bluuebunny/crossref_metadata_2025_split huggingface dataset:
Exploration of a Copper Ore Deposit in Elbistan/Turkey Using 2D Inversion of the Time-Domain Induced Polarization Data by Using Unstructured Mesh
Authors: Adrian Juliane , Tezkan Bülent , Candansayar M. Emin 
Published: June 2022

AbstractWe present the results of a direct current (DC) resistivity and time-domain induced polarization (TDIP) survey exploring a copper ore deposit in Elbistan/Turkey. The ore deposit is elongated below a valley and is of disseminated form with sulfide content. DC and IP data were acquired using the pole-dipole array on eight parallel profiles crossing the valley perpendicularly. The length of each profile was 300 m with an inter-profile distance of about 50 m. The data were interpreted by a newly developed 2D DC/TDIP inversion algorithm. The finite element algorithm uses a local smoothness constrained regularization on unstructured meshes. The finite element forward solution, as well as the inverse problem, is solved by an iterative preconditioned conjugate solver. The depth of investigation (DOI) was determined from cumulative sensitivities of the 2D inversion algorithm results. Because of the dissemination of the ore, the 2D inversion of the DC data was ambiguous: However, due to the sulfide content, a strong chargeability anomaly associated with the ore body was detected. We show that chargeability anomalies can generally be detected in the absence or presence of corresponding resistivity anomalies. This highly chargeable structure was confined in lateral direction. Although the lower boundary of the structure could not be resolved by the applied field set-up, a rough estimation of it could be derived at a depth of 90 m using synthetic modeling analyses. The 2D chargeability models are consistent with existing borehole information.
Corbicula incorporation to indicator parameters to assess the ecological status of northwestern Iberian estuaries
Authors: Ferreira-Rodríguez Noé , Pedreira Adrián , Lama Gabriela , Padilla-González Claudio , González Ana , Pardo Isabel 
Published: June 2022

AbstractEcological status classification systems based on biological elements (e.g., macroinvertebrate communities) are dependent on their response to different pressures. However, there is a need to determine if invasive species should be incorporated to indicator parameters (i.e. metrics based on measurements of richness and diversity) or as a pressure affecting such parameters. Moreover, because ecosystem classification systems are lacking for northwestern Iberian estuaries, there is even the possibility to develop a new metric penalizing presence or abundance of invasive species. To increase our understanding on this topic, we analyze the taxonomic and functional responses of benthic macroinvertebrates to Corbicula invasion along the environmental gradient of 12 northwestern Iberian estuaries. Macroinvertebrate assemblages were described and compared between invaded and uninvaded sections. Additionally, to assess differences in community structure, macroinvertebrate assemblages’ similarity was examined between two distinct estuarine sections (freshwater and oligohaline vs transitional water and mesohaline) and among water body types, including and excluding Corbicula from the analysis. The salinity gradient was the main driver explaining changes in macroinvertebrate assemblages and in functional group distribution. Freshwater and transitional water sections clearly differed in macroinvertebrate assemblages and functional groups composition. In addition, differences among river types in macroinvertebrate composition were found. Corbicula inclusion or exclusion from multivariate community analysis significantly affected the results in functional feeding group composition in the Cantabric-Atlantic siliceous river axis type. Nevertheless, considering Corbicula as a pressure at the regional scale did not provide different results in diversity indices calculation. Hence, we argue that because Corbicula eradication is virtually impossible, it should be included as an additional metric evidencing its presence as a negative indication, or be included within other indicator metrics used in the assessment of the ecological status, for instance in invertebrate abundance metrics were its dominance should be indicative of invasion impairment.
Social integration of Syrian refugees and their intention to stay in Germany
Authors: Hannafi Cyrine , Marouani Mohamed Ali 
Published: June 2022

