the cell viability assay, RP6530 had no cytotoxic effect in any of the cell lines. To evaluate the effect of the compound on CSC, we performed analysis of SP cells with Hoechst 33342 at 355 nm by flow cytometry. RP6530 either caused a reduction in the fraction of SP cells (PEO4 and CAOV-2) or was neutral (OVCAR-5) indicating that the compound preferentially targets CSC in ovarian cancer cell lines. Further in vitro and in vivo experiments are ongoing to conclusively prove this effect. Citation Format: Sneha S, Nivetha R, Srikant Viswanadha, Swaroop Vakkalanka, Ganesan TS. RP6530, a dual PI3K δ/γ inhibitor attenuates cancer stem cell proliferation in serous adenocarcinoma of ovary. [abstract]. In: Proceedings of the 107th Annual Meeting of the American Association for Cancer Research; 2016 Apr 16-20; New Orleans, LA. Philadelphia (PA): AACR; Cancer Res 2016;76(14 Suppl):Abstract nr 3331.
Modeling the Effects of Contact Sensor Resolution on Grasp Success (2018)

This letter presents a quantitative method for analyzing the effect of sensor resolution on grasp stability prediction. Resolution limits for contact sensors are expressed as a range of contact locations and contact surface normals that cannot be disambiguated by the sensor. Grasp quality is assessed at the limits of this range to determine whether the uncertainties caused by sensor resolution lead to uncertainty in grasp outcome prediction. The analysis also enables calculation of the specific contact locations on an object where the tactile sensors are trustworthy and where the object is reliably graspable. Our approach lays the foundation for quantitative evaluation in design tradeoffs in sensor choices and sensor layout, as well as finger shapes and materials.
Tight Integration of Digital Map and Tethered Positioning and Navigation Solution for IoT applications and Land Vehicles (2020)

Integrated Dead Reckoning (DR) System and Global Navigation Satellite System (GNSS) has been widely used as the backbone of any navigation system for the Internet of Things (IoT) and vehicle navigation applications. The dollar level microelectrotechnical system (MEMS) Inertial Measurement Units (IMUs) aided by vehicle wheel odometer has been recently used as a low-cost DR system to bridge GNSS gaps in harsh environments, such as urban canyons, tunnels, and under bridges. However, the DR drift errors increase with time rapidly and cannot satisfy most of IoT and land vehicle navigation requirements. The GNSS may not provide accurate position or even go to complete outage for more than 15 mins in downtown cores or long tunnels; therefore, the Tethered positioning error can reach several hundred meters. While the land vehicles are supposed to travel on the roads, the feedback from a digital map can be used to constrain its position. This paper proposes a new method for tight integration of digital map and DR system (IMU/wheel odometer) to provide reliable navigation solutions in challenging GNSS environments for extended periods. A fuzzy logic map matching algorithm is utilized to identify the correct road link on which the vehicle moves. A feedback filter is designed to send a correct map matched position as well as the road link as measurement updates to the Kalman Filter (KF) of the Tethered positioning system. The proposed tight integration of digital map and DR system is evaluated using the datasets collected by Profound Positioning Inc. (PPI) in Calgary, AB, Canada. The results show the proposed method has an average of 0.15% of relative horizontal position error for Calgary datasets, which shows considerable improvement over the Tethered solution only with 3.3% of relative horizontal position error. The average azimuth error of the proposed system is 1.3 degrees, while the Tethered positioning system, which does not enjoy from road link azimuth feedback, shows an average azimuth error of 9.7 degrees.
Comparison of Phenotypic Expression with Genotypic Transformation by Using Cloned, Selectable Markers (1982)

The frequency of phenotypic expression of the herpes simplex virus type 1 tk and Escherichia coli gpt genes was compared with the frequency of genotypic transformation after calcium phosphate-mediated DNA transfection of a number of tk- and hprt- cell lines. In three of the five lines tested, the frequency of phenotypic expression was at most 10-fold higher than that of genotypic transformation as indicated by frequency of HAT resistance. The remaining two lines showed phenotypic responses which were 50- to 100-fold greater than the genotypic responses. The data indicate that the efficiency of DNA-mediated transformation with some cell lines can be limited by events after the uptake and expression of transfected DNA.
Clinical Results of Percutaneous Pelvic Surgery. Computer Assisted Surgery Using Ultrasound Compared to Standard Fluoroscopy (2001)

