cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6353870
title: Collaborative use of virtual patients after a lecture enhances learning with minimal investment of cognitive load

description: <b>Background:</b> The use of virtual patients (VPs), due to their high complexity and/or inappropriate sequencing with other instructional methods, might cause a high cognitive load, which hampers learning. <b>Aim:</b> To investigate the efficiency of instructional methods that involved three different applications of VPs combined with lectures. <b>Method:</b> From two consecutive batches, 171 out of 183 students have participated in lecture and VPs sessions. One group received a lecture session followed by a collaborative VPs learning activity (collaborative deductive). The other two groups received a lecture session and an independent VP learning activity, which either followed the lecture session (independent deductive) or preceded it (independent inductive). All groups were administrated written knowledge acquisition and retention tests as well as transfer tests using two new VPs. All participants completed a cognitive load questionnaire, which measured intrinsic, extraneous and germane load. Mixed effect analysis of cognitive load and efficiency using the R statistical program was performed. <b>Results:</b> The highest intrinsic and extraneous load was found in the independent inductive group, while the lowest intrinsic and extraneous load was seen in the collaborative deductive group. Furthermore, comparisons showed a significantly higher efficiency, that is, higher performance in combination with lower cognitive load, for the collaborative deductive group than for the other two groups. <b>Conclusion:</b> Collaborative use of VPs after a lecture is the most efficient instructional method, of those tested, as it leads to better learning and transfer combined with lower cognitive load, when compared with independent use of VPs, either before or after the lecture.
DOI: 10.6084/m9.figshare.6353870.v1
title: Collaborative use of virtual patients after a lecture enhances learning with minimal investment of cognitive load

description: <b>Background:</b> The use of virtual patients (VPs), due to their high complexity and/or inappropriate sequencing with other instructional methods, might cause a high cognitive load, which hampers learning. <b>Aim:</b> To investigate the efficiency of instructional methods that involved three different applications of VPs combined with lectures. <b>Method:</b> From two consecutive batches, 171 out of 183 students have participated in lecture and VPs sessions. One group received a lecture session followed by a collaborative VPs learning activity (collaborative deductive). The other two groups received a lecture session and an independent VP learning activity, which either followed the lecture session (independent deductive) or preceded it (independent inductive). All groups were administrated written knowledge acquisition and retention tests as well as transfer tests using two new VPs. All participants completed a cognitive load questionnaire, which measured intrinsic, extraneous and germane load. Mixed effect analysis of cognitive load and efficiency using the R statistical program was performed. <b>Results:</b> The highest intrinsic and extraneous load was found in the independent inductive group, while the lowest intrinsic and extraneous load was seen in the collaborative deductive group. Furthermore, comparisons showed a significantly higher efficiency, that is, higher performance in combination with lower cognitive load, for the collaborative deductive group than for the other two groups. <b>Conclusion:</b> Collaborative use of VPs after a lecture is the most efficient instructional method, of those tested, as it leads to better learning and transfer combined with lower cognitive load, when compared with independent use of VPs, either before or after the lecture.
DOI: 10.6084/m9.figshare.6353720
title: Supplementary Material for: Enhanced Liver Regeneration After Partial Hepatectomy in Sterol Regulatory Element-Binding Protein (SREBP)-1c-Null Mice is Associated with Increased Hepatocellular Cholesterol Availability

