Miracle-dz/UniFAR-FTUs huggingface dataset:
Growth Inhibition of Human Multiple Myeloma Cells by an Oncolytic Adenovirus Carrying the CD40 Ligand Transgene

Purpose: The growth-inhibitory activity of recombinant CD40 ligand (CD40L) is well documented in human multiple myeloma (MM). We examined MM-targeted delivery of CD40L by a conditional replicative oncolytic adenovirus, AdEHCD40L. Experimental Design: The growth-regulatory activity of AdEHCD40L was determined in vitro and in vivo. Differential analysis with AdEHCD40L and parental virus (AdEHNull)–infected cultures allowed the identification of cellular and molecular pathways modulated by the CD40L transgene. Results: Conditional expression of viral E1A and CD40L transgene was shown in human MM lines RPMI 8226 [interleukin (IL)-6 independent] and Kas-6/1 (IL-6 dependent) under hypoxic conditions commonly found in MM in situ. AdEHCD40L inhibited MM cell growth more effectively than AdEHNull. This enhanced growth-inhibitory activity was abrogated by cotreatment with a CD40L antibody. Chemoresistant MM lines (MR20 and LR5) were similarly susceptible to AdEHCD40L treatment. AdEHCD40L induced apoptosis and S-phase cell cycle blockade while uniquely up-regulating the previously described proapoptotic elements tumor necrosis factor–related apoptosis-inducing ligand, Fas, and IL-8. Intratumoral injections of AdEHCD40L reduced the growth of severe combined immunodeficient/hu RPMI 8226 xenografts by >50% compared with 28% reduction by AdEHNull. Adenoviral hexon and CD40L were detected in AdEHCD40L-treated tumors at day 35 after infection primarily in necrotic areas, suggesting viral replicative activity. Conclusions: These findings show that CD40L acts in concert with viral oncolysis to produce MM growth inhibition through activation of cellular apoptosis. The direct growth-inhibitory activity of AdEHCD40L, together with the well-known immune-potentiating features of CD40L, may be clinically applicable for the experimental treatment of MM or plasma cell leukemia.
The Myriapoda of Halimun-Salak National Park (Java, Indonesia): overview and faunal composition

Abstract The myriapod fauna of the mega-diverse country of Indonesia is so far insufficiently known, with no species lists or determination keys. In order to obtain an overview of the faunal composition of the Myriapoda in an Indonesian forest system, the fauna of the Halimun-Salak National Park in western Java was explored during the dry season (September–October 2015) in the framework of the German-Indonesian INDOBIOSYS project (Indonesian Biodiversity Discovery and Information System). A total of 980 Myriapoda specimens were collected by hand by 3–4 researchers from three different sites in the national park, from which 796 specimens were determined to a higher taxonomic level (class, order, family) and 617 specimens were determined to morphospecies. Among these, 27 were Symphyla (4%) (excluded from further analyses), 226 Chilopoda (28%) and 543 Diplopoda (68%). The Scolopendromorpha (64% of all identified centipedes) and Polydesmida (69% of all identified Diplopoda) were the most represented orders in our samples. Twenty-four morphospecies of Chilopoda were determined: one each of Scutigeromorpha and Lithobiomorpha, six Scolopendromorpha and sixteen Geophilomorpha. Nine orders of diplopods were present, with a total of 47 morphospecies: one each of Polyxenida, Glomeridesmida and Chordeumatida, two each of Glomerida, Spirobolida and Siphonophorida, seven of Sphaerotheriida, ten of Spirostreptida and 21 of Polydesmida. Two species curves were obtained to have a first idea about the myriapod diversity in the Halimun-Salak National Park and to compare the three individual collecting sites. Our results depict the Scolopendromorpha as the most common centipedes in Javanese rainforests and the Geophilomorpha as the most species-rich order. In contrast, the Polydesmida were the most dominant millipede group with 167 specimens and with 13 morphospecies the family Paradoxosomatidae was the most diverse.
A scale‐down mimic for mapping the process performance of centrifugation, depth and sterile filtration

