cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.4047393
title: Reference case

description: Windpower, turbine controls, and 3D time-averaged flow field quantities for reference case with turbine thrust coefficient equal to 2.<br><br>3D time-averaged flow fields can be loaded using Python script load_BLfieldstat.py<br><br>Data accompanying research paper<br>W. Munters, J. Meyers, "An optimal control framework for dynamic induction control of wind farms and their interaction with the atmospheric boundary layer", Phil Trans R Soc A (under review)<br><br>
DOI: 10.6084/m9.figshare.4047390
title: Supplementary Material for: A Randomized Controlled Clinical Trial of Dialogical Exposure Therapy versus Cognitive Processing Therapy for Adult Outpatients Suffering from PTSD after Type I Trauma in Adulthood

description: <br><strong><em>Background:</em></strong> Although there are effective treatments for posttraumatic stress disorder (PTSD), there is little research on treatments with non-cognitive-behavioural backgrounds, such as gestalt therapy. We tested an integrative gestalt-derived intervention, dialogical exposure therapy (DET), against an established cognitive-behavioural treatment (cognitive processing therapy, CPT) for possible differential effects in terms of symptomatic outcome and drop-out rates. <b><i>Methods:</i></b> We randomized 141 treatment-seeking individuals with a diagnosis of PTSD to receive either DET or CPT. Therapy length in both treatments was flexible with a maximum duration of 24 sessions. <b><i>Results:</i></b> Dropout rates were 12.2% in DET and 14.9% in CPT. Patients in both conditions achieved significant and large reductions in PTSD symptoms (Impact of Event Scale - Revised; Hedges' g = 1.14 for DET and <i>d</i> = 1.57 for CPT) which were largely stable at the 6-month follow-up. At the posttreatment assessment, CPT performed statistically better than DET on symptom and cognition measures. For several outcome measures, younger patients profited better from CPT than older ones, while there was no age effect for DET. <b><i>Conclusions:</i></b> Our results indicate that DET merits further research and may be an alternative to established treatments for PTSD. It remains to be seen whether DET confers advantages in areas of functioning beyond PTSD symptoms.
DOI: 10.7910/dvn/v1rjpf/xkhv2w
title: blc20160331_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4047384
title: <i>In vitro</i> antiaggregation and deaggregation potential of <i>Rhizophora mucronata</i> and its bioactive compound (+)- catechin against Alzheimer’s beta amyloid peptide (25–35)

description: <b>Objective:</b> Amyloid hypothesis states that endogenous <i>β</i>-amyloid peptides (A<i>β</i>), especially its aggregated oligomers and fibrils are the key pathogenic factors leading to Alzheimer’s disease (AD). Therefore, inhibition of A<i>β</i> fibrillation rather than blocking its production is considered promising therapeutic intervention. Hence, the present study was carried out to assess the effect of methanolic leaf extract of <i>R. mucronata</i> (MERM) and its bioactive compound catechin on <i>in vitro</i> fibrillation of A<i>β</i> (25–35). <b>Methodology:</b> Antiaggregation and disaggregation effect by MERM and (+)- catechin against A<i>β</i> (25–35) were assessed in three different phases by thioflavin T (ThT) fluorescence assay and confocal microscopic analysis. The conformational changes in the aggregated A<i>β</i> fibrils in the presence and absence of MERM and catechin were analysed by Fourier transform infrared (FTIR), transmission electron microscopy (TEM) and CD spectroscopy. <b>Results:</b> Results of ThT and confocal microscopic studies showed decrease in fluorescence intensity in MERM and catechin-treated groups illustrating that both MERM and catechin effectively inhibited fibril aggregation as well as destabilized preformed A<i>β</i> fibril. TEM revealed that MERM incubated samples were virtually devoid of structured fibrils but had an amorphous-like consistency, whereas the control contained structured fibrils of various width and length. FTIR analysis showed decrease in absorbance at 1630 cm<sup>−1</sup> (amide I region) in MERM-treated groups substantiating the results of ThT assay. Circular dichroism data indicate that catechin prevents the formation of <i>β</i>-structured aggregates of A<i>β</i> peptide. <b>Conclusion:</b> Results suggest that MERM and catechin might have direct interaction with A<i>β</i> peptide preventing its fibrillation.
DOI: 10.6084/m9.figshare.4047393.v1
title: Reference

