cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.11865924
title: Supplementary Material for: Rolle der 24-Stunden-Augeninnendruckmessung in der Glaukombehandlung

description: Das Glaukom ist weltweit die häufigste Ursache für irreversible Erblindung, und die Prävalenz steigt. Grundpfeiler der Behandlung ist die Senkung des Augeninnendrucks (Intraokulardruck, IOD). Derzeit basiert das IOD-Monitoring auf punktuellen Messungen in der Praxis. Bei bis zu 50% der Glaukompatienten war der initiale IOD jedoch normal, während einige behandelte Patienten trotz niedrigem IOD progrediente glaukomatöse Sehnervschädigungen aufwiesen. Kürzlich veröffentlichte Studien zeigten, dass der IOD von Glaukompatienten im Tagesverlauf mit unterschiedlichen Mustern fluktuiert, und bei einigen traten die IOD-Peaks außerhalb der Praxiszeiten auf. Diese Ergebnisse brachten neue Erkenntnisse über die Rolle der 24-Stunden-IOD-Messung in der Behandlung des Normaldruckglaukoms und von Patienten mit progredienter Verschlechterung trotz scheinbar gut kontrolliertem IOD. Allerdings sind die bislang vorliegenden Ergebnisse recht uneinheitlich, und es besteht noch kein Konsens. In der vorliegenden Übersichtsarbeit werden die derzeitigen Modalitäten der 24-Stunden-IOD-Messung kurz erläutert und das charakteristische 24-Stunden-IOD-Profil sowie die klinische Bedeutung der IOD-Parameter für die Vorhersage der Glaukomprogression bei verschiedenen Glaukom-Subtypen zusammengefasst. Darüber hinaus wird die Wirksamkeit der derzeitigen Therapiemodalitäten zur Glaukombehandlung in Bezug auf die beschriebenen 24-Stunden-IOD-Profile erörtert. Ziel ist es, die Rolle der 24-Stunden-IOD-Messung bei der Ermittlung und Stratifizierung des Progressionsrisikos von Glaukompatienten zu stärken und die Therapie entsprechend den IOD-Profilen weiter zu verbessern.
DOI: 10.6084/m9.figshare.11865969.v1
title: Shrimp sequences and accession numbers for Korzik et al 2020

description: Sequences and GenBank accession numbers for all samples used in the analysis for:<br><br>Korzik, Morgan L., Hannah M. Austin, Brittany Cooper, Caroline Jasperse, Grace Tan, Emilie Richards, Erin T. Spencer, Blaire Steinwand, F. Joel Fodrie, John F. Bruno. 2020. Marketplace Shrimp Mislabeling in North Carolina. PLOS ONE In press <br>GenBank Batch number is MT072698:MT072786[accn]<br>
DOI: 10.6084/m9.figshare.11865924.v1
title: Supplementary Material for: Rolle der 24-Stunden-Augeninnendruckmessung in der Glaukombehandlung

description: Das Glaukom ist weltweit die häufigste Ursache für irreversible Erblindung, und die Prävalenz steigt. Grundpfeiler der Behandlung ist die Senkung des Augeninnendrucks (Intraokulardruck, IOD). Derzeit basiert das IOD-Monitoring auf punktuellen Messungen in der Praxis. Bei bis zu 50% der Glaukompatienten war der initiale IOD jedoch normal, während einige behandelte Patienten trotz niedrigem IOD progrediente glaukomatöse Sehnervschädigungen aufwiesen. Kürzlich veröffentlichte Studien zeigten, dass der IOD von Glaukompatienten im Tagesverlauf mit unterschiedlichen Mustern fluktuiert, und bei einigen traten die IOD-Peaks außerhalb der Praxiszeiten auf. Diese Ergebnisse brachten neue Erkenntnisse über die Rolle der 24-Stunden-IOD-Messung in der Behandlung des Normaldruckglaukoms und von Patienten mit progredienter Verschlechterung trotz scheinbar gut kontrolliertem IOD. Allerdings sind die bislang vorliegenden Ergebnisse recht uneinheitlich, und es besteht noch kein Konsens. In der vorliegenden Übersichtsarbeit werden die derzeitigen Modalitäten der 24-Stunden-IOD-Messung kurz erläutert und das charakteristische 24-Stunden-IOD-Profil sowie die klinische Bedeutung der IOD-Parameter für die Vorhersage der Glaukomprogression bei verschiedenen Glaukom-Subtypen zusammengefasst. Darüber hinaus wird die Wirksamkeit der derzeitigen Therapiemodalitäten zur Glaukombehandlung in Bezug auf die beschriebenen 24-Stunden-IOD-Profile erörtert. Ziel ist es, die Rolle der 24-Stunden-IOD-Messung bei der Ermittlung und Stratifizierung des Progressionsrisikos von Glaukompatienten zu stärken und die Therapie entsprechend den IOD-Profilen weiter zu verbessern.
DOI: 10.6084/m9.figshare.11865915
title: visda-train0411.npz