AbstractIn this study, we investigate the determinants of social integration of Syrian refugees and the impact of social integration on refugees’ decision to stay in Germany, using the 2016 IAB-BAMF-SOEP Refugee Survey. Our econometric strategy is based on the estimation of a simultaneous equation model for social integration, economic integration, and the decision to stay, handling endogeneity issues through an instrumental variables strategy. Our first contribution is to show that economic integration has an impact on social integration for low- and medium-educated refugees only. Furthermore, language proficiency, having a child in Germany, refugee accommodation, and the number of acquaintances from other countries have a positive impact on social integration, while age has the opposite effect. Our second main result is that social integration affects the intention to stay in Germany, whereas economic integration does not. Moreover, education, English proficiency, and the number of daughters in Germany have a negative impact on the intention to stay.
The endophyte Stenotrophomonas maltophilia EPS modulates endogenous antioxidant defense in safflower (Carthamus tinctorius L.) under cadmium stress
Authors: Hagaggi Noura Sh. A. , Abdul-Raouf Usama M. 
Published: June 2022

AbstractCadmium (Cd) pollution in agricultural soils induces oxidative stress in plants that in turn is the foremost limiting factor for agricultural productivity. In past few decades, plant–metal–microbe interaction is of great interest as an emerging environmentally friendly technology that can be exploited to alleviate metal stress in plants. Considering these, in the present study an endophytic bacterium strain EPS has been isolated from the roots of common bean. The present strain was identified as Stenotrophomonas maltophilia based on 16S rRNA gene sequence. The strain showed Cd tolerance and Cd-adsorption potentials. The inoculation of strain EPS in safflower seeds significantly enhanced the antioxidant defense of plants under Cd-stress conditions through increasing the levels of antioxidant molecules like phenolics, flavonoids and carotenoids as well as improving the activities of the antioxidative enzymes including guaiacol peroxidase (POX), ascorbate peroxidase (APX) and superoxide dismutase (SOD). The output of this study is that strain EPS inoculation mitigates Cd-induced oxidative stress and consequently it may be beneficial, especially in Cd-contaminated crop fields.
Resource utilization for chimeric antigen receptor T cell therapy versus autologous hematopoietic cell transplantation in patients with B cell lymphoma
Authors: Ring Alexander , Grob Björn , Aerts Erik , Ritter Katharina , Volbracht Jörk , Schär Bettina , Greiling Michael , Müller Antonia M. S. 
Published: June 2022

AbstractCD19-directed chimeric antigen receptor T cells (CAR-T) have emerged as a highly efficacious treatment for patients with relapsed/refractory (r/r) B cell lymphoma (BCL). The value of CAR-T for these patients is indisputable, but one-off production costs are high, and little is known about the ancillary resource consumption associated with CAR-T treatment. Here, we compared the resource use and costs of CAR-T treatment with high-dose chemotherapy followed by autologous stem cell transplantation (ASCT) for patients with r/r BCL. Standard operating procedures were used to develop a process model in ClipMedPPM, which comprises all activities and processes to sustain or generate treatment components that together constitute a treatment path. The software allows a graphic representation and the use of standardized linguistic elements for comparison of different treatment paths. Detailed processes involved in CAR-T treatments (n = 1041 processes) and in ASCT (n = 1535) were analyzed for time consumption of treatment phases and personnel. Process costs were calculated using financial controlling data. CAR-T treatment required ~ 30% less staff time than ASCT (primarily nursing staff) due to fewer chemotherapy cycles, less outpatient visits, and shorter hospital stays. For CAR-T, production costs were ~ 8 × higher, but overall treatment time was shorter compared with ASCT (30 vs 48 days), and direct labor and overhead costs were 40% and 10% lower, respectively. Excluding high product costs, CAR-T uses fewer hospital resources than ASCT for r/r BCL. Fewer hospital days for CAR-T compared to ASCT treatment and the conservation of hospital resources are beneficial to patients and the healthcare system.
Werden wir ferngesteuert?
Authors: Portmann Edy 
Published: June 2022

ZusammenfassungIllusion oder Zauberei werden in der indischen Philosophie als Maya bezeichnet. Maya gilt als die geheimnisvolle Kraft, die unsere Welt verkörpert. Sie vereint dazu alle Dualitäten und umfasst sowohl positives Wissen wie auch negatives Unwissen. Edy Portmann verwendet den Begriff in seiner Common-Sense-Kolumne im negativen Sinn, um mögliche Täuschung(en) der Menschen in der digitalisierten Welt aufzuzeigen.
Deep learning–based acceleration of Compressed Sense MR imaging of the ankle
Authors: Foreman Sarah C. , Neumann Jan , Han Jessie , Harrasser Norbert , Weiss Kilian , Peeters Johannes M. , Karampinos Dimitrios C. , Makowski Marcus R. , Gersing Alexandra S. , Woertler Klaus 
Published: June 2022

Abstract
Objectives
To evaluate a compressed sensing artificial intelligence framework (CSAI) to accelerate MRI acquisition of the ankle.