description: Windpower, turbine controls, and 3D time-averaged flow field quantities<br>
DOI: 10.7910/dvn/v1rjpf/yp4mxl
title: blc20160326_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4047384.v1
title: <i>In vitro</i> antiaggregation and deaggregation potential of <i>Rhizophora mucronata</i> and its bioactive compound (+)- catechin against Alzheimer’s beta amyloid peptide (25–35)

description: <b>Objective:</b> Amyloid hypothesis states that endogenous <i>β</i>-amyloid peptides (A<i>β</i>), especially its aggregated oligomers and fibrils are the key pathogenic factors leading to Alzheimer’s disease (AD). Therefore, inhibition of A<i>β</i> fibrillation rather than blocking its production is considered promising therapeutic intervention. Hence, the present study was carried out to assess the effect of methanolic leaf extract of <i>R. mucronata</i> (MERM) and its bioactive compound catechin on <i>in vitro</i> fibrillation of A<i>β</i> (25–35). <b>Methodology:</b> Antiaggregation and disaggregation effect by MERM and (+)- catechin against A<i>β</i> (25–35) were assessed in three different phases by thioflavin T (ThT) fluorescence assay and confocal microscopic analysis. The conformational changes in the aggregated A<i>β</i> fibrils in the presence and absence of MERM and catechin were analysed by Fourier transform infrared (FTIR), transmission electron microscopy (TEM) and CD spectroscopy. <b>Results:</b> Results of ThT and confocal microscopic studies showed decrease in fluorescence intensity in MERM and catechin-treated groups illustrating that both MERM and catechin effectively inhibited fibril aggregation as well as destabilized preformed A<i>β</i> fibril. TEM revealed that MERM incubated samples were virtually devoid of structured fibrils but had an amorphous-like consistency, whereas the control contained structured fibrils of various width and length. FTIR analysis showed decrease in absorbance at 1630 cm<sup>−1</sup> (amide I region) in MERM-treated groups substantiating the results of ThT assay. Circular dichroism data indicate that catechin prevents the formation of <i>β</i>-structured aggregates of A<i>β</i> peptide. <b>Conclusion:</b> Results suggest that MERM and catechin might have direct interaction with A<i>β</i> peptide preventing its fibrillation.
DOI: 10.6084/m9.figshare.4047393.v3
title: Reference case

description: Windpower, turbine controls, and 3D time-averaged flow field quantities for reference case with turbine thrust coefficient equal to 2.<br><br>3D time-averaged flow fields can be loaded using Python script load_BLfieldstat.py<br><br>Data accompanying research paper<br>W. Munters, J. Meyers, "An optimal control framework for dynamic induction control of wind farms and their interaction with the atmospheric boundary layer", Phil Trans R Soc A (under review)<br><br>
DOI: 10.6084/m9.figshare.4047378
title: Supplementary Material for: Esophageal Cancer Specific Risk Score Is Associated with Postoperative Complications Following Open Ivor-Lewis Esophagectomy for Adenocarcinoma

description: <br><strong><em>Background/Aims:</em></strong> Surgery for esophageal cancer is associated with a high morbidity and mortality. With this study, we investigated if a validated preoperative risk score correlates with overall morbidity, mortality, anastomotic insufficiency, respiratory complications and with the severity of complications after open Ivor-Lewis esophagectomy. <b><i>Methods:</i></b> A total of 94 patients undergoing esophageal resection for adenocarcinoma between 2005 and 2009 were included. Patients were assigned using the preoperative risk score according to Schröder et al. [Langenbecks Arch Surg 2006;391:455-460] and the Dindo classification regarding the severity of complications. <b><i>Results:</i></b> Of all the patients, 12% had a ‘normal', 54% a ‘moderateʼ and 34% a ‘high' preoperative risk score. Postoperative complications occurred in 79%. Furthermore, 36 or 21 or 14 or 7% of patients experienced complications of category I/II or III or IV or V, respectively. There was a significant association between preoperative risk score and overall morbidity (p = 0.010), mortality (p = 0.035) and anastomotic insufficiency (p = 0.023). Furthermore, higher preoperative risk score was significant related to increasing severity of postoperative complications (grade IV according to the Dindo classification: p = 0.018, Dindo grade V: p = 0.035). Neoadjuvant therapy consisting of cisplatin and 5-fluorouracil had no influence. <b><i>Conclusion:</i></b> As we demonstrated, a significant association between preoperative risk score and occurrence and severity of postoperative complications after open Ivor-Lewis esophagectomy, standardized, organ-specific pre- and postoperative categorizations might be useful for individual clinical decision making in this group of patients.
DOI: 10.7910/dvn/v1rjpf/kjrfgg
title: blc20160318_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4047378.v1
title: Supplementary Material for: Esophageal Cancer Specific Risk Score Is Associated with Postoperative Complications Following Open Ivor-Lewis Esophagectomy for Adenocarcinoma