description: <b><i>Background/Aims:</i></b> Transient lipid accumulation within hepatocytes preceding the peak proliferative process is a characteristic feature of liver regeneration. However, molecular mediators responsible for this lipid accumulation and their functions are not well defined. Sterol regulatory element-binding proteins-1c (SREBP-1c) are critical transcriptional factors that regulate lipid homeostasis in the liver. We hypothesized that SREBP-1c deficiency induced alterations of lipid metabolism may influence hepatocyte proliferation and liver regeneration. <b><i>Methods:</i></b> 2/3 partial hepatectomy (PH) was performed in wild type C57BL/6J (WT) and <i>Srebp-1c-/-</i> mice. The lipid contents in serum and liver were measured by enzymatic colorimetric methods. Hepatic lipid droplets were detected by Oil Red O staining and immunohistological staining. Hepatic expression of genes involved in lipid metabolism and cellular proliferation was determined by real-time PCR and/or immunoblot. Hepatocyte proliferation and liver regeneration were assessed by BrdU staining and the weight of remanent liver lobes in Srebp-1c-/- mice, respectively. <b><i>Results:</i></b> <i>Srebp-1c-/-</i> mice displayed reduced triglyceride and fatty acids but increased cholesterol in the liver before PH. In response to PH, hepatocellular DNA synthesis was elevated and cell cycle progression was prolonged in <i>Srebp-1c-/-</i> mice, which was associated with enhanced liver regeneration. However, <i>Srebp-1c-/-</i> mice had comparable triglyceride and fatty acid contents and expressions of related genes compared with WT mice during the liver regeneration. In contrast, SREBP-1c-deficiency-induced alteration of cholesterol metabolism was retained during the liver regeneration after PH. <i>Srebp-1c-/-</i> mice exhibited higher cholesterol contents and enhanced expression of SREBP-2 and 3-hydroxy-3-methylglutaryl-Coenzyme A reductase (HMGCR) in the liver than WT mice after PH. Moreover, downregulation of genes involved in cholesterol elimination was observed after PH in <i>Srebp-1c-/-</i> mice. <b><i>Conclusion:</i></b> SREBP-1c deficiency in mice did not interfere with triglyceride and fatty acid metabolism but was associated with significant changes in cholesterol profiles during liver regeneration after PH. These results suggest that increased hepatocellular cholesterol storage and cholesterol availability with the enhanced liver regeneration are identified in <i>Srebp-1c-/-</i> mice. This study also shows that providing requisite cholesterol levels to proliferating hepatocytes and keeping appropriate cholesterol metabolism are required for normal liver regeneration.
DOI: 10.6084/m9.figshare.6353309
title: Supplementary Material for: Adrenocortical Carcinoma in Children: A Clinicopathological Analysis of 41 Patients at the Mayo Clinic from 1950 to 2017

description: <b><i>Background/Aims:</i></b> Adrenocortical carcinoma (ACC) is an aggressive childhood cancer. Limited evidence exists on a definite histopathological criterion to differentiate ACC from adrenocortical adenoma. The aim of this study was to investigate the clinicopathological data of children with ACC, identify prognostic factors, and validate a histopathological criterion to differentiate ACC from adrenocortical adenoma. <b><i>Methods:</i></b> This retrospective cohort included 41 children, followed at the Mayo Clinic from 1950 to 2017 (onset of symptoms ≤21 years). Outcomes of interest were: alive with no evidence of disease, alive with evidence of disease, and dead of disease. <b><i>Results:</i></b> Median age at onset of symptoms was 15.7 years (<i>n</i> = 41; range, 0.2–21 years). Female:male ratio was 3.6: 1. Mixed symptomatology (&gt; 1 hormone abnormality) was the most common presentation (54%, <i>n</i> = 22). Sixty-six percent of patients (<i>n</i> = 27 out of 41) underwent total adrenalectomy. Metastatic disease was more common in children aged &gt; 12 years (<i>p</i> = 0.002 compared to &lt; 4 years). The most common sites of metastases were the liver and lungs. Overall 2-year and 5-year survival rates were 61% (95% CI 45–77) and 46% (95% CI 30–62), respectively. Metastasis at the time of diagnosis was independently associated with poor prognosis (risk ratio 13.7%; 95% CI 3.9–87.7). Weiss criteria (29%) and modified Weiss criteria (33%) were less accurate in younger patients (&lt; 12 years), compared to the Wieneke index (100%). <b><i>Conclusion:</i></b> The presence of metastases was an independent prognostic factor. The Wieneke index was the most accurate in predicting clinical outcomes in younger children.
DOI: 10.6084/m9.figshare.6353309.v1
title: Supplementary Material for: Adrenocortical Carcinoma in Children: A Clinicopathological Analysis of 41 Patients at the Mayo Clinic from 1950 to 2017

