cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5977024
title: Supplementary Material for: Antidepressant Use by Class: Association with Major Adverse Cardiac Events in Patients with Coronary Artery Disease

description: <b><i>Background:</i></b> To assess use of antidepressants by class in relation to cardiology practice recommendations, and the association of antidepressant use with the occurrence of major adverse cardiovascular events (MACE) including death. <b><i>Methods:</i></b> This is a historical cohort study of all patients who completed cardiac rehabilitation (CR) between 2002 and 2012 in a major CR center. Participants completed the Patient Health Questionnaire (PHQ-9) at the start and end of the program. A linkage system enabled ascertainment of antidepressant use and MACE through 2014. <b><i>Results:</i></b> There were 1,694 CR participants, 1,266 (74.7%) of whom completed the PHQ-9 after the program. Depressive symptoms decreased significantly from pre- (4.98 ± 5.20) to postprogram (3.57 ± 4.43) (<i>p</i> &lt; 0.001). Overall, 433 (34.2%) participants were on antidepressants, most often selective serotonin reuptake inhibitors (SSRI; <i>n</i> = 299; 23.6%). The proportion of days covered was approximately 70% for all 4 major antidepressant classes; discontinuation rates ranged from 37.3% for tricyclics to 53.2% for serotonin-norepinephrine reuptake inhibitors (SNRI). Antidepressant use was significantly associated with lower depressive symptoms after CR (before, 7.33 ± 5.94 vs. after, 4.69 ± 4.87; <i>p</i> &lt; 0.001). After a median follow-up of 4.7 years, 264 (20.9%) participants had a MACE. After propensity matching based on pre-CR depressive symptoms among other variables, participants taking tricyclics had significantly more MACE than those not taking tricyclics (HR = 2.46; 95% CI 1.37–4.42), as well as those taking atypicals versus not (HR = 1.59; 95% CI 1.05–2.41) and those on SSRI (HR = 1.45; 95% CI 1.07–1.97). There was no increased risk with use of SNRI (HR = 0.89; 95% CI 0.43–1.82). <b><i>Conclusion:</i></b> The use of antidepressants was associated with lower depression, but the use of all antidepressants except SNRI was associated with more adverse events.
DOI: 10.6084/m9.figshare.5976988
title: Sun et al., (2018)-figure9.zip

description: Figure and Data for JGR submission
DOI: 10.6084/m9.figshare.5976988.v1
title: figure9.zip

description: Figure and Data for JGR submission
DOI: 10.6084/m9.figshare.5976973
title: Supplementary Material for: A Phase I/Randomized Phase II Study to Evaluate the Safety, Pharmacokinetics, and Efficacy of Nintedanib versus Sorafenib in Asian Patients with Advanced Hepatocellular Carcinoma

description: <b><i>Background:</i></b> Nintedanib is an oral, triple angiokinase inhibitor of vascular endothelial growth factor/platelet-derived growth factor/fibroblast growth factor receptors. This randomized, multicenter, open-label, phase I/II study evaluated the safety, pharmacokinetics, maximum tolerated dose (MTD) in terms of dose-limiting toxicities (DLTs), and efficacy of nintedanib versus sorafenib in Asian patients with unresectable advanced hepatocellular carcinoma (HCC). <b><i>Patients and Methods:</i></b> For the phase I portion, patients were stratified into two groups according to their alanine aminotransferase/aspartate aminotransferase (ALT/AST) and Child-Pugh score at baseline. For phase I, the primary endpoint was determination of the MTD in terms of DLTs. For phase II, patients with a Child-Pugh score of 5–6, an Eastern Cooperative Oncology Group performance score ≤2, and an ALT/AST ≤2× the upper limit of normal were enrolled and randomized 2: 1 to nintedanib 200 mg twice daily (b.i.d.) (the MTD determined in phase I) or sorafenib 400 mg b.i.d. continuously in 28-day cycles until intolerable adverse events (AEs) or disease progression (PD); treatment beyond PD was allowed if clinical benefit was perceived. The primary endpoint for phase II was time to progression (TTP) by central independent review (CIR; by Response Evaluation Criteria in Solid Tumors v1.0); the secondary endpoints included overall survival (OS). All analyses were exploratory. <b><i>Results:</i></b> The MTD was 200 mg in both groups. For phase II, 95 patients were randomized to nintedanib (<i>n</i> = 63) or sorafenib (<i>n</i> = 32). For nintedanib and sorafenib, respectively, the median CIR TTP was 2.8 vs. 3.7 months (hazard ratio [HR] = 1.21, 95% confidence interval [CI] 0.73–2.01) and the median OS 10.2 vs. 10.7 months (HR = 0.94, 95% CI 0.59–1.49). Nintedanib-treated patients had fewer grade 3 or higher AEs (56 vs. 84%), serious AEs (46 vs. 56%), and AEs leading to dose reduction (19 vs. 59%) and drug discontinuation (24 vs. 34%). AEs associated more frequently with nintedanib were vomiting and nausea, whereas those associated more frequently with sorafenib were ALT/AST increases, diarrhea, rash, and palmar-plantar erythrodysesthesia syndrome. <b><i>Conclusions:</i></b> Nintedanib showed numerically similar efficacy to sorafenib for CIR TTP and OS in Asian patients with advanced HCC and adequate liver function. AEs were generally manageable.
DOI: 10.6084/m9.figshare.5976970
title: Sun et al., (2018)-figure7&8.zip