In the production of biopharmaceuticals disk‐stack centrifugation is widely used as a harvest step for the removal of cells and cellular debris. Depth filters followed by sterile filters are often then employed to remove residual solids remaining in the centrate. Process development of centrifugation is usually conducted at pilot‐scale so as to mimic the commercial scale equipment but this method requires large quantities of cell culture and significant levels of effort for successful characterization. A scale‐down approach based upon the use of a shear device and a bench‐top centrifuge has been extended in this work towards a preparative methodology that successfully predicts the performance of the continuous centrifuge and polishing filters. The use of this methodology allows the effects of cell culture conditions and large‐scale centrifugal process parameters on subsequent filtration performance to be assessed at an early stage of process development where material availability is limited. Biotechnol. Bioeng. 2016;113: 1934–1941. © 2016 The Authors. Biotechnology and Bioengineering Published by Wiley Periodicals, Inc.
The sea cucumber Holothurialineata Ludwig, 1875 (Holothuroidea, Aspidochirotida, Holothuriidae) re-described from the newly found type

Abstract A re-description of the little-known holothurian species Holothuria (Lessonothuria) lineata Ludwig, 1875 is given. It is based on the single recovered type specimen and an individual recently collected on Glorioso Islands, near Madagascar. A key to separate three closely related and commonly confused species, i.e., Holothuria (Lessonothuria) pardalis Selenka, 1867, Holothuria (Lessenothuria) verrucosa Selenka, 1867 and Holothuria (Lessonothuria) insignis Ludwig, 1875, is presented.
Type studies of Rossbeeverabispora, and a new species of Rossbeevera from south China

Abstract The type of Rossbeeverabispora and additional collections from the type location and adjacent areas were studied. Molecular data for R.bispora derived from the new collections are provided. In addition, R.griseobrunnea, a new species of Rossbeevera, is described from Xiangtoushan National Nature Reserve, Guangdong Province of China. The new species is characterized by its globose to subglobose sequestrate basidiomata with grayish white to grayish brown pileus, pale bluish discoloration in some parts of the hymenophore when injured becoming rusty brown to dark brown after being exposed to the air, fusoid (star-shaped in cross section) basidiospores 17–20 × 9–12 μm, and subcutis elements in the pileus. Based on multi-locus (ITS+nrLSU+tef1-α+rpb2) molecular phylogenetic analyses, both species appear as sister to R.paracyanea. We present color photos, macro- and micro-description, SEM basidiospores, molecular affinities of the species and compare them with morphologically similar taxa within the genus. A key to the species known from northern and southern hemispheres is provided.
Are Coarse-Grained Overlays Ready for General Purpose Application Acceleration on FPGAs?

Combining processors with hardware accelerators has become a norm with systems-on-chip (SoCs) ever present in modern compute devices. Heterogeneous programmable system on chip platforms sometimes referred to as hybrid FPGAs, tightly couple general purpose processors with high performance reconfigurable fabrics, providing a more flexible alternative. We can now think of a software application with hardware accelerated portions that are reconfigured at runtime. While such ideas have been explored in the past, modern hybrid FPGAs are the first commercial platforms to enable this move to a more software oriented view, where reconfiguration enables hardware resources to be shared by multiple tasks in a bigger application. However, while the rapidly increasing logic density and more capable hard resources found in modern hybrid FPGA devices should make them widely deployable, they remain constrained within specialist application domains. This is due to both design productivity issues and a lack of suitable hardware abstraction to eliminate the need for working with platform-specific details, as server and desktop virtualization has done in a more general sense. To allow mainstream adoption of FPGA based accelerators in general purpose computing, there is a need to virtualize FPGAs and make them more accessible to application developers who are accustomed to software API abstractions and fast development cycles. In this paper, we discuss the role of overlay architectures in enabling general purpose FPGA application acceleration.
Long-term use of benzodiazepines and Z drugs: a qualitative study of patients’ and healthcare professionals’ perceptions and possible levers for change

