julilili42/papers huggingface dataset:
Spatial neglect therapy with the augmented reality app 'Negami' for active exploration training; A randomized controlled trial
2023-03-29

Background: A widely applied and effective rehabilitation method in stroke patients suffering from spatial neglect is the 'visual exploration training'. Patients improve their ipsilesional bias of attention and orientation by training of exploration movements and search strategies towards the contralesional side of space. Here we investigate the effectiveness of the augmented reality (AR)-based app 'Negami' for the treatment of spatial neglect in a randomized control trial. Negami combines a visual exploration training with active, contralesionally oriented rotation of eyes, head, and trunk. Methods: Twenty patients with spatial neglect were randomly assigned to the experimental Negami group or to a group receiving standard neglect therapy. Over a period of two weeks, both groups received five training sessions per week. Each session lasted about 25 minutes. Neglect behavior was assessed weekly over a five-week period, with the Negami therapy group receiving a second follow-up assessment at one-to-two-month intervals after completion of training. Results: Both groups improved significantly. While the Negami therapy group improved in four of five neglect tests used, the standard therapy group improved in only one of these tests. We observed significantly better improvement in the Negami group already after the first week of training. This difference was also significant after the end of the training as well as one week after the end of training and remained stable one to two months after the end of treatment. Conclusion: Negami can be used as an effective alternative or addition to current standard neglect therapy, and may even be superior to it.
Science verification of the new FlashCam-based camera in the 28m telescope of H.E.S.S.
2023-03-29

In October 2019 the central 28m telescope of the H.E.S.S. experiment has been upgraded with a new camera. The camera is based on the FlashCam design which has been developed in view of a possible future implementation in the medium-sized telescopes of the Cherenkov Telescope Array (CTA). We report here on the results of the science verification program that has been performed after commissioning of the new camera, to show that the camera and software pipelines are working up to expectations.
Spatial Imaginations of “Turkey” and “Europe”: An Introduction
2023-03-29

This paper develops the concept of spatial imaginations as the constructions of places as meaningful entities that establish identities of self and other through particular narratives and associated practices. It argues that traditionally, International Relations has ignored question of space despite their obvious centrality to the discipline. This has changed with the “spatial turn”, which has its precursors in critical scholarship, especially drawing on sociology and political geography. The paper traces these contributions to the conceptual development of space in its material and discursive dimensions. It proposes that spatial imaginations are central to relations between “Turkey” and “Europe”, establishing both as meaningful yet contested entities. In the works collated in the special issue of which this paper serves as an introduction, we may thus see facets of three core claim of the spatial turn: that space matters,that space needs to be made, and that spaces need to be formed. Against the prevailing attempts to fix the meaning of the spaces of “Turkey” and “Europe”, I end with a plea to provide room for the articulation of a multiplicity of spatial imaginations.
Accurate long-read sequencing identified GBA variants as a major genetic risk factor in the Luxembourg Parkinson’s study
2023-03-29

Abstract Heterozygous variants in the glucocerebrosidase GBA gene are an increasingly recognized risk factor for Parkinson’s disease (PD). Due to the pseudogene GBAP1 that shares 96% sequence homology with the GBA coding region, accurate variant calling by array-based or short-read sequencing methods remains a major challenge in understanding the genetic landscape of GBA -related PD. We established a novel long-read sequencing technology for assessing the full length of the GBA gene. We used subsequent regression models for genotype-phenotype analyses. We sequenced 752 patients with parkinsonism and 806 healthy controls of the Luxembourg Parkinson’s study. All GBA variants identified showed a 100% true positive rate by Sanger validation. We found 12% of unrelated PD patients carrying GBA variants. Three novel variants of unknown significance (VUS) were identified. Using a structure-based approach, we defined a potential risk prediction method for VUS. This study describes the full landscape of GBA -related parkinsonism in Luxembourg, showing a high prevalence of GBA variants as the major genetic risk for PD. Our approach provides an important advancement for highly accurate GBA variant calling, which is essential for providing access to emerging causative therapies for GBA carriers.
Pediatric Patients with Stage IV Rhabdomyosarcoma Significantly Benefit from Long-Term Maintenance Therapy: Results of the CWS-IV 2002 and the CWS DOK IV 2004-Trials
2023-03-30