description: Precomputed features for Visda
DOI: 10.6084/m9.figshare.11865897
title: Electronic Suppl. Table 4.1.xlsx

description: <b>Electronic Suppl. Table 4.1</b> Summary statistics for the 16 382 DArT-seq loci for 56 TRFCA tea samples
DOI: 10.6084/m9.figshare.11865915.v2
title: visda-train0411.npz

description: Precomputed features for Visda
DOI: 10.6084/m9.figshare.11865930.v1
title: data.xls

description: Korean Social life, Health and Aging Project (KSHAP) data analyzed in "All-cause mortality and three types of social relationships: results from an eight-year follow-up of older adults in one entire Korean village"
DOI: 10.6084/m9.figshare.11865897.v1
title: Electronic Suppl. Table 4.1.xlsx

description: <b>Electronic Suppl. Table 4.1</b> Summary statistics for the 16 382 DArT-seq loci for 56 TRFCA tea samples
DOI: 10.6084/m9.figshare.11865915.v1
title: visda-train0411.npz

description: Precomputed features for Visda
DOI: 10.6084/m9.figshare.11865861
title: Supplementary Material for: Psychometric Evaluation of the German Version of the Dietary Fat and Free Sugar-Short Questionnaire

description: Background: The Dietary Fat and Free Sugar-Short Questionnaire (DFS) is a cost- and timeefficient self-report screening instrument to estimate dietary intake of saturated fat and free sugar. To date, only the English version has been psychometrically evaluated. We assessed the psychometric characteristics of the German version of the DFS in individuals with normal weight, overweight, and obesity. Method: Sixty-five adult participants completed a German translation of the DFS and a validated food frequency questionnaire (FFQ). We correlated participants’ percentage of energy intake from saturated fat and free sugar from the FFQ with the DFS scores. To establish test-retest reliability, participants completed the DFS a second time. To investigate convergent validity, we correlated participants’ DFS scores with self-reported eating behavior and sensitivity to reward. Results: DFS scores correlated with percentage of energy from free sugar (rs = 0.443) and saturated fatty acids (rs = 0.258) but not with non-target nutrients. The correlation between DFS scores and percentage energy from free sugar was not moderated by body mass index (BMI), whereas the correlation with percentage energy from saturated fat slightly decreased with BMI. Intra-class correlation as an indicator of test-retest reliability was 0.801. DFS scores correlated significantly with restraint of eating behavior (rs = –0.380) and feelings of hunger (rs = 0.275). Correlations of the DFS score with disinhibited eating and sensitivity to rewards failed to be significant. Conclusion: Our data indicate that the German version of the DFS might be a psychometrically sound self-report instrument to estimate saturated fat and free sugar intake of German adults.
DOI: 10.6084/m9.figshare.11865861.v1
title: Supplementary Material for: Psychometric Evaluation of the German Version of the Dietary Fat and Free Sugar-Short Questionnaire

