Miracle-dz/UniFAR-FTUs huggingface dataset:
Genetic dissection of neuropeptide cell biology at high and low activity in a defined sensory neuron

Significance Neuropeptides are ubiquitous modulators of behavior and physiology. They are packaged in specialized secretory organelles called dense core vesicles (DCVs) that are released upon neural stimulation. Whereas local recycling of synaptic vesicles has been investigated intensively, there are few studies on recycling of DCV proteins. We set up a paradigm to study DCVs in a neuron whose activity we can control. We validate our model by confirming many previous observations on DCV cell biology. We identify a set of genes involved in recycling of DCV proteins. We also find evidence that different mechanisms of DCV priming and exocytosis may operate at high and low neural activity. Neuropeptides are ubiquitous modulators of behavior and physiology. They are packaged in specialized secretory organelles called dense core vesicles (DCVs) that are released upon neural stimulation. Unlike synaptic vesicles, which can be recycled and refilled close to release sites, DCVs must be replenished by de novo synthesis in the cell body. Here, we dissect DCV cell biology in vivo in a Caenorhabditis elegans sensory neuron whose tonic activity we can control using a natural stimulus. We express fluorescently tagged neuropeptides in the neuron and define parameters that describe their subcellular distribution. We measure these parameters at high and low neural activity in 187 mutants defective in proteins implicated in membrane traffic, neuroendocrine secretion, and neuronal or synaptic activity. Using unsupervised hierarchical clustering methods, we analyze these data and identify 62 groups of genes with similar mutant phenotypes. We explore the function of a subset of these groups. We recapitulate many previous findings, validating our paradigm. We uncover a large battery of proteins involved in recycling DCV membrane proteins, something hitherto poorly explored. We show that the unfolded protein response promotes DCV production, which may contribute to intertissue communication of stress. We also find evidence that different mechanisms of priming and exocytosis may operate at high and low neural activity. Our work provides a defined framework to study DCV biology at different neural activity levels.
Local Melting of Gold Thin Films by Femtosecond Laser-Interference Processing to Generate Nanoparticles on a Source Target

Shape- and size-controlled metallic nanoparticles are very important due to their wide applicability. Such particles have been fabricated by chemosynthesis, chemical-vapor deposition, and laser processing. Pulsed-laser deposition and laser-induced dot transfer use ejections of molten layers and solid-liquid-solid processes to fabricate nanoparticles with a radius of some tens to hundreds of nm. In these processes, the nanoparticles are collected on an acceptor substrate. In the present experiment, we used laser-interference processing of gold thin films, which deposited nanoparticles directly on the source thin film with a yield ratio. A typical nanoparticle had roundness fr=0.99 and circularity fcirc=0.869, and the radius was controllable between 69 and 188 nm. The smallest radius was 82 nm on average, and the smallest standard deviation was 3 nm. The simplicity, high yield, and ideal features of the nanoparticles produced by this method will broaden the range of applications of nanoparticles in fields such as plasmonics.
Aalborg Universitet Depth Value Pre-Processing for Accurate Transfer Learning Based RGB-D Object

Object recognition is one of the important tasks in computer vision which has found enormous applications. Depth modality is proven to provide supplementary information to the common RGB modality for object recognition. In this paper, we propose methods to improve the recognition performance of an existing deep learning based RGB-D object recognition model, namely the FusionNet proposed by Eitel et al. First, we show that encoding the depth values as colorized surface normals is beneficial, when the model is initialized with weights learned from training on ImageNet data. Additionally, we show that the RGB stream of the FusionNet model can benefit from using deeper network architectures, namely the 16-layered VGGNet, in exchange for the 8-layered CaffeNet. In combination, these changes improves the recognition performance with 2.2% in comparison to the original FusionNet, when evaluating on the Washington RGB-D Object Dataset.
Scheduling and Interconnect Synthesis for FPGA-based Many-Core Systems