description: <b><i>Background/Aims:</i></b> Adrenocortical carcinoma (ACC) is an aggressive childhood cancer. Limited evidence exists on a definite histopathological criterion to differentiate ACC from adrenocortical adenoma. The aim of this study was to investigate the clinicopathological data of children with ACC, identify prognostic factors, and validate a histopathological criterion to differentiate ACC from adrenocortical adenoma. <b><i>Methods:</i></b> This retrospective cohort included 41 children, followed at the Mayo Clinic from 1950 to 2017 (onset of symptoms ≤21 years). Outcomes of interest were: alive with no evidence of disease, alive with evidence of disease, and dead of disease. <b><i>Results:</i></b> Median age at onset of symptoms was 15.7 years (<i>n</i> = 41; range, 0.2–21 years). Female:male ratio was 3.6: 1. Mixed symptomatology (&gt; 1 hormone abnormality) was the most common presentation (54%, <i>n</i> = 22). Sixty-six percent of patients (<i>n</i> = 27 out of 41) underwent total adrenalectomy. Metastatic disease was more common in children aged &gt; 12 years (<i>p</i> = 0.002 compared to &lt; 4 years). The most common sites of metastases were the liver and lungs. Overall 2-year and 5-year survival rates were 61% (95% CI 45–77) and 46% (95% CI 30–62), respectively. Metastasis at the time of diagnosis was independently associated with poor prognosis (risk ratio 13.7%; 95% CI 3.9–87.7). Weiss criteria (29%) and modified Weiss criteria (33%) were less accurate in younger patients (&lt; 12 years), compared to the Wieneke index (100%). <b><i>Conclusion:</i></b> The presence of metastases was an independent prognostic factor. The Wieneke index was the most accurate in predicting clinical outcomes in younger children.
DOI: 10.6084/m9.figshare.6353045
title: Yoruba population (1000Genomes) sweep scans using RAiSD, SweeD, OmegaPlus, SweepFinder2, SHIC, and CMS.

description: All 22 autosomes of the YRI population (1000Genomes project) have been scanned for sweeps using RAiSD, SweeD, OmegaPlus, SweepFinder2, SHIC, and CMS (results available by the authors). <br>
DOI: 10.6084/m9.figshare.6352964
title: A Deep Dive into Word Sense Disambiguation with LSTM

description: Trained models for paper:<br>Minh Le, Marten Postma, Jacopo Urbani and Piek Vossen. 2018. A Deep Dive into Word Sense Disambiguation with LSTM. COLING 2018<br><br>
DOI: 10.6084/m9.figshare.6352745
title: Data set Alfamed Secundaria

description: Data set Alfamed Secondary
DOI: 10.6084/m9.figshare.6352745.v1
title: Data set Alfamed Secundaria

description: Data set Alfamed Secondary
DOI: 10.6084/m9.figshare.6352703
title: Bicycle Powered Centrifugal Irrigation Pump, Power Sweep Constant Head Experiment

description: In addition to the efficiency at normal use, I wanted to know if the pump used in the first prototype was the most efficient size for human power, as there have not been centrifugal pumps designed specifically for human powered use. At a constant vertical head of 4 meters, I varied the input power to sweep through the pump’s efficiencies. Procedure: Constant Head, Varied Power To control the input power in this experiment, the pedaler again watched a live readout of cadence which is a reasonable proxy for power. At 4 meters (13 feet) of vertical head, I took multiple trials at cadences ranging from 70 to 105 rpms. Once they reach a stable cadence, the pedaler would simultaneously start a timer and call out to the outlet person to switch the outlet flow from filling an auxiliary bucket to filling the measurement bucket. The outlet person would later call out when the measurement bucket was filled to 20 liters, and the pedaler would stop the timer.
DOI: 10.6084/m9.figshare.6352517
title: Bicycle Powered Centrifugal Irrigation Pump, Constant Power Varied Head Experiment