Methods
Thirty patients were scanned at 3T. Axial T2-w, coronal T1-w, and coronal/sagittal intermediate-w scans with fat saturation were acquired using compressed sensing only (12:44 min, CS), CSAI with an acceleration factor of 4.6–5.3 (6:45 min, CSAI2x), and CSAI with an acceleration factor of 6.9–7.7 (4:46 min, CSAI3x). Moreover, a high-resolution axial T2-w scan was obtained using CSAI with a similar scan duration compared to CS. Depiction and presence of abnormalities were graded. Signal-to-noise and contrast-to-noise were calculated. Wilcoxon signed-rank test and Cohen’s kappa were used to compare CSAI with CS sequences.

Results
The correlation was perfect between CS and CSAI2x (κ = 1.0) and excellent for CS and CSAI3x (κ = 0.86–1.0). No significant differences were found for the depiction of structures between CS and CSAI2x and the same abnormalities were detected in both protocols. For CSAI3x the depiction was graded lower (p ≤ 0.001), though most abnormalities were also detected. For CSAI2x contrast-to-noise fluid/muscle was higher compared to CS (p ≤ 0.05), while no differences were found for other tissues. Signal-to-noise and contrast-to-noise were higher for CSAI3x compared to CS (p ≤ 0.05). The high - resolution axial T2-w sequence specifically improved the depiction of tendons and the tibial nerve (p ≤ 0.005).

Conclusions
Acquisition times can be reduced by 47% using CSAI compared to CS without decreasing diagnostic image quality. Reducing acquisition times by 63% is feasible but should be reserved for specific patients. The depiction of specific structures is improved using a high-resolution axial T2-w CSAI scan.

Key Points
• Prospective study showed that CSAI enables reduction in acquisition times by 47% without decreasing diagnostic image quality.
• Reducing acquisition times by 63% still produces images with an acceptable diagnostic accuracy but should be reserved for specific patients.
• CSAI may be implemented to scan at a higher resolution compared to standard CS images without increasing acquisition times.
Development and validation of an ultrasound-based prediction model for differentiating between malignant and benign solid pancreatic lesions
Authors: Huang Jiayan , Yang Jie , Ding Jianming , Zhou Jing , Yang Rui , Li Jiawu , Luo Yan , Lu Qiang 
Published: June 2022

Abstract
Objective
To identify the diagnostic ability of precontrast and contrast-enhanced ultrasound (CEUS) in differentiating between malignant and benign solid pancreatic lesions (MSPLs and BSPLs) and to develop an easy-to-use diagnostic nomogram.

Materials and methods
This study was approved by the institutional review board. Patients with pathologically confirmed solid pancreatic lesions were enrolled from one tertiary medical centre from March 2011 to June 2021 and in two tertiary institutions between January 2015 and June 2021. A prediction nomogram model was established in the training set by using precontrast US and CEUS imaging features that were independently associated with MSPLs. The performance of the prediction model was further externally validated.

Results
A total of 155 patients (mean age, 55 ± 14.6 years, M/F = 84/71) and 78 patients (mean age, 59 ± 13.4 years, M/F = 36/42) were included in the training and validation cohorts, respectively. In the training set, an ill-defined border and dilated main pancreatic duct on precontrast ultrasound, CEUS patterns of hypoenhancement in both the arterial and venous phases of CEUS, and hyperenhancement/isoenhancement followed by washout were independently associated with MSPLs. The prediction nomogram model developed with the aforementioned variables showed good performance in differentiating MSPLs from BSPLs with an area under the curve (AUC) of 0.938 in the training set and 0.906 in the validation set.