This work proposes an automated methodology for optimizing FPGA-based many-core interconnect architectures. Based on the application communication requirements, the methodology concurrently defines the structure of the interconnect and the communication task scheduling, taking into account possible dependencies between tasks under given area constraints. The resulting architecture improves the level of communication parallelism that can be exploited while keeping area costs low. The paper thoroughly describes the proposed approach and discusses a few case-studies showing the impact of the proposed technique.
I miti del nostro tempo

I miti sono i pensieri elementari " che ci possiedono e ci governano" inconsciamente, pensieri con i quali si vorrebbe rispondere ai quesiti che ci pone la vita. Sono pensieri indubitabili e rassicuranti che non mettiamo in discussione, perche ci fanno comodo ma che ci minano in profondita. Il pericolo da scongiurare e l'assolutizzazione delle idee. Lo smontare i miti individuali e collettivi e vitale poiche essi ci condizionano inconsciamente e determinano un malessere diffuso.
Antiproliferative effects of two gold(I)-N-heterocyclic carbene complexes in A2780 human ovarian cancer cells: a comparative proteomic study

Au(NHC) and Au(NHC)2, i.e. a monocarbene gold(I) complex and the corresponding bis(carbene) complex, are two structurally related compounds, endowed with cytotoxic properties against several cancer cell lines. Herein, we explore the molecular and cellular mechanisms at the basis of their cytotoxicity in A2780 human ovarian cancer cells. Through a comparative proteomic analysis, we demonstrated that the number of modulated proteins is far larger in Au(NHC)2-treated than in Au(NHC)-treated A2780 cells. Both gold compounds mainly affected proteins belonging to the following functional classes: protein synthesis, metabolism, cytoskeleton and stress response and chaperones. Particularly, Au(NHC)2 gave rise to an evident upregulation of several glycolytic enzymes. Moreover, only Au(NHC)2 triggered a net impairment of respiration and a metabolic shift towards glycolysis, suggesting that mitochondria are relevant cellular targets. We also found that both carbenes, similarly to the gold(I) compound auranofin, caused a strong inhibition of the seleno-enzyme thioredoxin reductase (TrxR). In conclusion, we highlighted that coordination of two carbene ligands to the same gold(I) center greatly enhances the antiproliferative effects of the resulting compound in comparison to the monocarbene derivative. Moreover, TrxR inhibition and metabolic impairment seem to play a major role in the Au(NHC)2 cytotoxicity. Overall, these antiproliferative effects were also confirmed on other two human ovarian cancer cell lines (i.e. SKOV3 and IGROV1).
Promoting MedlinePlus utilization in a federally qualified health center using a multimodal approach

Background Most patients want more health information than their clinicians provide during office visits. Written information can complement information that is provided verbally, yet most primary care practices, including federally qualified health centers, have not implemented systematic programs to ensure that patients receive understandable, relevant, and accurate health information at the point of care. MedlinePlus in particular is underutilized. Case Presentation The authors conducted a multimodal intervention to promote the use of MedlinePlus at a federally qualified health center. We provided MedlinePlus training to clinicians and patients through group and one-on-one trainings and multimedia promotion. We administered pre- and post-intervention surveys to patients, clinicians, and nurses to assess changes in the use and recognition of MedlinePlus at the point of care. We used quantitative and qualitative data to understand the impact of the intervention. A National Library of Medicine grant provided resources that supported equipment and staff. Group training improved use of MedlinePlus by clinicians and staff. One-on-one training was most effective for patients, particularly when it was integrated into the work-flow. Conclusions A multimodal approach can promote use of MedlinePlus among community health center patients. However, the process is labor- and resource-intensive and requires careful attention to work flow and leveraging of brief opportunities.
Learning while doing: program evaluation of the Medical Library Association Systematic Review Project

