gebhart/patrepeval huggingface dataset:
HoxC8 in cancer: Suppressor or progressor? (2005)

2854 Introduction: Homebox genes encode transcription factors that play important roles during early developmental processes. Some are expressed in adulthood and alterations have been linked to cancers. Both proto-oncogenic and tumor suppressor functions have been described for homeobox genes. Dysregulation of HoxC8 in tumors has been correlated with tumor progression in prostate cancers. However, evidence for a tumor suppressor function for HoxC8 also exists. We have investigated the functional consequences of expressing HoxC8 in cell lines and compared HoxC8 expression in patients with colorectal cancer (CRC) to clinico-pathological paramenters. Experimental design: Ecdysone-inducible HoxC8 cell lines were established and applied in diverse functional assays. Putative HoxC8 target genes were identified by cDNA microarray analysis using these cell lines. To evaluate the impact of HoxC8 dysregulation in CRC, the transcription profile of HoxC8 was determined in colorectal cancer cell lines, colorectal mucosa, adenomas, colorectal cancer specimens and hepatic metastases by RT-PCR, respectively. Results: HoxC8 induction significantly decreased cell growth, colony formation and cell migration. Additionally, apoptosis induced by doxorubicin, bleomycin and CD95 increased when HoxC8 was induced. A number of the HoxC8 target genes we identified are regulators of the cell cycle and have tumor suppressor functions. Human colorectal cancer cell lines displayed variable intensities of HoxC8 transcription. In patient samples, no HoxC8 transcription was observed in colon mucosa (0/19) and polyps (0/10), but in 22% (15/69) of colorectal cancers and in 30% (3/10) of hepatic metastases. Interestingly, HoxC8 transcription was significantly associated with smaller tumors and with the absence of lymphatic invasion. Conclusion: Our results support a potential tumor suppressor function for HoxC8. We propose that upregulation of HoxC8 and its targets in certain contexts may be a compensentory response of the cell to counter transformation processes. Thus, de novo expression of tumor suppressor gene networks regulated by Hox genes may be an important mechanism operating in cells to eliminate or hinder tumor growt
Evaluation of Bias Associated with Capture Maps Derived from Nonlinear Groundwater Flow Models (2017)

The impact of groundwater withdrawal on surface water is a concern of water users and water managers, particularly in the arid western United States. Capture maps are useful tools to spatially assess the impact of groundwater pumping on water sources (e.g., streamflow depletion) and are being used more frequently for conjunctive management of surface water and groundwater. Capture maps have been derived using linear groundwater flow models and rely on the principle of superposition to demonstrate the effects of pumping in various locations on resources of interest. However, nonlinear models are often necessary to simulate head-dependent boundary conditions and unconfined aquifers. Capture maps developed using nonlinear models with the principle of superposition may over- or underestimate capture magnitude and spatial extent. This paper presents new methods for generating capture difference maps, which assess spatial effects of model nonlinearity on capture fraction sensitivity to pumping rate, and for calculating the bias associated with capture maps. The sensitivity of capture map bias to selected parameters related to model design and conceptualization for the arid western United States is explored. This study finds that the simulation of stream continuity, pumping rates, stream incision, well proximity to capture sources, aquifer hydraulic conductivity, and groundwater evapotranspiration extinction depth substantially affect capture map bias. Capture difference maps demonstrate that regions with large capture fraction differences are indicative of greater potential capture map bias. Understanding both spatial and temporal bias in capture maps derived from nonlinear groundwater flow models improves their utility and defensibility as conjunctive-use management tools.
A Concise Synthesis of 3,5-Dicyano-6-trifluoromethylpyridine and Preparation of a Mono Thioamide (2014)

Abstract A concise 3-step synthesis of 3,5-dicyano-6-trifluoromethyl pyridine is reported from commercially available starting materials. Selective conversion of one cyano group into a thioamide offers further scope for derivatization.
Experimental study on shear behavior of PHC pipe piles (2013)