This study presents early results of clinical experience with the application of Computer Assisted Surgery (CAS) to percutaneous iliosacral screwing, with comparison to a historical series of patients treated using percutaneous fluoroscopy.Four patients were instrumented using a CAS system, with 10 screws being inserted.Thirty patients were treated by percutaneous fluoroscopic screwing, with 5 1 screws being inserted.The follow-up assessment included the following criteria; operative time, parameters of radiation exposure, neurological examination, screw placement evaluation on CT-scan, antalgic drug consumption, pain, Majeed grading, and loosening of implants.In the CAS group, the average radiation time was 0.35 min per patient and 0.14 min per screw.No trajectories outside the bone and no postoperative neurological deficits were found.In the fluoroscopic group, the average radiation time was 1.03 min per patient and 0.6 min per screw.Twelve screws had outside-bone trajectories, and iatrogenic neurological deficits were found in seven patients.The average operative time was 50 min in the CAS group and 35 min in the fluoroscopic group.The present CAS technique shows better placement of iliosacral screws, with no outside-bone trajectories and lower radiation exposure.
Large-area 2D selective area growth for photonic crystal surface emitting lasers (2022)

We report an investigation into large-area selective area growth of InGaAs/GaAs quantum wells by metalorganic vapour phase epitaxy. The emission wavelength tuning range, growth enhancement, and uniformity of material deposited within square masked regions with central square growth windows with widths in the range of 100–300 μm are studied. Micro-photoluminescence measurements at the centre point of each of the growth windows reveals a total wavelength tuning range of 86 nm across all samples, with a typical tuning range of 30 nm for a given window width, dependent upon dielectric mask width. The thickness enhancement in each of features, as determined by white-light interferometric profiling, indicates that centre point growth rate enhancements of between 1.19 and 2.23× are achieved with respect to the nominal epitaxial structure. By comparing the observed emission wavelengths with those simulated using the enhanced quantum well thicknesses, a range of indium concentrations between 12 and 17 % is calculated for the material at the centre of each feature. Two-dimensional analysis of selected features reveals that areas with uniform emission wavelength up to 100 × 100 μm2 in size can be achieved for the mask patterns used, indicating suitability for future applications in the fabrication of monolithically integrated multi-wavelength photonic crystal surface emitting laser arrays.
Collection of pluripotential hematopoietic stem cells by cytapheresis (1982)

Successful complete hematopoietic reconstitution (CHR) using nonleukemic peripheral stem cells (PSC) after marrow ablation has been reported in animals but not man. Previous studies of cytapheresis products from humans, as a prelude to use for CHR, have documented the presence of committed myeloid (CFU-GM) and erythroid (BFU-E) precursors. We have examined mononuclear cell (MNC) products collected on the Fenwal CS3000 Blood Cell Separator for these plus the more primitive mixed (granulo-, erythro-, mono-, and megakaryocytic) cell colony-forming units (CFU-GEMM) and for various lymphocytic subpopulations (LSP). One to two-hour products contained 36 +/- 7 CFU- GEMM/10(6) MNC (mean +/- SE, n = 8) or 490 +/- 131/ml product. This compared favorably with blood (23 +/- .4/10(6) MNC or 46 +/- 8/ml, n = 14) and bone marrow (146 +/- 58/10(6) MNC, n = 12). Collection efficiency for E-rosette-positive cells approximated that for total lymphocytes and was variable for other LSP. Recovery of CFU-GEMM after freezing in 10% dimethylsulfoxide at a controlled rate and storage in liquid N2 was 54% +/- 8% (n = 8). Cytapheresis collection of large numbers of pluripotent hematopoietic precursors and demonstration of adequate recovery of these after cryopreservation, both previously unreported, are significant steps toward eventual CHR using nonleukemic PSC.
Supplementary Figures 1-4 from <i>Pten</i> Inactivation Accelerates Oncogenic <i>K-ras</i>–Initiated Tumorigenesis in a Mouse Model of Lung Cancer (2023)