description: I wanted to measure the efficiency of the bicycle irrigation pump for a range of vertical heads, which represents farms with hills or the pressure head from using sprinklers. I also wanted to compare the bicycle pump’s efficiency to an existing human powered pump. In particular, I compared flow measurements to the published results of the Saajhi stepping pump, which is a portable treadle pump made by Xylem, Inc. Procedure: Constant Power, Varied Head The power meter’s readout software6F[1] did not display a live power reading but did display a live cadence reading. Cadence is a proxy for power if the applied torque is constant. To control the input power in this experiment, the pedaler watched the readout of cadence and tried to keep it at a level that would correspond to 100 watts7F[2]. We then took multiple trials (3 to 6 trials) at vertical heads ranging from 1 to 5 meters in increments of 1 meter. We changed the vertical head by moving the outlet hose up a staircase. The vertical head was measured on a staircase using a laser distance meter. In each trial, once the pedaler reached a stable cadence and torque, they would start a timer and simultaneously call out to the person at the outlet of the hose (the “outlet person”) to switch the water flow from filling an auxiliary bucket to filling the measurement bucket. The outlet person would then call out when the measurement bucket was filled to 20 liters, and the pedaler would stop the timer. Thus, I measured input power, height (the independent variable), time, and volume (volume over time describes the flow rate, which was the dependent variable). <br> [1] The software distributed with the DZero power meter, <i>Qalvin BLE</i>, did not record data. The compatible app that did record data <i>Wahoo Fitness</i> did not display live power readings. [2] The usual case will be that a farmer pedals at a constant sustainable rate which we targeted to be 100 watts (0.13 horsepower). According to <i>Water Lifting Devices</i>, an average adult can maintain an output of over 100 watts for more than an hour.
DOI: 10.6084/m9.figshare.6352496
title: Evaluation

description: SpecINT: A framework for data integration over cheminformatics and bioinformatics RDF repositories.Authors: Branko Arsić, Marija Đokić-Petrović, Petar Spalević, Ivan Milentijević, Dejan Rančić & Marko Živanović<br>A comparison of the SpecINT framework with the Open PHACTS project which is now used in pharmaceutical companies. For each substance, each folder contains the number of extracted targets, cell-lines and IC50 values for every data source, as well as repository affiliation. <br>
DOI: 10.6084/m9.figshare.6351701
title: First genetic data for band-winged grasshoppers (Orthoptera: Acrididae: Oedipodinae) of the Biskra region of Algeria with new records for the country

description: DNA barcoding represents an objective tool for fast species identification, especially for taxa for which morphological identification is difficult. One current limitation of barcoding is the lack of reference sequences for many groups. While many European and North American countries have started their own barcoding initiatives to generate complete local inventories and databases, such efforts are sparse for African, Asian and South American countries, despite their high biodiversity and comparably poorly explored faunas. Therefore, it is important to start local barcoding efforts in such countries. In this study we performed DNA barcoding for the band-winged grasshoppers of the Biskra province in Algeria, a region of high diversity for this taxon. All specimens were identified morphologically and then barcoded. We generated a total of 47 sequences of the COI gene for 22 morphologically identified species of Oedipodinae, many of which were sequenced for the first time. We present the data in a phylogenetic tree, which suggests monophyly for most genera, but rejects it for <i>Sphingonotus</i> and <i>Vosseleriana</i>. Statistical species delimitation worked well for most genera, except those within the Sphingonotini, likely because these have radiated rather recently. Together with data sourced from the literature we used our new data set to generate an updated list of band-winged grasshoppers for the region. Several species are recorded for the region and for the country for the first time. One species appears to be new to science. Furthermore, we found geographic variation within several more widespread species for which data from other countries were present. We consider the new data as an important resource for future faunistic, ecological and biodiversity studies and point out the importance of local (taxon-specific) barcoding studies.
DOI: 10.6084/m9.figshare.6351701.v1
title: First genetic data for band-winged grasshoppers (Orthoptera: Acrididae: Oedipodinae) of the Biskra region of Algeria with new records for the country

description: DNA barcoding represents an objective tool for fast species identification, especially for taxa for which morphological identification is difficult. One current limitation of barcoding is the lack of reference sequences for many groups. While many European and North American countries have started their own barcoding initiatives to generate complete local inventories and databases, such efforts are sparse for African, Asian and South American countries, despite their high biodiversity and comparably poorly explored faunas. Therefore, it is important to start local barcoding efforts in such countries. In this study we performed DNA barcoding for the band-winged grasshoppers of the Biskra province in Algeria, a region of high diversity for this taxon. All specimens were identified morphologically and then barcoded. We generated a total of 47 sequences of the COI gene for 22 morphologically identified species of Oedipodinae, many of which were sequenced for the first time. We present the data in a phylogenetic tree, which suggests monophyly for most genera, but rejects it for <i>Sphingonotus</i> and <i>Vosseleriana</i>. Statistical species delimitation worked well for most genera, except those within the Sphingonotini, likely because these have radiated rather recently. Together with data sourced from the literature we used our new data set to generate an updated list of band-winged grasshoppers for the region. Several species are recorded for the region and for the country for the first time. One species appears to be new to science. Furthermore, we found geographic variation within several more widespread species for which data from other countries were present. We consider the new data as an important resource for future faunistic, ecological and biodiversity studies and point out the importance of local (taxon-specific) barcoding studies.
DOI: 10.6084/m9.figshare.12894008
title: Compound harmonization