description: <br><strong><em>Background/Aims:</em></strong> Surgery for esophageal cancer is associated with a high morbidity and mortality. With this study, we investigated if a validated preoperative risk score correlates with overall morbidity, mortality, anastomotic insufficiency, respiratory complications and with the severity of complications after open Ivor-Lewis esophagectomy. <b><i>Methods:</i></b> A total of 94 patients undergoing esophageal resection for adenocarcinoma between 2005 and 2009 were included. Patients were assigned using the preoperative risk score according to Schröder et al. [Langenbecks Arch Surg 2006;391:455-460] and the Dindo classification regarding the severity of complications. <b><i>Results:</i></b> Of all the patients, 12% had a ‘normal', 54% a ‘moderateʼ and 34% a ‘high' preoperative risk score. Postoperative complications occurred in 79%. Furthermore, 36 or 21 or 14 or 7% of patients experienced complications of category I/II or III or IV or V, respectively. There was a significant association between preoperative risk score and overall morbidity (p = 0.010), mortality (p = 0.035) and anastomotic insufficiency (p = 0.023). Furthermore, higher preoperative risk score was significant related to increasing severity of postoperative complications (grade IV according to the Dindo classification: p = 0.018, Dindo grade V: p = 0.035). Neoadjuvant therapy consisting of cisplatin and 5-fluorouracil had no influence. <b><i>Conclusion:</i></b> As we demonstrated, a significant association between preoperative risk score and occurrence and severity of postoperative complications after open Ivor-Lewis esophagectomy, standardized, organ-specific pre- and postoperative categorizations might be useful for individual clinical decision making in this group of patients.
DOI: 10.6084/m9.figshare.4047393.v2
title: Reference case

description: Windpower, turbine controls, and 3D time-averaged flow field quantities for reference case with turbine thrust coefficient equal to 2.<br><br>3D time-averaged flow fields can be loaded using Python script load_BLfieldstat.py<br><br>Data accompanying research paper<br>W. Munters, J. Meyers, "An optimal control framework for dynamic induction control of wind farms and their interaction with the atmospheric boundary layer", Phil Trans R Soc A (under review)<br><br>
DOI: 10.7910/dvn/v1rjpf/uncgga
title: blc20160107_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4047372
title: Supplementary Material for: Analysis of Pediatric Pancreatitis (APPLE Trial): Pre-Study Protocol of a Multinational Prospective Clinical Trial

description: <br><strong><em>Background:</em></strong> Single-centered studies show increased number of acute pancreatitis (AP) in children. Here, the Pediatric Section of the Hungarian Pancreatic Study Group introduces an international observational clinical trial (APPLE) to collect a critical mass of clinical data and biomedical research samples in a uniform prospective manner. <b><i>Summary:</i></b> The APPLE-R is for patients under 18 years of age with a history of pancreatitis. The study primarily provides information on possible genetic variants behind the disease and their impact on the prognosis. The APPLE-P is for patients under 18 years of age with a diagnosis of AP. Children with AP diagnosed based on the fulfillment of ‘2 out of 3' of the Atlanta criteria will be selected. This subtrial requests detailed information from the medical history, etiology, complains and symptoms, physical examinations, laboratory parameters, imaging, immediate therapy at admission and complications of the disease. The APPLE trial has been registered at the ISRCTN registry and has received the relevant ethical approval. The study is open for all pediatric centers throughout the world. <b><i>Key Message:</i></b> This is the first worldwide study tracking earlier (APPLE-R) and ongoing episodes (APPLE-P) of pancreatitis.
DOI: 10.7910/dvn/v1rjpf/f6912v
title: blc20160919_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/nydker
title: blc20160806_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4047357
title: Supplementary Material for: Autologous Peripheral Blood Mononuclear Cells as Treatment in Refractory Acute Respiratory Distress Syndrome