description: Background: The Dietary Fat and Free Sugar-Short Questionnaire (DFS) is a cost- and timeefficient self-report screening instrument to estimate dietary intake of saturated fat and free sugar. To date, only the English version has been psychometrically evaluated. We assessed the psychometric characteristics of the German version of the DFS in individuals with normal weight, overweight, and obesity. Method: Sixty-five adult participants completed a German translation of the DFS and a validated food frequency questionnaire (FFQ). We correlated participants’ percentage of energy intake from saturated fat and free sugar from the FFQ with the DFS scores. To establish test-retest reliability, participants completed the DFS a second time. To investigate convergent validity, we correlated participants’ DFS scores with self-reported eating behavior and sensitivity to reward. Results: DFS scores correlated with percentage of energy from free sugar (rs = 0.443) and saturated fatty acids (rs = 0.258) but not with non-target nutrients. The correlation between DFS scores and percentage energy from free sugar was not moderated by body mass index (BMI), whereas the correlation with percentage energy from saturated fat slightly decreased with BMI. Intra-class correlation as an indicator of test-retest reliability was 0.801. DFS scores correlated significantly with restraint of eating behavior (rs = –0.380) and feelings of hunger (rs = 0.275). Correlations of the DFS score with disinhibited eating and sensitivity to rewards failed to be significant. Conclusion: Our data indicate that the German version of the DFS might be a psychometrically sound self-report instrument to estimate saturated fat and free sugar intake of German adults.
DOI: 10.6084/m9.figshare.11865825
title: Supplementary Material for: Oral Pharmacological Activation of Hypothalamic Guanylate Cyclase 2C Receptor Stimulates Brown Fat Thermogenesis to Reduce Body Weight

description: Linaclotide is a synthetic peptide approved by the FDA for the treatment of constipation-predominant irritable bowel syndrome and chronic constipation. Linaclotide binds and activates the transmembrane receptor guanylate cyclase 2C (<i>Gucy2c</i>). Uroguanylin (UGN) is a 16 amino acid peptide that is mainly secreted by enterochromaffin cells in the duodenum and proximal small intestine. UGN is the endogenous ligand of <i>Gucy2c</i> and decreases body weight in diet-induced obese (DIO) mice via the activation of the thermogenic program in brown adipose tissue. Therefore, we wanted to evaluate whether oral linaclotide could also improve DIO mice metabolic phenotype. In this study, we have demonstrated that DIO mice orally treated with linaclotide exhibited a significant reduction of body weight without modifying food intake. Linaclotide exerts its actions through the central nervous system, and more specifically, via <i>Gucy2c</i> receptors located in the mediobasal hypothalamus, leading to the activation of the sympathetic nervous system to trigger the thermogenic activity of brown fat stimulating energy expenditure. These findings indicate for first time that, in addition to its effects at intestinal level to treat irritable bowel syndrome with constipation and chronic constipation, linaclotide also exerts a beneficial effect in whole body metabolism.
DOI: 10.6084/m9.figshare.11865831.v1
title: data.xls

description: Korean Social life, Health and Aging project (KSHAP) data analyzed in "All-cause mortality and three types of social relationships: results from an eight-year follow-up of older adults in one entire Korean village"
DOI: 10.6084/m9.figshare.11865831.v2
title: data.xls

description: Korean Social life, Health and Aging project (KSHAP) data analyzed in "All-cause mortality and three types of social relationships: results from an eight-year follow-up of older adults in one entire Korean village"
DOI: 10.6084/m9.figshare.11865723
title: HSC.bw

description: HSC.bw
DOI: 10.6084/m9.figshare.11865726
title: MPP.bw

description: MPP cell
DOI: 10.6084/m9.figshare.11865729
title: MEP.bw

description: MEP cell
DOI: 10.6084/m9.figshare.11865723.v1
title: HSC.bw

description: HSC.bw
DOI: 10.6084/m9.figshare.11865726.v1
title: MPP.bw

description: MPP cell
DOI: 10.6084/m9.figshare.11865708
title: CMP.bw

description: cmp cell
DOI: 10.6084/m9.figshare.11865729.v1
title: MEP.bw

description: MEP cell
DOI: 10.6084/m9.figshare.11865711
title: GMP.bw

description: GMP cell
DOI: 10.6084/m9.figshare.11865711.v1
title: GMP.bw

description: GMP cell
DOI: 10.6084/m9.figshare.11865699
title: Supplementary Material for: Gene Signature for Sorafenib Susceptibility in Hepatocellular Carcinoma: Different Approach with a Predictive Biomarker