Background Although long-term use of benzodiazepines (BZDs) and Z drugs is associated with various side effects, they remain popular among the older population. Possible reasons for this phenomenon could be ineffective ways of transmitting information on the health risks associated with long-term use, and communication gaps between patients and healthcare professionals. Aim The aim was to investigate the views of patients, physicians, nurses, and pharmacists regarding long-term BZD and Z drug use. Design & setting The qualitative study design used focus group interviews with physicians, pharmacists, and nurses in Hamburg. Patient interviews were conducted in Lippstadt, Germany. Method The interviews were audiotaped with each participant’s permission, transcribed, and thematically analysed using a software program for qualitative research (MAXQDA). Results The data from the four focus groups consisting of 28 participants were analysed. Patients indicated lack of knowledge about risks and side effects, difficult access to alternatives, and fears of ceasing drug use without professional support. Although the physicians were reported to be cautious about prescribing BZDs and Z drugs, the psychosocial problems of older patients are often considered to be complex and treatment knowledge, experience, and resources are frequently unsatisfactory. Nurses described that when BZDs were prescribed, they did not feel it was their responsibility to evaluate their effects. Pharmacists were reported to be strongly ambivalent in informing patients about the risks, which may contradict the prescription advice provided by the physician. Conclusion Patients, physicians, nurses, and pharmacists reported differences in the perception of long-term BZD and Z drug use. Nevertheless, all of the participants described lack of information and expressed the need for greater communication exchange.
Extracting the multiscale backbone of complex weighted networks

A large number of complex systems find a natural abstraction in the form of weighted networks whose nodes represent the elements of the system and the weighted edges identify the presence of an interaction and its relative strength. In recent years, the study of an increasing number of large-scale networks has highlighted the statistical heterogeneity of their interaction pattern, with degree and weight distributions that vary over many orders of magnitude. These features, along with the large number of elements and links, make the extraction of the truly relevant connections forming the network's backbone a very challenging problem. More specifically, coarse-graining approaches and filtering techniques come into conflict with the multiscale nature of large-scale systems. Here, we define a filtering method that offers a practical procedure to extract the relevant connection backbone in complex multiscale networks, preserving the edges that represent statistically significant deviations with respect to a null model for the local assignment of weights to edges. An important aspect of the method is that it does not belittle small-scale interactions and operates at all scales defined by the weight distribution. We apply our method to real-world network instances and compare the obtained results with alternative backbone extraction techniques.
Mixed signal design space exploration through analog platforms

We propose a hierarchical mixed signal design methodology based on the principles of platform-based design (PBD). The methodology is a meet-in-the-middle approach where design components are modeled bottom-up at various abstraction levels and performance constraints are mapped top-down to select among the available components the ones that best meet the constraints. The design methodology can seamlessly operate on both analog and digital designs, thus dealing with mixed signal designs in a consistent way. We demonstrate the effectiveness of the approach optimizing an 80 MS/s 14 bit pipelined analog-to-digital converter (ADC) including digital calibration, yielding 64% power reduction compared to the original hand optimized design.
Self-nanoemulsifying drug delivery systems ameliorate the oral delivery of silymarin in rats with Roux-en-Y gastric bypass surgery

Roux-en-Y gastric bypass (RYGB) is a popular surgery to reduce the body weight of obese patients. Although food intake is restricted by RYGB, drug absorption is also decreased. The purpose of this study was to develop novel self-nanoemulsifying drug delivery systems (SNEDDS) for enhancing the oral delivery of silymarin, which has poor water solubility. The SNEDDS were characterized by size, zeta potential, droplet number, and morphology. A technique of RYGB was performed in Sprague-Dawley rats. SNEDDS were administered at a silymarin dose of 600 mg/kg in normal and RYGB rats for comparison with silymarin aqueous suspension and polyethylene glycol (PEG) 400 solution. Plasma silibinin, the main active ingredient in silymarin, was chosen for estimating the pharmacokinetic parameters. SNEDDS diluted in simulated gastric fluid exhibited a droplet size of 190 nm with a spherical shape. The nanocarriers promoted silibinin availability via oral ingestion in RYGB rats by 2.5-fold and 1.5-fold compared to the suspension and PEG 400 solution, respectively. A significant double-peak concentration of silibinin was detected for RYGB rats receiving SNEDDS. Fluorescence imaging showed a deeper and broader penetration of Nile red, the fluorescence dye, into the gastrointestinal mucosa from SNEDDS than from PEG 400 solution. Histological examination showed that SNEDDS caused more minor inflammation at the gastrointestinal membrane as compared with that caused by PEG 400 solution, indicating a shielding of direct silymarin contact with the mucosa by the nanodroplets. SNEDDS generally showed low-level or negligible irritation in the gastrointestinal tract. Silymarin-loaded SNEDDS were successfully developed to improve the dissolution, permeability, and oral bioavailability of silymarin. To the best of our knowledge, this is the first investigation reporting the usefulness of SNEDDS for improving drug malabsorption elicited by gastric bypass surgery.
Project-Based Learning in Industry-University Collaboration - Three Normative Models