Rhabdomyosarcoma (RMS) is the most common soft tissue sarcoma (STS) in childhood. Whereas more than 90% of patients with localized low-risk RMS can be cured, metastatic RMS have a dismal outcome, with survival rates of less than 30%. The HD CWS-96 trial showed an improved outcome for patients receiving maintenance therapy after completing intensive chemotherapy. Consequently, the international clinical trials CWS-IV 2002 and CWS DOK IV 2004 on metastatic disease of STS of the Cooperative Weichteilsarkom Studiengruppe (CWS) were designed in addition to the CWS-2002P trial for localized RMS disease. All patients received a multimodal intensive treatment regimen. To maintain remission, three options were compared: long-term maintenance therapy (LTMT) versus allogeneic hematopoietic stem cell transplantation (alloHSCT) versus high-dose chemotherapy (HDCT). A total of 176 pediatric patients with a histologically confirmed diagnosis of metastatic RMS or RMS-like tumor were included. A total of 89 patients receiving LTML showed a significantly better outcome, with an event-free survival (EFS) of 41% and an overall survival (OS) of 53%, than alloHSCT (n = 21, EFS 19%, p = 0.02, OS 24%, p = 0.002). The outcome of LTML was slightly improved compared to HDCT (n = 13, EFS 35%, OS 34%). In conclusion, our data suggest that in patients suffering from metastatic RMS, long-term maintenance therapy is a superior strategy in terms of EFS and OS compared to alloHSCT. EFS and OS of HDCT are similar in these strategies; however, the therapeutic burden of LTMT is much lower.
The impact of life satisfaction in the treatment of gaming disorder and other internet use disorders: Results from a randomized controlled trial
2023-03-30

Abstract Objective According to ICD-11 gaming disorder is currently defined as a behavioral addiction. While our understanding of crucial aspects of this new condition including other subtypes of internet use disorders is growing, less is known about treatment strategies and their effectiveness. Particularly, dimensions of life satisfaction and their meaning for internet use disorders are poorly investigated. The aim of this study was addressing the role of life satisfaction dimensions in a randomized controlled trial. We examined life satisfaction as an additional treatment outcome and investigated in how far life satisfaction is predictive for symptom reduction and related to personality traits. Methods A multicenter randomized controlled trial with three measure points (baseline, post-treatment, 6-month follow-up) was conducted based on N = 143 patients aged 17 and above meeting diagnostic criteria for internet use disorders. A cognitive-behavioral disorder specific intervention was applied in n = 72 and compared to a wait list control ( n = 71). Endpoints included symptoms of internet use disorders, psychosocial functioning, and life satisfaction. Personality traits were assessed as moderating factors. Results Life satisfaction ( η 2 = 0.106) and health satisfaction ( η 2 = 0.173) significantly increased in the intervention group with large effect sizes. Decreasing symptoms of internet use disorders at follow-up were predicted by life satisfaction at post-treatment ( ß = −0.51) with extraversion ( B = 1.606) and openness ( B = 2.069) moderating this association. Conclusion Life satisfaction yields additional value as a secondary treatment outcome in internet use disorders and can be therapeutically addressed in order to stabilize treatment effects in the long run. Our study indicates that existing treatment strategies might benefit from explicitly addressing and enhancing psychosocial resources in order to prevent relapses in patients.
Shape-altering flexible plasmonics of in-situ deformable nanorings
2023-03-30

Abstract Nanorings (NRs) with their intrinsic cavities have attracted interest as plasmonic nanoparticles for years, due to the uniform electric field enhancement inside the cavity, lower plasmon damping effects and comparatively high refractive index sensitivities. In the present work, we successfully fabricated a series of Au NR arrays on flexible polydimethylsiloxane substrates by taking advantage of state-of-the-art fabrication methods such as electron beam lithography and wet-etching transfer techniques. In-situ optical measurements on these flexible systems are enabled by implementing a homemade micro-stretcher inside an optical reflection spectroscopy setup. The corresponding dark-field spectra of thin-walled NR arrays exhibit a strong shift to longer wavelengths (i.e., ~ 2.85 nm per 1% strain) under polarization perpendicular to the traction, mainly resulting from the increasing shape deformation of the NRs under strain. Moreover, numerical simulations illustrate that the shifting plasmonic mode has a radially-symmetric charge distribution of the bonding mode and is rather sensitive to the tuning of the NRs’ shape as confirmed by a subsequent in-situ scanning electron microscope characterization. These results explore the possibilities of shape-altering flexible plasmonics for nanoparticles with a cavity and indicate potential applications for plasmonic colors and biochemical sensing in future work. Graphical Abstract
Diagnosis of Basal Cell Carcinoma with Ex-vivo Confocal Laser Scanning Microscopy in a Real-life Setting
2023-03-30