description: <b><i>Background/Aim:</i></b> Uniform treatment of hepatocellular carcinoma (HCC) with molecular targeted drugs (e.g., sorafenib) results in a poor overall tumor response when tumor subtyping is absent. Patient stratification based on actionable gene expression is a method that can potentially improve the effectiveness of these drugs. Here we aimed to identify the clinical application of actionable genes in predicting response to sorafenib. <b><i>Methods:</i></b> Through quantitative real-time reverse transcription PCR, we analyzed the expression levels of seven actionable genes (<i>VEGFR2</i>, <i>PDGFRB</i>, <i>c-KIT</i>, <i>c-RAF</i>, <i>EGFR</i>, <i>mTOR</i>, and <i>FGFR1</i>) in tumors versus noncancerous tissues from 220 HCC patients treated with sorafenib. Our analysis found that 9 responders did not have unique clinical features compared to nonresponders. A receiver operating characteristic curve evaluated the predictive performance of the treatment benefit score (TBS) calculated from the actionable genes. <b><i>Results:</i></b> The responders had significantly higher TBS values than the nonresponders. With an area under the curve of 0.779, a TBS combining <i>mTOR</i> with <i>VEGFR2</i>, <i>c-KIT</i>, and <i>c-RAF</i> was the most significant predictor of response to sorafenib. When used alone, sorafenib had a 0.7–3% response rate among HCC patients, but when stratifying the patients with actionable genes, the tumor response rate rose to 15.6%. Furthermore, actionable gene expression is significantly correlated with tumor response. <b><i>Conclusions:</i></b> Our findings on patient stratification based on actionable molecular subtyping potentially provide a therapeutic strategy for improving sorafenib’s effectiveness in treating HCC.
DOI: 10.6084/m9.figshare.11865708.v1
title: CMP.bw

description: cmp cell
DOI: 10.6084/m9.figshare.11865672
title: Accuracy of the Securetec DrugWipe 6s Ketamine device in detecting acute and residual salivary ketamine following a stepwise intravenous treatment protocol

description: To evaluate the sensitivity of the Securetec DrugWipe 6 S Ketamine device in detecting salivary ketamine, we administered three fixed, increasing sub-anaesthetic doses of intravenous ketamine solution to 20 participants using an open-label, within subjects’ protocol. Results indicated, at a cut-off level of 5 ng/mL for ketamine in oral fluid, the Securetec DrugWipe 6 S Ketamine device indicated a uniformly positive result for the presence of ketamine during the acute dosing phase where corresponding mean whole blood ketamine concentrations were 0.38 mg/L (dose 1), 0.48 mg/L (dose 2) and 0.82 mg/L (dose 3), respectively. At 2-hours post treatment, the positive detection rate was 85% where corresponding mean whole blood concentrations of ketamine were 0.21 mg/L. Device detection rate reduced to 40% at 4-hours post-treatment.
DOI: 10.6084/m9.figshare.11865699.v1
title: Supplementary Material for: Gene Signature for Sorafenib Susceptibility in Hepatocellular Carcinoma: Different Approach with a Predictive Biomarker

description: <b><i>Background/Aim:</i></b> Uniform treatment of hepatocellular carcinoma (HCC) with molecular targeted drugs (e.g., sorafenib) results in a poor overall tumor response when tumor subtyping is absent. Patient stratification based on actionable gene expression is a method that can potentially improve the effectiveness of these drugs. Here we aimed to identify the clinical application of actionable genes in predicting response to sorafenib. <b><i>Methods:</i></b> Through quantitative real-time reverse transcription PCR, we analyzed the expression levels of seven actionable genes (<i>VEGFR2</i>, <i>PDGFRB</i>, <i>c-KIT</i>, <i>c-RAF</i>, <i>EGFR</i>, <i>mTOR</i>, and <i>FGFR1</i>) in tumors versus noncancerous tissues from 220 HCC patients treated with sorafenib. Our analysis found that 9 responders did not have unique clinical features compared to nonresponders. A receiver operating characteristic curve evaluated the predictive performance of the treatment benefit score (TBS) calculated from the actionable genes. <b><i>Results:</i></b> The responders had significantly higher TBS values than the nonresponders. With an area under the curve of 0.779, a TBS combining <i>mTOR</i> with <i>VEGFR2</i>, <i>c-KIT</i>, and <i>c-RAF</i> was the most significant predictor of response to sorafenib. When used alone, sorafenib had a 0.7–3% response rate among HCC patients, but when stratifying the patients with actionable genes, the tumor response rate rose to 15.6%. Furthermore, actionable gene expression is significantly correlated with tumor response. <b><i>Conclusions:</i></b> Our findings on patient stratification based on actionable molecular subtyping potentially provide a therapeutic strategy for improving sorafenib’s effectiveness in treating HCC.
DOI: 10.21942/uva.11865579
title: Multiple State Transition Path Sampling simulations of KRas, wild type and oncogenic mutant Q61L