Objectives The Medical Library Association (MLA) Systematic Review Project aims to conduct systematic reviews to identify the state of knowledge and research gaps for fifteen top-ranked questions in the profession. In 2013, fifteen volunteer-driven teams were recruited to conduct the systematic reviews. The authors investigated the experiences of participants in this large-scale, volunteer-driven approach to answering priority research questions and fostering professional growth among health sciences librarians. Methods A program evaluation was conducted by inviting MLA Systematic Review Project team members to complete an eleven-item online survey. Multiple-choice and short-answer questions elicited experiences about outputs, successes and challenges, lessons learned, and future directions. Participants were recruited by email, and responses were collected over a two-week period beginning at the end of January 2016. Results Eighty (8 team leaders, 72 team members) of 198 potential respondents completed the survey. Eighty-four percent of respondents indicated that the MLA Systematic Review Project should be repeated in the future and were interested in participating in another systematic review. Team outputs included journal articles, conference presentations or posters, and sharing via social media. Thematic analysis of the short-answer questions yielded five broad themes: learning and experience, interpersonal (networking), teamwork, outcomes, and barriers. Discussion A large-scale, volunteer-driven approach to performing systematic reviews shows promise as a model for answering key questions in the profession and demonstrates the value of experiential learning for acquiring synthesis review skills and knowledge. Our project evaluation provides recommendations to optimize this approach.
MicroRNAs in Marchantia polymorpha.

Contents Summary 409 I. Introduction 409 II. RNA silencing machinery in Marchantia polymorpha 410 III. miRNA prediction by integrating omics approach 410 IV. miRNAs and their targets in Marchantia polymorpha 410 V. Mpo-miR390-mediated MpTAS3 tasiRNA biogenesis and potential tasiARF target MpARF2 414 VI. Artificial miRNA and CRISPR-CAS9 edited MIR gene in Marchantia polymorpha 414 VII. Conclusions 415 Acknowledgements 415 References 415 SUMMARY: The liverwort Marchantia polymorpha occupies an important phylogenetic position for comparative studies of land plant gene regulation. Multiple gene regulatory pathways mediated by small RNAs, including microRNAs (miRNAs), trans-acting short-interfering RNAs, and heterochromatic siRNAs often associated with RNA-dependent DNA methylation, have been characterized in flowering plants. Genes for essential components for all of these small RNA-mediated gene silencing pathways are found in M. polymorpha as well as the moss Phsycomitrella patens, indicating that these pathways existed in the ancestral land plant. However, only seven miRNAs are conserved across land plants, with both ancestral and novel targets identified in M. polymorpha. There is little or no evidence that any of these conserved miRNAs are present in algae. As with other plants investigated, most miRNAs in M. polypmorpha exhibit lineage-specific evolution. Application of artificial miRNA and CRISPR-Cas9 technologies in genetic studies of M. polymorpha provide avenues to further investigate miRNA biology.
Measuring the style of chick lit and literature

This paper examines to what extent the distribution of the hundred most frequent function words of two novelistic genres (chick lit and literature) gives insight into the genre styles. The results shows that the literary style is more descriptive and informational, whereas the style of the chick-lit novels tends to be more involved and to a greater extent resembles spoken language.
The human factor

Background. Surgical checklists has been shown to improve patient safety and teamwork in the operating theatre. However, despite the known benefits of the use of checklists in surgery, in some cases the practical implementation has been found to be less than universal. A questionnaire methodology was used to quantitatively evaluate the attitudes of theatre staff towards a modified version of the World Health Organisation (WHO) surgical checklist with relation to: beliefs about levels of compliance and support, impact on patient safety and teamwork, and barriers to the use of the checklist. Methods . Using the theory of planned behaviour as a framework, 14 semi-structured interviews were conducted with theatre personnel regarding their attitudes towards, and levels of compliance with, a checklist. Based upon the interviews, a 27-item questionnaire was developed and distribute to all theatre personnel in an Irish hospital. Results. Responses were obtained from 107 theatre staff (42.6% response rate). Particularly for nurses, the overall attitudes towards the effect of the checklist on safety and teamworking were positive. However, there was a lack of rigour with which the checklist was being applied. Nurses were significantly more sensitive to the barriers to the use of the checklist than anaesthetists or surgeons. Moreover, anaesthetists were not as positively disposed to the surgical checklist as surgeons and nurse. This finding was attributed to the tendency for the checklist to be completed during a period of high workload for the anaesthetists, resulting in a lack of engagement with the process. Conclusion. In order to improve the rigour with which the surgical checklist is applied, there is a need for: the involvement of all members of the theatre team in the checklist process, demonstrated support for the checklist from senior personnel, on-going education and training, and barriers to the implementation of the checklist to be addressed.
A Method to Evaluate Information Systems Control Alignment