Conclusion
Hypoenhancement in all phases, hyperenhancement/isoenhancement followed by washout on CEUS, an ill-defined border, and a dilated main pancreatic duct were independent risk factors for MSPLs. The nomogram constructed based on these predictors can be used to diagnose MSPLs.

Key Points
• An ill-defined border and dilated main pancreatic duct on precontrast ultrasound, hypoenhancement in all phases of CEUS, and hyperenhancement/isoenhancement followed by washout were independently associated with MSPLs.
• The ultrasound-based prediction model showed good performance in differentiating MSPLs from BSPLs with an AUC of 0.938 in the training set and 0.906 in the external validation set.
• An ultrasound-based nomogram is an easy-to-use tool to differentiate between MSPLs and BSPLs with high efficacy.
Multiclass classification by Min–Max ECOC with Hamming distance optimization
Authors: Szűcs Gábor 
Published: June 2022

AbstractTwo questions often arise in the field of the ensemble in multiclass classification problems, (i) how to combine base classifiers and (ii) how to design possible binary classifiers. Error-correcting output codes (ECOC) methods answer these questions, but they focused on only the general goodness of the classifier. The main purpose of our research was to strengthen the bottleneck of the ensemble method, i.e., to minimize the largest values of two types of error ratios in the deep neural network-based classifier. The research was theoretical and experimental, the proposed Min–Max ECOC method suggests a theoretically proven optimal solution, which was verified by experiments on image datasets. The optimal solution was based on the maximization of the lowest value in the Hamming matrix coming from the ECOC matrix. The largest ECOC matrix, the so-called full matrix is always a Min–Max ECOC matrix, but smaller matrices generally do not reach the optimal Hamming distance value, and a recursive construction algorithm was proposed to get closer to it. It is not easy to calculate optimal values for large ECOC matrices, but an interval with upper and lower limits was constructed by two theorems, and they were proved. Convolutional Neural Networks with Min–Max ECOC matrix were tested on four real datasets and compared with OVA (one versus all) and variants of ECOC methods in terms of known and two new indicators. The experimental results show that the suggested method surpasses the others, thus our method is promising in the ensemble learning literature.
Profiling the neurovascular unit unveils detrimental effects of osteopontin on the blood–brain barrier in acute ischemic stroke
Authors: Spitzer Daniel , Guérit Sylvaine , Puetz Tim , Khel Maryam I. , Armbrust Moritz , Dunst Maika , Macas Jadranka , Zinke Jenny , Devraj Gayatri , Jia Xiaoxiong , Croll Florian , Sommer Kathleen , Filipski Katharina , Freiman Thomas M. , Looso Mario , Günther Stefan , Di Tacchio Mariangela , Plate Karl-Heinz , Reiss Yvonne , Liebner Stefan , Harter Patrick N. , Devraj Kavi 
Published: June 2022

AbstractBlood–brain barrier (BBB) dysfunction, characterized by degradation of BBB junctional proteins and increased permeability, is a crucial pathophysiological feature of acute ischemic stroke. Dysregulation of multiple neurovascular unit (NVU) cell types is involved in BBB breakdown in ischemic stroke that may be further aggravated by reperfusion therapy. Therefore, therapeutic co-targeting of dysregulated NVU cell types in acute ischemic stroke constitutes a promising strategy to preserve BBB function and improve clinical outcome. However, methods for simultaneous isolation of multiple NVU cell types from the same diseased central nervous system (CNS) tissue, crucial for the identification of therapeutic targets in dysregulated NVU cells, are lacking. Here, we present the EPAM-ia method, that facilitates simultaneous isolation and analysis of the major NVU cell types (endothelial cells, pericytes, astrocytes and microglia) for the identification of therapeutic targets in dysregulated NVU cells to improve the BBB function. Applying this method, we obtained a high yield of pure NVU cells from murine ischemic brain tissue, and generated a valuable NVU transcriptome database (https://bioinformatics.mpi-bn.mpg.de/SGD_Stroke). Dissection of the NVU transcriptome revealed Spp1, encoding for osteopontin, to be highly upregulated in all NVU cells 24 h after ischemic stroke. Upregulation of osteopontin was confirmed in stroke patients by immunostaining, which was comparable with that in mice. Therapeutic targeting by subcutaneous injection of an anti-osteopontin antibody post-ischemic stroke in mice resulted in neutralization of osteopontin expression in the NVU cell types investigated. Apart from attenuated glial activation, osteopontin neutralization was associated with BBB preservation along with decreased brain edema and reduced risk for hemorrhagic transformation, resulting in improved neurological outcome and survival. This was supported by BBB-impairing effects of osteopontin in vitro. The clinical significance of these findings is that anti-osteopontin antibody therapy might augment current approved reperfusion therapies in acute ischemic stroke by minimizing deleterious effects of ischemia-induced BBB disruption.
Improved osteogenic differentiation by extremely low electromagnetic field exposure: possible application for bone engineering
Authors: Costantini Erica , Marconi Guya Diletta , Fonticoli Luigia , Aielli Lisa , Trubiani Oriana , Rajan Thangavelu Soundara , Pizzicannella Jacopo , Reale Marcella , Diomede Francesca 
Published: June 2022