Based on the shear characteristics for supporting and seismic conditions of pipe piles.The full scale experiment of the shear performance was carried out on theΦ800C80PHC pipe pile and using the finite element software to simulate.The experimental results showed that:the shear bearing capacity of test pile was slightly higher than the standard value,pipe pile cracked along the longitudinal under the action of shear force.It has a large difference with the 45°inclined cracks of small diameter pipe piles in other literature.Finite element simulation calculation shows:the calculation shear was slightly lower than the test value and the crack characteristics consistent with the test results.The finite element software can be used to deeply research the factors influencing the shear properties of the pipe pile.
Microemulsions as drug delivery systems to improve the solubility and the bioavailability of poorly water-soluble drugs (2010)

Considering the potential in enhanced drug uptake/permeation and facing the limitations, their unique properties make microemulsions a promising vehicle for poorly water-soluble drugs.
Modelling And Simulation For Memory Replacement Policy For Multiprocessor EnvironmenT (1992)

In this paper a variation in optimal replacement technique (OPT) for multiprocessor environment will be introduced, and practical way of implementing the new memory replacement technique (K-OPT) will be discussed. Results of a simulation are presented; limitations of using number of processors, groupsize, main memory size are also presented for minimum system overhead
Electroencephalographic Recordings During Withdrawal of Life-Sustaining Therapy Until 30 Minutes After Declaration of Death (2016)

In a case series of four patients, EEG inactivity preceded electrocardiogram and ABP inactivity during the dying process in three patients. Further study of the electroencephalogram during the withdrawal of life sustaining therapies will add clarity to medical, ethical, and legal concerns for donation after circulatory determined death.
Multimodal Data Fusion for Power-On-and-Go Robotic Systems in Retail (2021)

Robotic systems for retail have gained a lot of attention due to the labor-intensive nature of such business environments. Many tasks have the potential to be automated via intelligent robotic systems that have manipulation capabilities. For example, empty shelves can be replenished, stray products can be picked up or new items can be delivered. However, many challenges make the realization of this vision a challenge. In particular, robots are still too expensive and do not work out of the box. In this paper, we discuss a work-in-progress approach for enabling power-on-and-go robots in retail environments through a combination of active, physical sensors and passive, artificial sensors. In particular, we use low-cost hardware sensors in conjunction with machine learning techniques in order to generate high-quality environmental information. More specifically, we present a setup in which a standard monocular camera and Bluetooth low-energy yield a reliable robot system that can immediately be used after placing a couple of sensors in the environment. The camera information is used to synthesize accurate 3D point clouds, whereas the BLE data is used to integrate the data into a complex map of the environment. The combination of active and passive sensing enables high-quality sensing capabilities at a fraction of the costs traditionally associated with such tasks.
Caracterização de subproduto da indústria de alumínio e seu uso na retenção de cádmio e chumbo em sistemas monoelementares (2009)

IN MONOELEMENTARY SYSTEMS. The present work aimed to characterize an aluminum industry by-product in natura (L.A. nat) and after phosphate and thermal pretreatments; evaluate the adsorption/desorption capacity of Cd and Pb by this L.A. nat form and after the aforementioned pretreatments, comparing them with an in natura iron mining by-product (L.F. nat). The L.A. nat presented a high pH as well as a high Na concentration and also an oxide-rich mineralogy. Pretreatment of the by-product had no significant effect upon Cd and Pd adsorption/desorption. The L.A. nat performed better than the L.F. nat as an Cd and Pb adsorbent.
Biphasic Peptide Amphiphile Nanomatrix Embedded with Hydroxyapatite Nanoparticles for Stimulated Osteoinductive Response (2011)