This paper reports three normative models for project-based learning (PjBL) in university-industry relations in computing. The models are inspired by normative theories on business ethics, and are designated as archetypes that describe the objectives and responsibilities of parties in collaboration: 1) The Slaver model prescribes that a university should sell students as slaves for business and reap the benefit, 2) The Educator model recognizes that the knowledge and skills development of students is also important, and 3) The Reformer model integrates the development of working life and project work practices into collaboration and represents a form of ethics teaching in this manner. The aim of the three models is to sensitize teaching professionals in PjBL in computing to critically reflect on their current practices. The Reformer model combines PjBL and ethics teaching, and a solution based on this model is presented.
Bayesian tracking in UWB radar sensor networks

A UWB multistatic radar system, typically composed of one transmitter and several receivers, is a promising solution for tracking an intruder moving within a given surveillance area, because of its extraordinary localization accuracy and very low probability of intercept. In this paper, a tracking algorithm based on particle filtering for UWB multistatic impulse radio radars is proposed, considering the specific multistatic radar setting, UWB signals properties, and complexity constraints. The performance of the proposed approach is evaluated through numerical results accounting for the spatial configuration of the receivers, propagation effects, the presence of residual clutter, power constraints imposed to UWB transmitted signals, and noise. Results show that the proposed tracking algorithm based on particle filters provides high estimation accuracy compared to conventional Kalman filtering, even at a low signal-to-noise ratio, with a reasonable complexity.
SIMPLEX Simulation of Personal Emotion Experience

Emotion modelling is becoming increasingly important for emotion computing, computer games, interactive storytelling or life-like wizards and assistants because it is necessary to make human-computer interaction more natural. Reeves & Nass (1996) showed that humans like to communicate with computers as they do with people. Software applications which include models of emotional processes are needed to model the social and emotional aspects of human-machine interaction. Extending classic AI and logic by adding simulated emotions can be useful to improve the user’s experience in many ways. This chapter will provide a brief overview of existing solutions and models used for artificial emotions (AE) and present a novel model of emotion simulation (SIMPLEX). Empirical data will be reported on its performance, especially the occurrence of emotions, in a game environment. This chapter concludes with a comment on the usefulness of separating AI and AE considering recent advances in cognitive neuroscience.
Correction for Gobbi et al., Antidepressant-like activity and modulation of brain monoaminergic transmission by blockade of anandamide hydrolysis

Although anecdotal reports suggest that cannabis may be used to alleviate symptoms of depression, the psychotropic effects and abuse liability of this drug prevent its therapeutic application. The active constituent of cannabis, delta9-tetrahydrocannabinol, acts by binding to brain CB1 cannabinoid receptors, but an alternative approach might be to develop agents that amplify the actions of endogenous cannabinoids by blocking their deactivation. Here, we show that URB597, a selective inhibitor of the enzyme fatty-acid amide hydrolase, which catalyzes the intracellular hydrolysis of the endocannabinoid anandamide, exerts potent antidepressant-like effects in the mouse tail-suspension test and the rat forced-swim test. Moreover, URB597 increases firing activity of serotonergic neurons in the dorsal raphe nucleus and noradrenergic neurons in the nucleus locus ceruleus. These actions are prevented by the CB1 antagonist rimonabant, are accompanied by increased brain anandamide levels, and are maintained upon repeated URB597 administration. Unlike direct CB1 agonists, URB597 does not exert rewarding effects in the conditioned place preference test or produce generalization to the discriminative effects of delta9-tetrahydrocannabinol in rats. The findings support a role for anandamide in mood regulation and point to fatty-acid amide hydrolase as a previously uncharacterized target for antidepressant drugs.
The Single-Stranded DNA-Binding Protein WHIRLY 1 Represses WRKY 53 Expression and Delays Leaf Senescence in a Developmental Stage-Dependent Manner in Arabidopsis 1 [ W ] [ OPEN ]