AbstractHuman periodontal ligament mesenchymal stem cells (hPDLSCs) are a promising cell type model for regenerative medicine applications due to their anti-inflammatory, immunomodulatory and non-tumorigenic potentials. Extremely low-frequency electromagnetic fields (ELF-EMF) are reported to affect biological properties such as cell proliferation and differentiation and modulate gene expression profile. In this study, we investigated the effects of an intermittent ELF-EMF exposure (6 h/day) for the standard differentiation period (28 days) and for 10 days in hPDLSCs in the presence or not of osteogenic differentiation medium (OM). We evaluated cell proliferation, de novo calcium deposition and osteogenic differentiation marker expression in sham and ELF-EMF-exposed cells. After ELF-EMF exposure, compared with sham-exposed, an increase in cell proliferation rate (p < 0.001) and de novo calcium deposition (p < 0.001) was observed after 10 days of exposure. Real-time PCR and Western blot results showed that COL1A1 and RUNX-2 gene expression and COL1A1, RUNX-2 and OPN protein expression were upregulated respectively in the cells exposed to ELF-EMF exposure along with or without OM for 10 days. Altogether, these results suggested that the promotion of osteogenic differentiation is more efficient in ELF-EMF-exposed hPDLSCs. Moreover, our analyses indicated that there is an early induction of hPDLSC differentiation after ELF-EMF application.
Culture media selection and feeding strategy for high titer production of a lentiviral vector by stable producer clones cultivated at high cell density
Authors: Shen Chun Fang , Tremblay Sonia , Sabourin-Poirier Catherine , Burney Elodie , Broussau Sophie , Manceur Aziza , Rodenbrock Anja , Voyer Robert , Loignon Martin , Ansorge Sven , Gilbert Rénald 
Published: June 2022

AbstractThe growing interest in the use of lentiviral vectors (LVs) for various applications has created a strong demand for large quantities of vectors. To meet the increased demand, we developed a high cell density culture process for production of LV using stable producer clones generated from HEK293 cells, and improved volumetric LV productivity by up to fivefold, reaching a high titer of 8.2 × 107TU/mL. However, culture media selection and feeding strategy development were not straightforward. The stable producer clone either did not grow or grow to lower cell density in majority of six commercial HEK293 media selected from four manufacturers, although its parental cell line, HEK293 cell, grows robustly in these media. In addition, the LV productivity was only improved up to 53% by increasing cell density from 1 × 106and 3.8 × 106cells/mL at induction in batch cultures using two identified top performance media, even these two media supported the clone growth to 5.7 × 106and 8.1 × 106cells/mL, respectively. A combination of media and feed from different companies was required to provide diverse nutrients and generate synergetic effect, which supported the clone growing to a higher cell density of 11 × 106cells/mL and also increasing LV productivity by up to fivefold. This study illustrates that culture media selection and feeding strategy development for a new clone or cell line can be a complex process, due to variable nutritional requirements of a new clone. A combination of diversified culture media and feed provides a broader nutrients and could be used as one fast approach to dramatically improve process performance.