Formation of the native bone extracellular matrix (ECM) provides an attractive template for bone tissue engineering. The structural support and biological complexity of bone ECM are provided within a composite microenvironment that consists of an organic fibrous network reinforced by inorganic hydroxyapatite (HA) nanoparticles. Recreating this biphasic assembly, a bone ECM analogous scaffold comprising self-assembling peptide amphiphile (PA) nanofibers and interspersed HA nanoparticles was investigated. PAs were endowed with biomolecular ligand signaling using a synthetically inscribed peptide sequence (i.e., RGDS) and integrated with HA nanoparticles to form a biphasic nanomatrix hydrogel. It was hypothesized the biphasic hydrogel would induce osteogenic differentiation of human mesenchymal stem cells (hMSCs) and improve bone healing as mediated by RGDS ligand signaling within PA nanofibers and embedded HA mineralization source. Viscoelastic stability of the biphasic PA hydrogels was evaluated with different weight concentrations of HA for improved gelation. After demonstrating initial viability, long-term cellularity and osteoinduction of encapsulated hMSCs in different PA hydrogels were studied in vitro. Temporal progression of osteogenic maturation was assessed by gene expression of key markers. A preliminary animal study demonstrated bone healing capacity of the biphasic PA nanomatrix under physiological conditions using a critical size femoral defect rat model. The combination of RGDS ligand signaling and HA nanoparticles within the biphasic PA nanomatrix hydrogel demonstrated the most effective osteoinduction and comparative bone healing response. Therefore, the biphasic PA nanomatrix establishes a well-organized scaffold with increased similarity to natural bone ECM with the prospect for improved bone tissue regeneration.
Transcriptome analyses of early cucumber fruit growth identifies distinct gene modules associated with phases of development (2012)

The transcriptome data coupled with morphological analyses provide an informative picture of early fruit development. Progressive waves of transcript abundance were associated with cell division, development of photosynthetic capacity, cell expansion and fruit growth, phloem activity, protection of the fruit surface, and finally transition away from fruit growth toward a stage of enhanced stress responses. These results suggest that the interval between expansive growth and ripening includes further developmental differentiation with an emphasis on defense. The increased transcript levels of cucurbit-specific genes during the exponential growth stage may indicate unique factors contributing to rapid growth in cucurbits.
Super-resolution algorithm for joint range-azimuth-Doppler estimation in automotive radars (2017)

The problem of localization of targets and determining their velocities by means of radar is formulated as a joint estimation problem over single, three-dimensional domain. Joint estimation algorithms remove problems with data association and allow to exploit relations between individual estimation problems. To exploit wide bandwidth of the sensing signals, a new signal model is formulated based on time-dependant steering vectors for wideband automotive LFMCW radar applications. Joint three dimensional range-azimuth-Doppler estimation is performed using MUSIC approach based on the proposed signal model. The signal model is further improved based on investigation of inter-pulse Doppler effects on the radar array. Results of proposed model are compared to narrow-band MUSIC based joint estimation approach.
Simulation of Facial Palsy Using Cycle GAN with Skip-Layer Excitation Module and Self-Supervised Discriminator (2023)

The Yanagihara method is used to evaluate facial nerve palsy based on visual examinations by physicians. Examples of scored images are important for educational purposes and as references, however, due to patient privacy concern, actual facial images of real patients cannot be used for educational purposes. In this paper, we propose a solution to this problem by generating facial images of a virtual patient with facial nerve palsy, that can be shared and utilized by physicians. To reproduce the patient facial expression in a public face image, we propose a method to generate a swapped face image using the improved Cycle Generative Adversarial Networks (Cycle GAN) with a skiplayer excitation module and a self-supervised discriminator. Experimental results demonstrate that the proposed model can generate more coherent swapped faces that are similar to the public face identity and patient facial expressions. The proposed method also improves the quality of generated swapped face images while keeping them identical to the source (genuine) face image.
Palliative surgery for cervical spine metastasis (2014)

Palliative surgery for cervical spine metastasis is safe with good neurological results, low complication rates, and improvement in neck pain. A multidisciplinary approach involving surgeons, medical oncologists and radiotherapists is needed to optimise patient care and outcome.
Identification of Polybacterial Communities in Patients with Postoperative, Posttraumatic, and Endogenous Endophthalmitis through 16S rRNA Gene Libraries (2014)