Supplementary Figures 1-4 from &lt;i&gt;Pten&lt;/i&gt; Inactivation Accelerates Oncogenic &lt;i&gt;K-ras&lt;/i&gt;–Initiated Tumorigenesis in a Mouse Model of Lung Cancer
Hard Instances for Verification Problems in Access Control (2015)

We address the generation and analysis of hard instances for verification problems in access control that are NP-hard. Given the customary assumption that P ≠ NP, we know that such classes exist. We focus on a particular problem, the user-authorization query problem (UAQ) in Role-Based Access Control (RBAC). We show how to systematically generate hard instances for it. We then analyze what we call the structure of those hard instances. Our work brings the important aspect of systematic investigation of hard input classes to access control research.
Gefitinib–cyclodextrin inclusion complexes: physico-chemical characterization and dissolution studies (2009)

Gefitinib formed stable inclusion complexes with HPbetaCD and RMbetaCD, and the solubility and dissolution rate of the drug was significantly increased.
Atomic layer deposition of tantalum oxide and tantalum silicate from TaCl5, SiCl4, and O3: growth behaviour and film characteristics (2013)

Tantalum oxide (Ta2O5) and tantalum silicate (TaSiOx) films were grown by atomic layer deposition from TaCl5, SiCl4, and O3. Saturation of absorption was observed for TaCl5 at short TaCl5 pulses. However, long TaCl5 exposure resulted in a reduced growth per cycle of Ta2O5 and TaSiOx films due to concomitant etching. The saturated growth per cycle of Ta2O5 was ∼0.77 Å per cycle at a deposition temperature of 300 °C and ∼1 Å per cycle at 250 °C. Quadrupole mass spectrometry revealed that TaCl5 chemisorbed on the surface with negligible ligand removal. Subsequently, the reaction with O3 led to the formation of both chlorine oxides (ClxOy) and chlorine (Clx) as by-products. Si incorporation was found to be feasible using supercycles including SiCl4/O3 cycles although no SiO2 deposition was observed for SiCl4/O3 cycles only. At a deposition temperature of 300 °C, self-limiting growth was observed as a function of SiCl4 and O3 pulse time. This suggests that the adsorption of SiCl4 on Ta-terminated surfaces is more favorable than on Si-terminated ones, similar to the case of the equivalent H2O-based ALD process. The Cl impurity levels in Ta2O5 films from TaCl5 and O3 were found to be lower than those in films from TaCl5 and H2O. The Ta2O5 and TaSiOx films were amorphous as deposited. Ta2O5 crystallized into orthorhombic β-Ta2O5 at a temperature of 740 °C while TaSiOx showed no signs of crystallization up to 900 °C. Amorphous Ta2O5 and Ta0.6Si0.4Ox films showed dielectric constants of 31 and 24, respectively, and exhibited lower leakage current densities than those deposited from TaCl5, SiCl4, and H2O.
B213 Effect of inner diameter of tubes on a steam engine with oscillation flow (2013)

In the present study, effects of inner diameter on generated work and efficiency of single tube oscillating steam engine are experimentally investigated. Larger work can be obtained at higher frequencies for smaller inner diameter tubes. In addition, maximum efficiency is achieved at higher frequencies for smaller diameter tubes. However, larger diameter tubes give higher maximum efficiency than smaller diameter tubes. In a smaller tube, most heats are not effectively used to generate work but transfer to the cooling section because of its high heat-transfer performance. High heat transfer can decrease efficiency of the engine with small size tubes at lower frequencies.
A Joint Traffic Shaping and Routing Approach to Improve the Performance of 802.11 Mesh Networks (2006)