description: Figure and Data for JGR submission
DOI: 10.6084/m9.figshare.5976970.v1
title: figure7&8.zip

description: Figure and Data for JGR submission
DOI: 10.6084/m9.figshare.5976964
title: Sun et al., (2018)-figure6.zip

description: Figure and Data for JGR submission
DOI: 10.6084/m9.figshare.5976964.v1
title: figure6.zip

description: Figure and Data for JGR submission
DOI: 10.6084/m9.figshare.5976952
title: Sun et al., (2018)-figure5.zip

description: Figure and Data for JGR submission
DOI: 10.6084/m9.figshare.5976952.v1
title: figure5.zip

description: Figure and Data for JGR submission
DOI: 10.6084/m9.figshare.5976946
title: Sun et al., (2018)-figure4.zip

description: Figure and Data for JGR submission
DOI: 10.6084/m9.figshare.5976946.v1
title: figure4.zip

description: Figure and Data for JGR submission
DOI: 10.6084/m9.figshare.5976940
title: Supplementary Material for: Pretreatment Cardiac Vagal Tone Predicts Dropout from and Residual Symptoms after Exposure Therapy in Patients with Panic Disorder and Agoraphobia

description: Medicine
DOI: 10.6084/m9.figshare.5976916
title: Sun et al., (2018)-figure2&3.zip

description: Figure and Data for JGR submission
DOI: 10.6084/m9.figshare.5976916.v1
title: JGR submission

description: data for JGR
DOI: 10.6084/m9.figshare.5976916.v3
title: figure2&3.zip

description: Figure and Data for JGR submission
DOI: 10.6084/m9.figshare.5976916.v2
title: abc

description: data for JGR
DOI: 10.6084/m9.figshare.5976907
title: Sun et al., (2018)-figure1.zip

description: Figure and Data for JGR submission<br>
DOI: 10.6084/m9.figshare.5976907.v1
title: figure1.zip

description: Figure and Data for JGR submission<br>
DOI: 10.6084/m9.figshare.5976871
title: The plasma interleukin-6 response to acute psychosocial stress in humans is detected by a magnetic multiplex assay: comparison to high-sensitivity ELISA