Ex-vivo confocal laser scanning microscopy provides a rapid alternative to routine histological processing using haematoxylin and eosin-stained sections. Previous studies suggest high diagnostic accuracy in basal cell carcinoma. This study investigates the diagnostic accuracy of confocal laser scanning microscopy reporting of basal cell carcinoma in a real-life setting and compares reporting by dermatopathologists inexperienced in use of confocal laser scanning microscopy with reporting by an expert in confocal laser scanning microscopy. A total of 334 confocal laser scanning microscopy scans were diagnosed by 2 dermatopathologists inexperienced in the diagnosis of confocal laser scanning microscopy as well as an experienced examiner of confocal laser scanning microscopy scans. The inexperienced examiners achieved a sensitivity of 59.5/71.1% and specificity of 94.8/89.8%. The experienced examiner achieved a sensitivity of 78.5% and specificity of 84.8%. Detection of tumour remnants in margin controls showed insufficient values among inexperienced (30.1/33.3%) and experienced (41.7%) investigators. The results of this study, of real-life setting basal cell carcinoma reporting with confocal laser scanning microscopy, found a lower diagnostic accuracy than published data regarding artificial settings. A poor accuracy in tumour margin control is clinically relevant and could restrict the use of confocal laser scanning microscopy in clinical routine. Prior knowledge of haematoxylin and eosin trained pathologists can be partially transferred to the reporting of confocal laser scanning microscopy scans; however, specific training is recommended.
Oxidation state of bioavailable dissolved organic matter influences bacterioplankton respiration and growth efficiency
2023-03-30

<title>Abstract</title> Heterotrophic bacterioplankton use oxygen and dissolved organic matter (DOM) to acquire energy, carbon and nutrients necessary for growth; however, the impacts of the chemical composition of DOM on the ratio of oxygen uptake to carbon respiration (i.e., respiratory quotient, RQ) and bacterioplankton growth efficiencies (BGEs) are not well constrained, particularly for nutrient-limited regions such as open oceans. To investigate the influence of DOM composition on RQ we performed DOM remineralization bioassays over a senescing phytoplankton bloom in the eastern North Atlantic Ocean. We found that more oxidized DOM and nitrogen-containing compounds were utilized at lower BGEs and elevated RQs, which we hypothesized to be due to shifts in the energy yield per carbon atom. Results provide important new insights into the molecular mechanisms of the global carbon cycle and have implications for predicting the impacts of future warmer oceans on DOM utilization by bacteria.
Diagnostic Accuracy of 128-Slice Single-Source CT for the Detection of Dislocated Bucket Handle Meniscal Tears in the Setting of an Acute Knee Trauma—Correlation with MRI and Arthroscopy
2023-03-30

(1) Background: Meniscal tears are amongst the most common knee injuries. Dislocated bucket handle meniscal tears in particular should receive early intervention. The purpose of this study was to evaluate the diagnostic performance of CT in detecting dislocated bucket handle meniscal tears compared with the gold-standard MRI and arthroscopy. (2) Methods: Retrospectively, 96 consecutive patients underwent clinically indicated CT of the knee for suspected acute traumatic knee injuries (standard study protocol, 120 kV, 90 mAs). Inclusion criteria were the absence of an acute fracture on CT and a timely MRI (&lt;6 months). Corresponding arthroscopy was assessed. Two experienced musculoskeletal radiologists analyzed the images for dislocated bucket handle meniscal tears, associated signs thereof (double posterior cruciate ligament sign, double delta sign, disproportional posterior horn sign), and subjective diagnostic confidence on a 5-point-Likert scale (1 = ‘non-diagnostic image quality’, 5 = ‘very confident’). (3) Results: Dislocated bucket handle meniscal tears were detected on CT by standard three-plane bone kernel reconstructions with a sensitivity of 90.7% and a specificity of 99.3% by transferring the knowledge of established MRI signs. The additional use of soft-tissue kernel reconstructions in three planes increased the sensitivity by 4.0% to 94.7%, specificity to 100%, inter-rater agreement to 1.0, and the diagnostic confidence of both readers improved to a median 4/5 (‘confident’) in both readers. (4) Conclusions: Trauma CT scan of the knee with three-plane soft-tissue reconstructions delivers the potential for the detection of dislocated bucket handle meniscal tears with very high diagnostic accuracy.
Impact of the Maximum Ring Difference on Image Quality and Noise Characteristics of a Total Body PET/CT Scanner
2023-03-30