Endophthalmitis is a potential vision-threatening complication following surgical procedures (postoperative endophthalmitis [POE]), trauma (posttraumatic endophthalmitis [PTE]), and bacteremic seeding of the eye from a distant infection site (endogenous endophthalmitis [EE]). Several studies have revealed the polybacterial characteristics of endophthalmitis, which make the administration of antibiotics to treat the disease challenging. However, until now, the polybacterial communities of POE, PTE, and EE have not been precisely studied. Hence, the present study was designed to identify the bacterial community of endophthalmitis through 16S rRNA gene libraries. Of the 40 intraocular samples tested, 30 libraries were constructed with bacterial nested-PCR-positive samples. The obtained recombinant clones were screened through amplified rRNA gene restriction analysis (ARDRA) to identify unique clones. The multiple types of ARDRA patterns (P=0.345) and diverse bacterial sequences (P=0.277) within the libraries revealed the polybacterial nature of infection in POE, PTE, and EE. Moreover, to the best of our knowledge, this is the first report on polybacterial infection in EE. Gram-positive bacteria, including Bacillus spp. (n=19), Streptococcus spp. (n=18), Staphylococcus spp. (n=6), Exiguobacterium spp. (n=3), Gemella spp. (n=2), Enterococcus spp. (n=2), a Lysinibacillus sp. (n=1), a Clostridium sp. (n=1), and a Nocardia sp. (n=1), and Gram-negative bacteria, including Serratia spp. (n=18), Pseudomonas spp. (n=10), Enterobacter spp. (n=8), Acinetobacter spp. (n=3), Pantoea spp. (n=3), a Haemophilus sp. (n=1), and a Massilia sp. (n=1), were identified. Interestingly, among them, 10 bacterial species were not previously reported to be associated with endophthalmitis or other ocular infections. Besides, the presence of 4 unidentifiable clones suggests the possibility of novel organisms that might cause eye infections. Therefore, it is recommended that, in addition to the polybacterial nature of POE, PTE, and EE infections, the spectrum of the pathogenic bacterial community identified in this work should be considered while administering antibiotic therapy in suspected endophthalmitis cases.
The electron donating capacity of biochar is dramatically underestimated (2016)

Biochars have gathered considerable interest for agronomic and engineering applications. In addition to their high sorption ability, biochars have been shown to accept or donate considerable amounts of electrons to/from their environment via abiotic or microbial processes. Here, we measured the electron accepting (EAC) and electron donating (EDC) capacities of wood-based biochars pyrolyzed at three different highest treatment temperatures (HTTs: 400, 500, 600 °C) via hydrodynamic electrochemical techniques using a rotating disc electrode. EACs and EDCs varied with HTT in accordance with a previous report with a maximal EAC at 500 °C (0.4 mmol(e(-)).gchar(-1)) and a large decrease of EDC with HTT. However, while we monitored similar EAC values than in the preceding study, we show that the EDCs have been underestimated by at least 1 order of magnitude, up to 7 mmol(e(-)).gchar(-1) for a HTT of 400 °C. We attribute this existing underestimation to unnoticed slow kinetics of electron transfer from biochars to the dissolved redox mediators used in the monitoring. The EDC of other soil organic constituents such as humic substances may also have been underestimated. These results imply that the redox properties of biochars may have a much bigger impact on soil biogeochemical processes than previously conjectured.
MACAW: A media access protocol for wireless LANs (1994)

In recent years, a wide variety of mobile computing devices has emerged, including portables, palmtops, and personal digital assistants. Providing adequate network connectivity for these devices will require a new generation of wireless LAN technology. In this paper we study media access protocols for a single channel wireless LAN being developed at Xerox Corporation&amp;apos;s Palo Alto Research Center. We start with the MACA media access protocol rst proposed by Karn [9] and later re ned by Biba [3] which uses an RTS-CTS-DATA packet exchange and binary exponential backo. Using packet-level simulations, we examine various performance and design issues in such protocols. Our analysis leads to a new protocol, MACAW, which usesanRTS-CTS-DS-DATA-ACK message exchange and includes a signi-cantly di erent backo algorithm. 1
Transgene regulation in plants by alternative splicing of a suicide exon (2012)