description: The deposit contains original compounds and metabolic reactions from KEGG and MetaCyc database, and the results of atom coloring and compound harmonization for manuscript "Atom Identifiers Generated by a Graph Coloring Method Enable Compound Harmonization Across Metabolic Databases ".
DOI: 10.6084/m9.figshare.6351380
title: VpQp_Boise_sandstone_from_squirt_model

description: A double-porosity model of squirt between fissures and pores is developed by Guangquan Li, yielding phase velocity and quality factor of water-saturated Boise sandstone which are very close to measurements.
DOI: 10.6084/m9.figshare.12894008.v1
title: Compound harmonization

description: The deposit contains original compounds and metabolic reactions from KEGG and MetaCyc database, and the results of atom coloring and compound harmonization for manuscript "Atom Identifiers Generated by a Graph Coloring Method Enable Compound Harmonization Across Metabolic Databases ".
DOI: 10.6084/m9.figshare.6351380.v4
title: VpQp_Boise_sandstone_from_squirt_model

description: A double-porosity model of squirt between fissures and pores is developed by Guangquan Li, yielding phase velocity and quality factor of water-saturated Boise sandstone which are very close to measurements.
DOI: 10.6084/m9.figshare.6351380.v3
title: VpQp_Boise_sandstone_from_squirt_model

description: A double-porosity model of squirt between fissures and pores is developed by Guangquan Li, yielding phase velocity and quality factor of water-saturated Boise sandstone which are very close to measurements.
DOI: 10.6084/m9.figshare.6350774
title: No detectable effect of Wolbachia wMel on the prevalence and abundance of the RNA virome of Drosophila melanogaster

description: The phylogenetic diversity of RNA viruses in <i>w</i>Mel+ and <i>w</i>Mel- Australian flies
DOI: 10.6084/m9.figshare.6350774.v1
title: No detectable effect of Wolbachia wMel on the prevalence and abundance of the RNA virome of Drosophila melanogaster

description: The phylogenetic diversity of RNA viruses in <i>w</i>Mel+ and <i>w</i>Mel- Australian flies
DOI: 10.6084/m9.figshare.6350678
title: Box-ticking and Olympic high jumping – Physicians’ perceptions and acceptance of national physician validation systems

description: <b>Purpose:</b> National physician validation systems aim to ensure lifelong learning through periodic appraisals of physicians’ competence. Their effectiveness is determined by physicians’ acceptance of and commitment to the system. This study, therefore, sought to explore physicians’ perceptions and self-reported acceptance of validation across three different physician validation systems in Europe. <b>Materials and methods:</b> Using a constructivist grounded-theory approach, we conducted semi-structured interviews with 32 respiratory specialists from three countries with markedly different validation systems: Germany, which has a mandatory, credit-based system oriented to continuing professional development; Denmark, with mandatory annual dialogs and ensuing, non-compulsory activities; and the UK, with a mandatory, portfolio-based revalidation system. We analyzed interview data with a view to identifying factors influencing physicians’ perceptions and acceptance. <b>Results:</b> Factors that influenced acceptance were the assessment’s authenticity and alignment of its requirements with clinical practice, physicians’ beliefs about learning, perceived autonomy, and organizational support. <b>Conclusions:</b> Users’ acceptance levels determine any system’s effectiveness. To support lifelong learning effectively, national physician validation systems must be carefully designed and integrated into daily practice. Involving physicians in their design may render systems more authentic and improve alignment between individual ambitions and the systems’ goals, thereby promoting acceptance.