description: Circulating concentrations of interleukin (IL)-6, an inflammatory biomarker widely assessed in humans to study the inflammatory response to acute psychological stress, have for decades been quantified using enzyme-linked immunosorbent assay (ELISA). However, biobehavioral researchers are increasingly using cytokine multiplex assays instead of ELISA to measure IL-6 and other cytokines. Despite this trend, multiplex assays have not been directly compared to ELISA for their ability to detect subtle stress-induced changes of IL-6. Here, we tested the prediction that a high-sensitivity multiplex assay (human Magnetic Luminex Performance Assay, R&D Systems, Minneapolis, MN) would detect changes in IL-6 as a result of acute stress challenge in a manner comparable to high-sensitivity ELISA. Blood was collected from 12 healthy adults immediately before and then 90 and 210 min after the start of the Trier Social Stress Test (TSST), an acute laboratory psychosocial stress challenge. In addition to quantifying IL-6 concentrations in plasma with both multiplex and ELISA, we also assessed concentrations of tumor necrosis factor-alpha, IL-8, IL-10, IL-5, and IL-2 with multiplex. The multiplex detected IL-6 in all samples. Concentrations strongly correlated with values determined by ELISA across all samples (<i>r</i> = 0.941, <i>p</i> r<sub>s</sub><i><sub> </sub></i>= 0.937, <i>p</i>
DOI: 10.6084/m9.figshare.5976871.v2
title: The plasma interleukin-6 response to acute psychosocial stress in humans is detected by a magnetic multiplex assay: comparison to high-sensitivity ELISA

description: Circulating concentrations of interleukin (IL)-6, an inflammatory biomarker widely assessed in humans to study the inflammatory response to acute psychological stress, have for decades been quantified using enzyme-linked immunosorbent assay (ELISA). However, biobehavioral researchers are increasingly using cytokine multiplex assays instead of ELISA to measure IL-6 and other cytokines. Despite this trend, multiplex assays have not been directly compared to ELISA for their ability to detect subtle stress-induced changes of IL-6. Here, we tested the prediction that a high-sensitivity multiplex assay (human Magnetic Luminex Performance Assay, R&D Systems, Minneapolis, MN) would detect changes in IL-6 as a result of acute stress challenge in a manner comparable to high-sensitivity ELISA. Blood was collected from 12 healthy adults immediately before and then 90 and 210 min after the start of the Trier Social Stress Test (TSST), an acute laboratory psychosocial stress challenge. In addition to quantifying IL-6 concentrations in plasma with both multiplex and ELISA, we also assessed concentrations of tumor necrosis factor-alpha, IL-8, IL-10, IL-5, and IL-2 with multiplex. The multiplex detected IL-6 in all samples. Concentrations strongly correlated with values determined by ELISA across all samples (<i>r</i> = 0.941, <i>p</i> r<sub>s</sub><i><sub> </sub></i>= 0.937, <i>p</i>
DOI: 10.6084/m9.figshare.5976868
title: Movie of the Lorenz system

description: About the movie:<br>Left panel:<br> The round red fiducial point and the x-marked black perturbed points <br> move according to the Lorenz system.<br> Right panel:<br> The round red points are the eigenvalues of DF at the fiducial point.<br> The x-marked blue points are the eigenvalues of (DF + DF^T)/2, where DF^T is the transpose of DF.<br><br>The Lorenz system: <br> du/dt = F(u),where u = (x,y,z),F = <br> [<br> [-sigma * x + sigma * y],<br> [-sigma * x - y - x * z],<br> [-b * z + x * y - b * (r + sigma)]<br> ].<br>
DOI: 10.6084/m9.figshare.5976724
title: Screening of potential lead molecules against prioritised targets of multi-drug-resistant-<i>Acinetobacter baumannii</i> – insights from molecular docking, molecular dynamic simulations and <i>in vitro</i> assays