Ziel/Aim The sensitivity of a PET system highly depends on the axial acceptance angle or maximum ring difference (MRD), which can be particularly high for total body scanners due to their larger axial field of views (aFOV). This study aims to evaluate the impact on image quality (IQ) and noise performance when MRD85 (18°), the current standard for clinical use, is increased to MRD322 (52°) for the Biograph Vision Quadra (Siemens Healthineers).
LEVERAGING OR EXPLOITING? BREAKING THROUGH DATA COLONIALISM AND ETHNOCENTRISM WHEN BUILDING A DIVERSITY-AWARE SOCIAL PLATFORM.
2023-03-30

The extractive logic of data-driven technology and knowledge production has raised serious concerns. While this discourse initially focused on the impact on Western societies, attention is increasingly turning to the consequences for countries and communities in the (Global) Souths. Criticism has mainly focused on the activities of the private sector. In this paper, however, we argue that publicly funded knowledge and technology production projects must also be examined through the lens of this critique. A research project designing and prototyping a diversity-aware social platform with pilot sites in China, Denmark, the United Kingdom, India, Italy, Mexico, Mongolia, and Paraguay is taken as a use case to ask the question: What do we need to do to meet diverse needs and develop innovative knowledge and products that benefit partners from the South and North alike? Our goal is to identify key efforts that are required to break the prevailing cycle of data colonialism and ethnocentric design. We present data from four different pilot sites and reflect on the original concept, as well as progress and results achieved to date. We then compare the experiences and draw five lessons that we believe will help future projects foster more equitable collaboration and achieve outcomes that benefit diverse local communities.
Simulation Studies and Experimental Model Validation of the Biograph Vision Quadra
2023-03-30

Ziel/Aim The new generation of total body PET scanners enables a broad field of innovative applications, such as low dose, late or simultaneous multi-organ imaging. The ground truth information and easy repeatability of simulations are highly suitable to address the need for the establishment of scan protocols or validation of corrections in this field with limited experience. The purpose of this study was to develop and validate a Monte Carlo simulation framework of the Biograph Vision Quadra.
Y-90 Image Quality and Quantification on a Total-Body PET/CT Scanner
2023-03-30

Ziel/Aim Y-90-PET for imaging radioembolization of liver tumors is challenging due to the low branching ratio for pair-production of 32×10-6. The purpose of this study was to investigate whether the high sensitivity of a PET/CT scanner with an extended field of view of 106 cm, the Biograph Vision Quadra (Siemens Healthineers), can provide accurate quantification for clinically acceptable scan times.
Data from Progression-Specific Genes Identified by Expression Profiling of Matched Ductal Carcinomas <i>In situ</i> and Invasive Breast Tumors, Combining Laser Capture Microdissection and Oligonucleotide Microarray Analysis
2023-03-30

&lt;div&gt;Abstract&lt;p&gt;Becoming invasive is a crucial step in breast cancer oncogenesis. At this point, a lesion carries the potential for spreading and metastasis—a process, whose molecular characteristics still remain poorly understood. In this article, we describe a matched-pair analysis of ductal carcinoma &lt;i&gt;in situ&lt;/i&gt; (DCIS) and invasive ductal carcinoma (IDC) of nine breast ductal carcinomas to identify novel molecular markers characterizing the transition from DCIS to IDC. The purpose of this study was to better understand the molecular biology of this transition and to identify candidate genes whose products might serve as prognostic markers and/or as molecular targets for treatment. To obtain cellular-based gene expression profiles from epithelial tumor cells, we combined laser capture microdissection with a T7-based two-round RNA amplification and Affymetrix oligonucleotide microarray analysis. Altogether, a set of 24 tumor samples was analyzed, comprised of nine matched DCIS/IDC and replicate DCIS/IDC preparations from three of the nine tumors. Cluster analysis on expression data shows the robustness and reproducibility of the techniques we established. Using multiple statistical methods, 546 significantly differentially expressed probe sets were identified. Eighteen candidate genes were evaluated by RT-PCR. Examples of genes already known to be associated with breast cancer invasion are &lt;i&gt;BPAG1, LRRC15, MMP11&lt;/i&gt;, and &lt;i&gt;PLAU&lt;/i&gt;. The expression of &lt;i&gt;BPAG1, DACT1, GREM1, MEF2C, SART2&lt;/i&gt;, and &lt;i&gt;TNFAIP6&lt;/i&gt; was localized to epithelial tumor cells by &lt;i&gt;in situ&lt;/i&gt; hybridization and/or immunohistochemistry, confirming the accuracy of laser capture microdissection sampling and microarray analysis. (Cancer Res 2006; 66(10): 5278-86)&lt;/p&gt;&lt;/div&gt;
Responsible research assessment in the area of methodological or quantitative research: A comment on Gärtner et al. (2022)
2023-03-30