ABSTRACT: Advocated by auditors and regulators, information systems (IS) controls can mitigate risk and improve performance. But controls can just as easily lead to problems, slowing processes with unnecessary bureaucracy or overwhelming checks and balances. Managers can avoid these problems by understanding how to design and implement IS controls that align with important factors within the settings that they operate, such as organizational structure, staff expectations, and technical innovations. We address this challenge by operationalizing a method to evaluate control alignment within IS processes. The results can aid in determining the degree of complementarity between IS controls, organizational, staff, and process characteristics.
Slots-Memento: A System Facilitating Intergenerational Story Sharing and Preservation of Family Mementos

Family mementos document events shaping family life, telling a story within and between family members. The elderly collected some mementos for children, but never recorded stories related to those objects. In this paper, in order to understand the status quo of memento storytelling and sharing of elderly people, contextual inquiry was conducted, which further helped us to identify design opportunities and requirements. Resulting design was defined after brainstorm and user consultation, which was Slots- Memento, a system consisting a slot machine-like device used by the elderly and a flash drive used by the young. The Slots machine-like device utilizes with the metaphor of slots machine, which integrates functions of memento photo displaying, story recording, and preservation. In the flash disk, the young could copy memento photos to it. The system aims to facilitate memento story sharing and preservation within family members. Preliminary evaluation and user test were conducted in evaluation section, the results showed that Slots-Memento was understood and accepted by the elderly users. Photos of mementos were easy to recall memories. It enabled the elderly people to be aware of the stories of the family mementos, as well as aroused their desire to share them with family members. Related research methodology includes contextual inquiry, brainstorming, prototyping, scenario creation, and user test.
Data-driven re-referencing of intracranial EEG based on independent component analysis (ICA)

Intracranial recordings from patients implanted with depth electrodes are a valuable source of information in cognitive neuroscience. They allow for the unique opportunity to record brain activity with a high spatial and temporal resolution. To extract the local signal of interest in stereotactic EEG (S-EEG) data, a common pre-processing choice is to re-reference the data with a bipolar montage. With bipolar reference, each channel is subtracted from its neighbour in order to reduce commonalities between channels and isolate activity that is spatially confined. We here challenge the assumption that bipolar reference can effectively perform this task. We argue that in order to extract local activity, the distribution of the signal source of interest, as well as the distribution of interfering distant signals and noise sources need to be considered. Those can have a variable spatial extent and are modulated by electrode spacing, location and anatomical characteristics. Those factors are not accounted for by a fixed referencing scheme and bipolar reference can therefore not only decrease the signal to noise ratio (SNR) of the data, but also lead to mislocalization of activity and consequently to misinterpretation of results. We promote the perspective of regarding referencing as a spatial filtering operation with fixed coefficients. As an alternative, we propose to use Independent Component Analysis (ICA), to derive filter coefficients that reflect the statistical dependencies of the data at hand. We argue that ICA performs the same task that bipolar referencing pursues, namely undoing the linear superposition of activity and can therefore be used to identify activity that is local. We first describe and demonstrate this procedure on human S-EEG recordings. In a simulation with real data, we then quantitatively show that ICA outperforms the bipolar referencing operation in sensitivity and importantly in specificity when it comes to revealing local time series from the superposition of neighbouring channels.
Complex characterization of oat (Avena sativa L.) lines obtained by wide crossing with maize (Zea mays L.)