description: <i>Acinetobacter baumannii</i>, an opportunistic pathogen, has become multi-drug resistant (MDR) to major classes of antibacterial and poses grave threat to public health. The current study focused to screen novel phytotherapeutics against prioritised targets of <i>Acinetobacter baumannii</i> by computational investigation. Fourteen potential drug targets were screened based on their functional role in various biosynthetic pathways and the 3D structures of 9 targets were retrieved from Protein Data Bank and others were computationally predicted. By extensive literature survey, 104 molecules from 48 herbal sources were screened and subjected to virtual screening. Ten clinical isolates of <i>A. baumannii</i> were tested for antibiotic susceptibility towards clinafloxacin, imipenem and polymyxin-E. Computational screening suggested that Ajmalicine ((19α)-16, 17-didehydro-19-methyloxayohimban-16-carboxylic acid methyl ester from <i>Rauwolfia serpentina</i>), Strictamin (Akuammilan-17-oic acid methyl ester from <i>Alstonia scholaris</i>) and Limonin (7, 16-dioxo-7, 16-dideoxylimondiol from <i>Citrus sps</i>) exhibited promising binding towards multiple drug targets of <i>A. baumannii</i> in comparison with the binding between standard drugs and their targets. Limonin displayed promising binding potential (binding energy −9.8 kcal/mol) towards diaminopimelate epimerase (DapF) and UDP-N-acetylglucosamine 1-carboxyvinyltransferase (MurA). Ajmalicine and Strictamin demonstrated good binding potential (−9.5, −8.5 kcal/mol, respectively) towards MurA and shikimate dehydrogenase (−7.8 kcal/mol). Molecular dynamic simulations further validated the docking results. <i>In vitro</i> assay suggested that the tested isolates exhibited resistance to clinafloxacin, imipenem and polymyxin-E and the herbal preparations (crude extract) demonstrated a significant antibacterial potential (<i>p</i> ≤ .05). The study suggests that the aforementioned lead candidates and targets can be used for structure-based drug screening towards MDR <i>A. baumannii</i>.
DOI: 10.6084/m9.figshare.5976724.v2
title: Screening of potential lead molecules against prioritised targets of multi-drug-resistant-<i>Acinetobacter baumannii</i> – insights from molecular docking, molecular dynamic simulations and <i>in vitro</i> assays

description: <i>Acinetobacter baumannii</i>, an opportunistic pathogen, has become multi-drug resistant (MDR) to major classes of antibacterial and poses grave threat to public health. The current study focused to screen novel phytotherapeutics against prioritised targets of <i>Acinetobacter baumannii</i> by computational investigation. Fourteen potential drug targets were screened based on their functional role in various biosynthetic pathways and the 3D structures of 9 targets were retrieved from Protein Data Bank and others were computationally predicted. By extensive literature survey, 104 molecules from 48 herbal sources were screened and subjected to virtual screening. Ten clinical isolates of <i>A. baumannii</i> were tested for antibiotic susceptibility towards clinafloxacin, imipenem and polymyxin-E. Computational screening suggested that Ajmalicine ((19α)-16, 17-didehydro-19-methyloxayohimban-16-carboxylic acid methyl ester from <i>Rauwolfia serpentina</i>), Strictamin (Akuammilan-17-oic acid methyl ester from <i>Alstonia scholaris</i>) and Limonin (7, 16-dioxo-7, 16-dideoxylimondiol from <i>Citrus sps</i>) exhibited promising binding towards multiple drug targets of <i>A. baumannii</i> in comparison with the binding between standard drugs and their targets. Limonin displayed promising binding potential (binding energy −9.8 kcal/mol) towards diaminopimelate epimerase (DapF) and UDP-N-acetylglucosamine 1-carboxyvinyltransferase (MurA). Ajmalicine and Strictamin demonstrated good binding potential (−9.5, −8.5 kcal/mol, respectively) towards MurA and shikimate dehydrogenase (−7.8 kcal/mol). Molecular dynamic simulations further validated the docking results. <i>In vitro</i> assay suggested that the tested isolates exhibited resistance to clinafloxacin, imipenem and polymyxin-E and the herbal preparations (crude extract) demonstrated a significant antibacterial potential (<i>p</i> ≤ .05). The study suggests that the aforementioned lead candidates and targets can be used for structure-based drug screening towards MDR <i>A. baumannii</i>.
DOI: 10.6084/m9.figshare.5976643
title: In vivo imaging of Ca2+ responses in C.elegans.

description: These are the data of In vivo imaging of Ca<sup>2+</sup> responses in C.elegans. (a) GCaMP6f Ca<sup>2+</sup> response to isoamylalcohol in AWC<sup>ON</sup>. (b) IP2.0 Ca<sup>2+</sup> response to isoamylalcohol in AWC<sup>ON</sup>. (c) Dula-colour of IP2.0 and RCaMP2.0 responses to change of NaCl concentration. These data ware used in the study Hara-Kuge et al. (2018).
DOI: 10.6084/m9.figshare.5976637
title: Mesoproterozoic rift sedimentation, fluid events and uranium prospectivity in the Cariewerloo Basin, Gawler Craton, South Australia