description: <br><strong><em>Background:</em></strong> Acute respiratory distress syndrome (ARDS) is a devastating disorder. Despite enormous efforts in clinical research, effective treatment options are lacking, and mortality rates remain unacceptably high. <b><i>Objectives:</i></b> A male patient with severe ARDS showed no clinical improvement with conventional therapies. Hence, an emergent experimental intervention was performed. <b><i>Methods:</i></b> We performed intratracheal administration of autologous peripheral blood-derived mononuclear cells (PBMCs) and erythropoietin (EPO). <b><i>Results:</i></b> We found that after 2 days of initial PBMC/EPO application, lung function improved and extracorporeal membrane oxygenation (ECMO) support was reduced. Bronchoscopy and serum inflammatory markers revealed reduced inflammation. Additionally, serum concentration of miR-449a, b, c and miR-34a, a transient upregulation of E-cadherin and associated chromatin marks in PBMCs indicated airway epithelial differentiation. Extracellular vesicles from PBMCs demonstrated anti-inflammatory capacity in a TNF-a-mediated nuclear factor-κB in vitro assay. Despite improving respiratory function, the patient died of multisystem organ failure on day 38 of ECMO treatment. <b><i>Conclusions:</i></b> This case report provides initial encouraging evidence to use locally instilled PBMC/EPO for treatment of severe refractory ARDS. The observed clinical improvement may partially be due to the anti-inflammatory effects of PBMC/EPO to promote tissue regeneration. Further studies are needed for more in-depth understanding of the underlying mechanisms of in vivo regeneration.
DOI: 10.6084/m9.figshare.4047357.v1
title: Supplementary Material for: Autologous Peripheral Blood Mononuclear Cells as Treatment in Refractory Acute Respiratory Distress Syndrome

description: <br><strong><em>Background:</em></strong> Acute respiratory distress syndrome (ARDS) is a devastating disorder. Despite enormous efforts in clinical research, effective treatment options are lacking, and mortality rates remain unacceptably high. <b><i>Objectives:</i></b> A male patient with severe ARDS showed no clinical improvement with conventional therapies. Hence, an emergent experimental intervention was performed. <b><i>Methods:</i></b> We performed intratracheal administration of autologous peripheral blood-derived mononuclear cells (PBMCs) and erythropoietin (EPO). <b><i>Results:</i></b> We found that after 2 days of initial PBMC/EPO application, lung function improved and extracorporeal membrane oxygenation (ECMO) support was reduced. Bronchoscopy and serum inflammatory markers revealed reduced inflammation. Additionally, serum concentration of miR-449a, b, c and miR-34a, a transient upregulation of E-cadherin and associated chromatin marks in PBMCs indicated airway epithelial differentiation. Extracellular vesicles from PBMCs demonstrated anti-inflammatory capacity in a TNF-a-mediated nuclear factor-κB in vitro assay. Despite improving respiratory function, the patient died of multisystem organ failure on day 38 of ECMO treatment. <b><i>Conclusions:</i></b> This case report provides initial encouraging evidence to use locally instilled PBMC/EPO for treatment of severe refractory ARDS. The observed clinical improvement may partially be due to the anti-inflammatory effects of PBMC/EPO to promote tissue regeneration. Further studies are needed for more in-depth understanding of the underlying mechanisms of in vivo regeneration.
DOI: 10.7910/dvn/v1rjpf/aauowr
title: blc20160622_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4047318
title: Supplementary Material for: Individual and Complementary Effects of Human Papillomavirus Oncogenes on Epithelial Cell Proliferation and Differentiation