Background The oat × maize addition (OMA) lines are used for mapping of the maize genome, the studies of centromere-specific histone (CENH3), gene expression, meiotic chromosome behavior and also for introducing maize C4 photosynthetic system to oat. The aim of our study was the identification and molecular-cytogenetic characterization of oat × maize hybrids. Methods Oat DH lines and oat × maize hybrids were obtained using the wide crossing of Avena sativa L. with Zea mays L. The plants identified as having a Grande-1 retrotransposon fragment, which produced seeds, were used for genomic in situ hybridization (GISH). Results A total of 138 oat lines obtained by crossing of 2,314 oat plants from 80 genotypes with maize cv. Waza were tested for the presence of maize chromosomes. The presence of maize chromatin was indicated in 66 lines by amplification of the PCR product (500 bp) generated using primers specific for the maize retrotransposon Grande-1. Genomic in situ hybridization (GISH) detected whole maize chromosomes in eight lines (40%). All of the analyzed plants possessed full complement of oat chromosomes. The number of maize chromosomes differed between the OMA lines. Four OMA lines possessed two maize chromosomes similar in size, three OMA—one maize chromosome, and one OMA—four maize chromosomes. In most of the lines, the detected chromosomes were labeled uniformly. The presence of six 45S rDNA loci was detected in oat chromosomes, but none of the added maize chromosomes in any of the lines carried 45S rDNA locus. Twenty of the analyzed lines did not possess whole maize chromosomes, but the introgression of maize chromatin in the oat chromosomes. Five of 66 hybrids were shorter in height, grassy type without panicles. Twenty-seven OMA lines were fertile and produced seeds ranging in number from 1–102 (in total 613). Sixty-three fertile DH lines, out of 72 which did not have an addition of maize chromosomes or chromatin, produced seeds in the range of 1–343 (in total 3,758). Obtained DH and OMA lines were fertile and produced seeds. Discussion In wide hybridization of oat with maize, the complete or incomplete chromosomes elimination of maize occur. Hybrids of oat and maize had a complete set of oat chromosomes without maize chromosomes, and a complete set of oat chromosomes with one to four retained maize chromosomes.
Applying Basic Gamification Techniques to IT Compliance Training: Evidence from the Lab and Field

ABSTRACT: Companies depend on internal control to protect the integrity of information systems. IT security and data privacy training are critical controls for safeguarding company information. Employees often dislike the training, however, which can cause a lack of attention to, and poor understanding of, training concepts leading to less effective internal control. To improve the training experience, companies are implementing principles of games in employee training modules, a practice known as gamification. Utilizing a laboratory experiment on data privacy training and a field study involving IT security training for employees of a bank, we test whether a training environment with basic gamification elements results in greater trainee satisfaction and knowledge acquisition than traditional, non-gamified training. We find basic gamification results in higher satisfaction levels in the lab and field, but only marginally significant improvements in learning. Furthermore, these learning improvements are q.
When Context Matters: An Assessment of the External Validity of Get-Out-The-Vote Experiments Using a Population Based Field Experiment Institute for Social Change Working Paper 2012 -01

Whilst field experiments enjoy the advantage over laboratory experiments that the treatments are tested in realistic settings, it is generally unclear whether the results of a particular experiment can be extrapolated from the specific location and election to a generalised situation. In this article, we use a population-based field experiment in order to test the extent to which treatment effects for impersonal mobilisation techniques (direct mail and telephone) are sensitive to where they are carried out (geography) and the context of the election in which they were conducted. We find that on the whole it does not much matter where an experiment is conducted: the treatment effects are to all intents and purposes uniform. This has hugely important implications for the external validity of GOTV field studies more generally, especially where single locations are used. However, there is one important exception this: experiments carried out in high turnout locations are likely to show larger effects than those carried out in low turnout areas.