description: The Cariewerloo Basin formed in the Mesoproterozoic following assembly of the Gawler Craton, South Australia, and was filled by arenaceous redbeds of the Pandurra Formation. While previous regional-scale work reveals a basin with similar size and sedimentary fill to the Proterozoic Athabasca and Kombolgie basins that host unconformity-related uranium deposits, few details of the Cariewerloo Basin are known. In this study, stratigraphy, petrography, lithogeochemistry, stable isotope geochemistry and <sup>40</sup>Ar/<sup>39</sup>Ar geochronology are integrated to clarify the depositional history of the Pandurra Formation, and to assess fluid events in the basin that could be linked to the formation of uranium deposits. In the study area, the Pandurra Formation was deposited in two eastward-thickening packages that terminate at faulted basement uplifts, interpreted as half-grabens that formed in a continental rift system as the eastern Gawler Craton underwent extension. Deposition occurred between 1575 Ma (latest Hiltaba Suite age) and <i>ca</i> 1490 Ma, the <sup>40</sup>Ar/<sup>39</sup>Ar age of diagenetic illite in the basal Pandurra. Diagenesis involving fluids having δ<sup>18</sup>O and δ<sup>2</sup>H values between –2.1 and 3.6‰, and between –66 and –8‰, respectively, occurred at around 150°C. Protracted diagenesis preferentially occurred in the upper Pandurra Formation based on petrography and Pearce Element Ratios that show complete replacement of detrital lithic and feldspathic grains by diagenetic phyllosilicates, and younger <sup>40</sup>Ar/<sup>39</sup>Ar ages between <i>ca</i> 1330 and 1200 Ma that record fluid events later into basin history. Conversely, the basal Pandurra Formation shows better preservation of detrital grains, and older <sup>40</sup>Ar/<sup>39</sup>Ar ages around 1450 Ma that suggest these strata became closed to fluid flow earlier in basin history. Although, based on O-isotope ratios, fluid–rock interaction did not occur in the Cariewerloo Basin to the same extent as that in the Athabasca or Kombolgie basins, it is possible that a uranium deposit formed where the upper Pandurra Formation was in contact with metasedimentary basement units outside the present basin margins.
DOI: 10.6084/m9.figshare.5976637.v1
title: Mesoproterozoic rift sedimentation, fluid events and uranium prospectivity in the Cariewerloo Basin, Gawler Craton, South Australia

description: The Cariewerloo Basin formed in the Mesoproterozoic following assembly of the Gawler Craton, South Australia, and was filled by arenaceous redbeds of the Pandurra Formation. While previous regional-scale work reveals a basin with similar size and sedimentary fill to the Proterozoic Athabasca and Kombolgie basins that host unconformity-related uranium deposits, few details of the Cariewerloo Basin are known. In this study, stratigraphy, petrography, lithogeochemistry, stable isotope geochemistry and <sup>40</sup>Ar/<sup>39</sup>Ar geochronology are integrated to clarify the depositional history of the Pandurra Formation, and to assess fluid events in the basin that could be linked to the formation of uranium deposits. In the study area, the Pandurra Formation was deposited in two eastward-thickening packages that terminate at faulted basement uplifts, interpreted as half-grabens that formed in a continental rift system as the eastern Gawler Craton underwent extension. Deposition occurred between 1575 Ma (latest Hiltaba Suite age) and <i>ca</i> 1490 Ma, the <sup>40</sup>Ar/<sup>39</sup>Ar age of diagenetic illite in the basal Pandurra. Diagenesis involving fluids having δ<sup>18</sup>O and δ<sup>2</sup>H values between –2.1 and 3.6‰, and between –66 and –8‰, respectively, occurred at around 150°C. Protracted diagenesis preferentially occurred in the upper Pandurra Formation based on petrography and Pearce Element Ratios that show complete replacement of detrital lithic and feldspathic grains by diagenetic phyllosilicates, and younger <sup>40</sup>Ar/<sup>39</sup>Ar ages between <i>ca</i> 1330 and 1200 Ma that record fluid events later into basin history. Conversely, the basal Pandurra Formation shows better preservation of detrital grains, and older <sup>40</sup>Ar/<sup>39</sup>Ar ages around 1450 Ma that suggest these strata became closed to fluid flow earlier in basin history. Although, based on O-isotope ratios, fluid–rock interaction did not occur in the Cariewerloo Basin to the same extent as that in the Athabasca or Kombolgie basins, it is possible that a uranium deposit formed where the upper Pandurra Formation was in contact with metasedimentary basement units outside the present basin margins.
DOI: 10.6084/m9.figshare.5976634
title: Concentration dependency of IAA on IP2.0 Ca2+ responses in AWCON.