Wireless Local Area Networks (WLANs) based on IEEE 802.11 standards are becoming widespread and are now being considered as potential solutions for providing "last-mile" wireless IP-based services. One of the challenges to this end however comes from the grave inefficiencies in the CSMA-based 802.11 medium access control (MAC) when used with application payloads that are relatively small. This is the case seen in the important application of Voice over IP (VoIP). The inefficiencies becomes even more severe in multi-hop wireless mesh systems that use 802.11 radio interfaces. In this paper we present novel strategies that are in conformance with the 802.11 mechanism while at the same time providing significant performance improvements for such applications. Our main approach will be one of jointly combining routing and traffic shaping decisions together to improve the efficiency of DCF functions. Specifically we try to change the traffic characteristics at different hops in the network by combining multiple flows to produce new traffic and flow statistics. Correct routing enables one to do such changes and, therefore, by performing routing and traffic shaping decisions jointly we can improve the efficiency of 802.11 mesh networks. To demonstrate the effectiveness of the proposed scheme, we focus on the two-hop mesh architectures and consider the VoIP traffic as the application of interest. We specifically investigate the achievable throughput region with and without the traffic shaping mechanisms. Our experiments show that more than a 3-fold call-capacity improvements can be gained over the conventional transport methods.
Wide range UV irradiation system for imaging reflection spectroscopy (2018)

Reflection spectroscopy is a promising measuring principle to get measurement data of surface signatures from objects and materials. A large field of applications, in inline or outline testing tasks, can be handled with it. The investigation deals with investigations regarding development of a broadband UV radiation source and the integration in a hyperspectral push broom imaging system using standard spectral radiation sources. Comprehensive market research has shown that there is no disposability of a UV radiation source, which emits a nearly continuous radiation in the spectral range of 220 up to 400 nanometers. Therefore, a second idea is to combine various gas discharging lamps to receive a nearly continuous spectrum in that area of the UV radiation. A very important and interesting circumstance of using standard spectral lamps as a radiation source for push-broom-imaging is the fact, that the active zone of the plasma discharge has a line-like contour, which can assumed as an axially expanding point light source. Therefore, it is only necessary to project this for getting the needed radiation field in the framework of reflection spectroscopy. The aim is to determine which different gases of a standard range of spectral light sources are suitable. Another approach is the investigation of the effect that modifiable parameters – such as pressure or a time modulated energy source - might have to the spectral behavior of the differing radiation sources and the reflected light from the test object as well. Physical models of high intensity discharging light sources are well proved, but the concept of light addition, to get a special required spectral distribution, may cause some specific problems that must be solved. It is also a goal to evaluate, in which conditions classic models work and how far the can be used.
Parenchymal field effect analysis for breast cancer risk assessment: evaluation of FFDM radiomic similarity (2021)

Histologically normal areas of the breast parenchyma have been shown to share molecular similarity with breast tumors, suggesting the presence of a field effect in breast cancer. To further understand a potential cancer field effect, we compared mammographic parenchymal texture features across four regions of the breast. The study included 103 FFDMs with at least one identified malignant tumor. All FFDM images (12-bit quantization and 70 micron pixels) were acquired with a Hologic Lorad Selenia system and retrospectively collected under an IRB-approved protocol. Regions of interest (ROI) of 128x128 and 256x256 pixels were selected from four regions across the craniocaudal projection: within the identified tumor, adjacent to the tumor, distant from the tumor, and behind the nipple in the contralateral breast. Radiographic texture analysis was used to extract 45 features in each region. Kolmogorov-Smirnov (KS) and Pearson correlation tests assessed similarity between features in each region. KS test results, with a 95% confidence interval on the KS test statistic bootstrapped with 2000 iterations indicated that 81.8% (128x128) and 88.4% (256x256) of feature distributions across all ROI regions showed equivalence with a threshold equal to the critical value at the p = 0.05 level. Pearson correlation results demonstrated a majority of structure-based feature comparisons which reached statistical significance, and less intensity-based feature comparisons which reached statistical significance. These results support our hypothesis of a potential cancer field effect across tumor and non-tumor regions and support the development of computerized analysis of mammographic parenchymal patterns to assess breast cancer risk.
Abstract 4424: Micro-RNA mediated deregulation of hHB-EGF in ovarian cancer (2018)