description: Previous studies on human papillomavirus (HPV) type 16 protein functions have established the oncogenic nature of three viral proteins: E5, E6 and E7. Here we have studied the functions of these proteins by functional deletion of the individual E5, E6 or E7, or both E6 and E7 oncogenes in the context of the whole viral genome. These mutants, or the intact wild-type genome, were expressed from the natural viral promoters along with differentiation of epithelial HaCaT cells in three-dimensional collagen raft cultures. High episomal viral copy numbers were obtained using a transfection-based loxp-HPV16-eGFP-N1 vector system. All epithelial equivalents carrying the different HPV type 16 genomes showed pronounced hyperplastic and dysplastic morphology. Particularly the E7 oncogene, with contribution of E6, was shown to enhance cell proliferation. Specifically, the crucial role of E7 in HPV-associated hyperproliferation was clearly manifested. Based on morphological characteristics, immunohistochemical staining for differentiation and proliferation markers, and low expression of E1^E4, we propose that our raft culture models produce cervical intraepithelial neoplasia (CIN)1 and CIN2-like tissue. Our experimental setting provides an alternative tool to study concerted functions of HPV proteins in the development of epithelial dysplasia.
DOI: 10.7910/dvn/v1rjpf/1sadbn
title: blc20161010_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4047303
title: Supplementary Material for: Inhibitory Effects of Antidepressants on Acetylcholine-Induced Contractions in Isolated Guinea Pig Urinary Bladder Smooth Muscle

description: <strong><em>Background/Aims:</em></strong> To investigate the potential inhibitory effects of 18 clinically available antidepressants on acetylcholine (ACh)-induced contractions in guinea pig urinary bladder smooth muscle (UBSM) in order to predict whether they may induce voiding impairment. <b><i>Methods:</i></b> Concentration-response curves for ACh-induced contractions in guinea pig UBSM strips were obtained in the absence or presence of selected antidepressants. When inhibitory effects indicated competitive antagonism, pA<sub>2</sub> values against ACh were calculated and compared to plausible antidepressant blood concentrations. <b><i>Results:</i></b> ACh-induced contraction was antagonized competitively within clinical dose ranges by tricyclic antidepressants (imipramine, amitriptyline, trimipramine, clomipramine, nortriptyline, and amoxapine), maprotiline (a tetracyclic antidepressant), and mirtazapine (a noradrenergic and specific serotonergic antidepressant). ACh-induced contraction was also significantly inhibited by mianserin (a tetracyclic antidepressant), paroxetine and sertraline (serotonin-selective reuptake inhibitors, SSRIs), and duloxetine (a serotonin noradrenaline (norepinephrine) reuptake inhibitor, SNRI), albeit at concentrations that substantially exceeded clinically achievable blood levels. However, ACh-induced contractions were not significantly affected by fluvoxamine and escitalopram (SSRIs), milnacipran (an SNRI), trazodone (a serotonin 5-HT<sub>2A</sub> receptor antagonist), sulpiride (a dopamine D<sub>2</sub> receptor antagonist), or aripiprazole (a dopamine partial agonist). <b><i>Conclusion:</i></b> These findings suggest that in addition to tricyclics, some relatively novel antidepressants such as mirtazapine can induce voiding impairment, attributed to diminished UBSM contractility from the inhibition of muscarinic receptors in the UBSM.
DOI: 10.6084/m9.figshare.4047315
title: RCUK open access block grant allocation 2013-18

description: Compilation of RCUK open access block grant allocations for five years, 2013/14 to 2017/18.* These funds were distributed to UK research institutions in order to pay article processing charges (APCs) to make RCUK-funded research outputs open access. The dataset includes figures for the amount provided to each eligible institution in each year. For year five (2017/18), the payments began to be made by RCUK every six months, so an additional sheet in the dataset shows the breadown into twice-yearly payments.<br><br>* Updated 23 April to include the fifth year (2017/18)<br>
DOI: 10.7910/dvn/v1rjpf/qiufjy
title: blc20160602_03.txt.gz

description: :unav
DOI: 10.7910/dvn/v1rjpf/2ternj
title: blc20160615_03.txt.gz

description: :unav
DOI: 10.6084/m9.figshare.4047315.v1
title: RCUK open access block grant allocation 2013-17

description: Compilation of RCUK open access block grant allocations for four years, 2012/13 to 2016/17. These funds were distributed to UK research institutions in order to pay article processing charges (APCs) to make RCUK-funded research outputs open access.<br>
DOI: 10.7910/dvn/v1rjpf/zn00dm
title: blc20161027_03.txt.gz

description: :unav