description: This is the data of concentration dependency of IAA on IP2.0 Ca<sup>2+</sup> responses in AWC<sup>ON</sup>, which was used in the study Hara-Kuge et al. (2018) as a supporting information.
DOI: 10.6084/m9.figshare.5976631
title: Babloo Presentation

description: ,fluorine ,perfluorocycloalkenes ,perfluorocyclohexene ,perfluorocyclopentene ,step-growth polymerization ,condensation ,fluoropolymers ,dielectric constant ,superhydrophbicity ,oleophobicity ,self-cleaning ,electro-optics ,dsc ,tga ,nmr<br>
DOI: 10.6084/m9.figshare.5976619
title: In vivo imaging of Ca2+ responses in C.elegans.

description: These are the data of <i>in vivo</i> imaging of Ca<sup>2+</sup> responses in <i>C.elegans. </i> (a) GCaMP6f Ca<sup>2+</sup> response to isoamylalcohol in AWC<sup>ON</sup>. (b) IP2.0 Ca<sup>2+</sup> response to isoamylalcohol in AWC<sup>ON</sup>. (c) Dual-colour of RCaMP2.0 and IP2.0 Ca<sup>2+</sup> response to isoamylalcohol in AWC<sup>ON</sup>. (d) IP2.0 Ca<sup>2+</sup> response to change of NaCl concentration in ASEL. These data were used in the study Hara-Kuge et al. (2018).
DOI: 10.6084/m9.figshare.5976610
title: Representative Ca2+ imaging in HeLa cells transfected with inverse-pericam and IP2.0.

description: This is the data of representative Ca2+ imaging in HeLa cells transfected with inverse-pericam and IP2.0, which was used in the study Hara-Kuge et al. (2018).
DOI: 10.6084/m9.figshare.5976505
title: Additional file 5: of Transcriptome analysis of pig intestinal cell monolayers infected with Cryptosporidium parvum asexual stages

description: Table S3. Pathway analysis of genes upregulated in uninfected monolayers. (XLSX 17 kb)
DOI: 10.6084/m9.figshare.5976499
title: Additional file 4: of Possible association between androgenic alopecia and risk of prostate cancer and testicular germ cell tumor: a systematic review and meta-analysis

description: Excel S1. Extracted raw data in the meta-analysis. (XLSX 16Â kb)
DOI: 10.6084/m9.figshare.5976499.v1
title: Additional file 4: of Possible association between androgenic alopecia and risk of prostate cancer and testicular germ cell tumor: a systematic review and meta-analysis

description: Excel S1. Extracted raw data in the meta-analysis. (XLSX 16Â kb)
DOI: 10.6084/m9.figshare.5976487
title: Additional file 4: of Transcriptome analysis of pig intestinal cell monolayers infected with Cryptosporidium parvum asexual stages

description: Table S2. KEGG pathways significantly enriched in C. parvum infected cell monolayers. (XLSX 15 kb)
DOI: 10.6084/m9.figshare.5976487.v1
title: Additional file 4: of Transcriptome analysis of pig intestinal cell monolayers infected with Cryptosporidium parvum asexual stages

description: Table S2. KEGG pathways significantly enriched in C. parvum infected cell monolayers. (XLSX 15 kb)
DOI: 10.6084/m9.figshare.5976469
title: Additional file 3: of Transcriptome analysis of pig intestinal cell monolayers infected with Cryptosporidium parvum asexual stages

description: Table S1. Host cell genes differentially expressed at a FDR &lt; 0.05. (XLSX 92 kb)
DOI: 10.6084/m9.figshare.5976469.v1
title: Additional file 3: of Transcriptome analysis of pig intestinal cell monolayers infected with Cryptosporidium parvum asexual stages

description: Table S1. Host cell genes differentially expressed at a FDR &lt; 0.05. (XLSX 92 kb)