Leaf senescence in plants involves both positive and negative transcriptional regulation. In this work, we show evidence for the single-stranded DNA-binding protein WHIRLY1 (WHY1) that functions as an upstream suppressor of WRKY53 in a developmental stage-dependent manner during leaf senescence in Arabidopsis (Arabidopsis thaliana). The why1 mutant displayed an early-senescence phenotype. In this background, the expression levels of both WRKY53 and the senescenceassociated protease gene SAG12 increased. WHY1 bound to the sequence region that contains an elicitor response element motif-like sequence, GNNNAAATT, plus an AT-rich telomeric repeat-like sequence in the WRKY53 promoter in in vivo and in vitro mutagenesis assays as well as in a chromatin immunoprecipitation assay. This binding to the promoter of WRKY53 was regulated in a developmental stage-dependent manner, as verified by chromatin immunoprecipitation-polymerase chain reaction assay. This direct interaction was further determined by a transient expression assay in which WHY1 repressed b-GLUCURONIDASE gene expression driven by the WRKY53 promoter. Genetic analysis of double mutant transgenic plants revealed that WHY1 overexpression in the wrky53 mutant (oeWHY1wrky53) had no effect on the stay-green phenotype of the wrky53 mutant, while a WHY1 knockout mutant in the wrky53 mutant background (why1wrky53) generated subtle change in the leaf yellow/green phenotype. These results suggest that WHY1 was an upstream regulator of WRKY53 during leaf senescence.
The Multi-layered Interval Categorizer Tesselation-based Model

The paper presents the results obtained by an implementation of the interval tessellation-based model for categorization of geographic regions according to the analysis of the relief function declivity, called ICTM (Interval Categorizer Tessellation-based Model). The analysis of the relief declivity, which is embedded in the rules of the model, categorizes each tessellation cell, with respect to the whole considered region, according to the (positive, negative, null) sign of the declivity of the cell. Such information is represented in the states assumed by the cells of the model. The overall con(cid:12)guration of such cells allows the division of the region into sub-regions of cells belonging to the same category, that is, presenting the same declivity sign. In order to control the errors coming from the discretization of the region into tessellation cells, or resulting from numerical computations, interval techniques are used.
Proportional Fair Frequency-Domain Packet Scheduling for 3GPP LTE Uplink

With the power consumption issue of mobile handset taken into account, single-carrier FDMA (SC-FDMA) has been selected for 3GPP long-term evolution (LTE) uplink multiple access scheme. Like in OFDMA downlink, it enables multiple users to be served simultaneously in uplink as well. However, its single carrier property requires that all the subcarriers allocated to a single user must be contiguous in frequency within each time slot. This contiguous allocation constraint limits the scheduling flexibility, and frequency-domain packet scheduling algorithms in such system need to incorporate this constraint while trying to maximize their own scheduling objectives. In this paper we explore this fundamental problem of LTE SC-FDMA uplink scheduling by adopting the conventional time-domain proportional fair algorithm to maximize its objective (i.e. proportional fair criteria) in the frequency-domain setting. We show the NP-hardness of the frequency-domain scheduling problem under this contiguous allocation constraint and present a set of practical algorithms fine tuned to this problem. We demonstrate that competitive performance can be achieved in terms of system throughput as well as fairness perspective, which is evaluated using 3GPP LTE system model simulations.