Abstract Background: Aberrant expression of microRNAs (miRNAs) has been implicated in human carcinogenesis where they function as oncogenes or tumor suppressor genes. Overexpression of HB-EGF, member of the epidermal growth factor (EGF) family, plays pivotal role in ovarian carcinogenesis. However the molecular mechanisms underlying miRNA(s) mediated aberrant function of HB-EGF in ovarian carcinoma remain unresolved. Here, we investigated the miRNA(s) mediated deregulation of HB-EGF in human ovarian carcinogenesis. Methods: Web-based bioinformatics algorithms were used to identify candidate miRNAs with putative binding sites on target hHB-EGF mRNA. Expression of miRNAs and mRNA were checked by real-time PCR whereas protein expression was investigated by western blotting assay. Luciferase reporter assay was carried out to examine miR-27a target on 3´UTR of hHB-EGF mRNA. Changes in the oncogenic effects of HB-EGF were studied after gain/loss -of-function of the miR-27a using soft agar colony formation assay and 3D collagen culture. In vivo tumor growth potential of miR-27a was measured in BALB/c nude mice. Results: By using web-based bioinformatics algorithms 11 miRNAs ((miR-27a/b, -29a/b/c, -96, -128, -132, -182,-194, -212) having putative binding sites on the 3′UTR of hHB-EGF mRNA have been selected for further analysis. Among the putative candidates miR-27a showed maximum reciprocal expression with hHB-EGF and thus we selected miR-27a as promising candidate for hHB-EGF regulation. Overexpression of miR-27a significantly inhibited the hHB-EGF expression in SKOV3 cells by almost 50% and miR-27a inhibitors (anti-miR-27a) upregulated the expression of endogenous hHB-EGF mRNA whereas miR-27a overexpression decreased hHB-EGF protein level in MCAS cells suggesting that miR-27a modulate endogenous hHB-EGF expression both at mRNA and protein level. Luciferase reporter assay revealed that miR-27a directly targets 3´UTR of hHB-EGF mRNA at the predicted site. Ectopic expression of miR-27a suppresses in-vitro growth of SKOV3 ovarian cancer cells. In addition, in-vivo tumorigenecity of SKOV3 cells was also inhibited by miR-27a treatment. Conclusion: The current study has identified novel miR-27a that negatively regulates hHB-EGF expression by directly targeting 3`UTR of its mRNA. This miR-27a might act as oncosupressor in human epithelial ovarian cancer. Citation Format: Md. Mustafizur Rahman, Razia Sultana, Ryo Iwamoto, Eisuke Mekada. Micro-RNA mediated deregulation of hHB-EGF in ovarian cancer [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2018; 2018 Apr 14-18; Chicago, IL. Philadelphia (PA): AACR; Cancer Res 2018;78(13 Suppl):Abstract nr 4424.
The development of an obstetric tele-monitoring system (2015)

Fetal growth restriction and preterm uterine contractions can turn a normal pregnancy into a problematic one. In previous work, we have developed a system for electrophysiological measurement of fetal heart rate (fHR), fetal electrocardiogram (fECG) and (premature) uterine contractions to enable early detection of foetal problems. In this work we have expanded this system into a tele-monitoring system for measurement at home. In order to permit home monitoring, the communication chain of the data has to be designed such that home-measured signals (fHR, fECG, uterine activities) are available in the hospital in real-time. Furthermore, the data must be transferred wirelessly to any location (worldwide) for interpretation by gynaecologists. A web application helps the gynaecologist or midwife to access the signals everywhere, provided that internet access is available. We developed a webserver as the heart of the entire system; it manages the patient database, transforms the signals in a graphical representation similar to that of the cardiotocography and manages the data communication with the proper data security policy. This tele-monitoring system can be used also during home deliveries enabling prompt transfer and proper intervention in the hospital when complications occur.