In this commentary, we discuss the proposed criteria in Gärtner et al. (2022) for hiring or promoting quantitative methods researchers. We argue that the criteria do not reflect aspects that are relevant to methods researchers and typical publications they produce. We introduce a new set of criteria that can be used to evaluate the performance of methods researchers in a more valid fashion. We discuss the necessity to balance scientific expertise and open science commitment in such ranking schemes.
Transition and Drivers of Elastic-Inelastic Deformation in the Abarkuh Plain from InSAR Multi-Sensor Time Series and Hydrogeological Data
2023-03-30

This repository contains the datasets used in Mirzadeh et al., 2022. It includes three InSAR time-series datasets from the Envisat descending orbit, ALOS-1 ascending orbit, and Sentinel-1A in ascending and descending orbits, acquired over the Abarkuh Plain, Iran, as well as the geological map of the study area and the GNSS and hydrogeological data used in this research. Dataset 1: Envisat descending track 292 Date: 06 Oct 2003 - 05 Sep 2005 (12 acquisitions) Processor: ISCE/stripmapStack + MintPy Displacement time-series (in HDF-EOS5 format): timeseries_LOD_tropHgt_ramp_demErr.h5 Mean LOS Velocity (in HDF-EOS5 format): velocity.h5 Mask Temporal Coherence (in HDF-EOS5 format): maskTempCoh.h5 Geometry (in HDF-EOS5 format): geometryRadar.h5 Dataset 2: ALOS-1 ascending track 569 Date: 06 Dec 2006 - 17 Dec 2010 (14 acquisitions) Processor: ISCE/stripmapStack + MintPy Displacement time-series (in HDF-EOS5 format): timeseries_ERA5_ramp_demErr.h5 Mean LOS Velocity (in HDF-EOS5 format): velocity.h5 Mask Temporal Coherence (in HDF-EOS5 format): maskTempCoh.h5 Geometry (in HDF-EOS5 format): geometryRadar.h5 Dataset 2: Sentinel-1 ascending track 130 and descending track 137 Date: 14 Oct 2014 - 28 Mar 2020 (129 ascending acquisitions) + 27 Oct 2014 - 29 Mar 2020 (114 descending acquisitions) Processor: ISCE/topsStack + MintPy Displacement time-series (in HDF-EOS5 format): timeseries_ERA5_ramp_demErr.h5 Mean LOS Velocity (in HDF-EOS5 format): velocity.h5 Mask Temporal Coherence (in HDF-EOS5 format): maskTempCoh.h5 Geometry (in HDF-EOS5 format): geometryRadar.h5 The time series and Mean LOS Velocity (MVL) products can be georeferenced and resampled using the makTempCoh and geometryRadar products and the MintPy commands/functions.
Plasticity of neuronal dynamics in the lateral habenula for cue-punishment associative learning.
2023-03-30

The brain’s ability to associate threats with external stimuli is vital to execute essential behaviours including avoidance. Disruption of this process contributes instead to the emergence of pathological traits which are common in addiction and depression. However, the mechanisms and neural dynamics at the single-cell resolution underlying the encoding of associative learning remain elusive. Here, employing a Pavlovian discrimination task in mice we investigate how neuronal populations in the lateral habenula (LHb), a subcortical nucleus whose excitation underlies negative affect, encode the association between conditioned stimuli and a punishment (unconditioned stimulus).