Compared to transcriptional activation, other mechanisms of gene regulation have not been widely exploited for the control of transgenes. One barrier to the general use and application of alternative splicing is that splicing-regulated transgenes have not been shown to be reliably and simply designed. Here, we demonstrate that a cassette bearing a suicide exon can be inserted into a variety of open reading frames (ORFs), generating transgenes whose expression is activated by exon skipping in response to a specific protein inducer. The surprisingly minimal sequence requirements for the maintenance of splicing fidelity and regulation indicate that this splicing cassette can be used to regulate any ORF containing one of the amino acids Glu, Gln or Lys. Furthermore, a single copy of the splicing cassette was optimized by rational design to confer robust gene activation with no background expression in plants. Thus, conditional splicing has the potential to be generally useful for transgene regulation.
Analysis of Mouse Periodic Gene Expression Data Based on Singular Value Decomposition and Autoregressive Modeling (2010)

Abstract—Each D�A microarray experiment generates a large amount of gene expression profiles and it remains a challenge for biologists to robustly identify periodic gene expression profiles with certain noise level in the data. In this paper, we propose a new scheme with noise filtering technique to analyze the periodicity of gene expression base on singular value decomposition (SVD), singular spectrum analysis (SSA) and autoregressive (AR) model-based spectrum estimation. With the combination of these methods, noise can be filtered out and over 85 % of periodic gene expression can be identified in mouse presomitic mesoderm transcriptome data set. Index Terms—Autoregressive (AR) model, D�A microarray gene expression data, singular value decomposition (SVD), singular spectrum analysis (SSA), time series analysis. I.
SUBJECTIVE AND MECHANICAL ESTIMATIONS OF PAVEMENT SERVICEABILITY FOR RURAL-URBAN ROAD NETWORKS (1979)

To manage paved road networks efficiently, highway agencies require comprehensive, periodic inventory or pavement evaluation data. These data should be reliable, quickly and easily acquired, and manageable. The results of a study that involved subjective and mechanical measurements of both the roughness and structural adequacy of a combined rural-urban road network are presented. A new high-speed, computerized unit was used to make the mechanical measurements of roughness, and panel ratings were used for the subjective measurements. Structural adequacy was both rated by a panel and mechanically measured with a Dynaflect. Very good correlations were obtained between panel ratings and measured roughness for both urban and rural sections. The relations obtained and the resource and time requirements involved demonstrate that, by using such methods, highway agencies can quickly and efficiently inventory the serviceability of paved road networks. Ratings of structural adequacy did not correlate with measured deflection. The results suggest that, whereas surface distress or condition can be measured by panel ratings, structural adequacy can only be measured by mechanical means. (Author)
Status of Proton Beam Commissioning of the MedAustron Particle Therapy Accelerator (2016)

MedAustron is a synchrotron-based ion beam therapy centre, designed to deliver clinical beams of protons (60-250 MeV) and carbon ions (120-400 MeV/u) to three clinical irradiation rooms (IR) and one research room, which can also host 800 MeV protons. The commission-ing activities for the first treatments with proton beams in IR3 have been completed and commissioning of IR1-2 is ongoing. The present paper describes the activities which took place during the last year, which involved all accel-erator components from the ion source to the IR.
Properties of silicon oxide films grown in a microwave oxygen plasma (1986)

Anodic oxidation of silicon in an oxygen plasma is a low temperature alternative to thermal oxidation. This report describes low-temperature oxide layers on silicon with MOS properties similar to those obtained by conventional high temperature oxidation. Oxides are grown in a 2.45 GHz microwave plasma disk reactor.
An s-domain model of an HVDC converter (1997)

This paper describes a technique to model an HVDC power converter installation in the s-domain. A system equivalent is developed, utilising a frequency-domain model, allowing the closed loop frequency response to be expressed. A rational function approximation of the closed loop frequency response is found by writing an overdetermined equation set, solved directly using singular value decomposition. System poles and zeros in the s-domain are extracted through the solution of the rational function roots. Validation of the model at two power converter operating points is obtained via time-domain simulation and step response techniques for an inverter voltage perturbation.