description: This is the data and scripts to reproduce the kras data, after unpakcing all tar files. 1. Install the conda environment "kras.env" 2. pip install openpathsampling to commit 78382fce67f99f4d160c01673d5553affebb2437 (also listed in the comment at the top of kras.env)3. Make sure that you set the shell environment variables needed for the OpenMM platform you intend to use. 4. Go into the directory you want to simulate. 5. Alter the "make_engine" function in the .py file to fit your OpenMM platform, see http://docs.openmm.org/latest/userguide/library.html 5.a Point the "includeDir='/home/10166149/top" to the "top" directory in this directory 6. Call the python file with the flags "-nc init_traj.nc -snc states.nc -ts total_MC_steps" for instance to do 1000 steps for Q61L/switch1./run_tps.py -nc init_traj_S1_Q61L.nc -snc states_TPS_S1_Q61L.nc -ts 1000<br><br>
DOI: 10.6084/m9.figshare.11865603
title: Supplementary Material for: Abnormal Baseline Lab Results Rarely Lead to Treatment Modification for Patients on Isotretinoin

description: <b><i>Background:</i></b> Treatment modification and clinical course for patients initiating isotretinoin with abnormal baseline lab results is currently unknown, and no recommendations exist for monitoring this patient group. <b><i>Methods:</i></b> We performed a retrospective review of patients prescribed isotretinoin for acne from 2008 to 2016 at Brigham and Women’s and Massachusetts General Hospitals to investigate the characteristics, clinical implications, and management of patients initiating isotretinoin for acne with baseline laboratory abnormalities. <b><i>Results:</i></b> We identified a low rate (7.2%) of treatment modification, including interruption (3.6%) and early termination (3.6%), during isotretinoin therapy due to lab abnormalities for patients with baseline lab abnormalities. Abnormal baseline total cholesterol, triglyceride, and liver function tests did not predict management changes, as only 2 of 10 total treatment modifications were due to a lab result that was abnormal at baseline. Treatment modification was driven by ALT elevation not present at baseline that occurred in patients with liver comorbidities. <b><i>Conclusion:</i></b> Emphasizing relevant comorbidities, including hepatic disease or alcohol use, to inform our monitoring may be a superior predictor of abnormalities during treatment, as our work demonstrates that the value of baseline lab data prior to isotretinoin is unclear.
DOI: 10.6084/m9.figshare.11865672.v1
title: Accuracy of the Securetec DrugWipe 6s Ketamine device in detecting acute and residual salivary ketamine following a stepwise intravenous treatment protocol

description: To evaluate the sensitivity of the Securetec DrugWipe 6 S Ketamine device in detecting salivary ketamine, we administered three fixed, increasing sub-anaesthetic doses of intravenous ketamine solution to 20 participants using an open-label, within subjects’ protocol. Results indicated, at a cut-off level of 5 ng/mL for ketamine in oral fluid, the Securetec DrugWipe 6 S Ketamine device indicated a uniformly positive result for the presence of ketamine during the acute dosing phase where corresponding mean whole blood ketamine concentrations were 0.38 mg/L (dose 1), 0.48 mg/L (dose 2) and 0.82 mg/L (dose 3), respectively. At 2-hours post treatment, the positive detection rate was 85% where corresponding mean whole blood concentrations of ketamine were 0.21 mg/L. Device detection rate reduced to 40% at 4-hours post-treatment.
DOI: 10.21942/uva.11865579.v1
title: Multiple State Transition Path Sampling simulations of KRas, wild type and oncogenic mutant Q61L

description: This is the data and scripts to reproduce the kras data, after unpakcing all tar files. 1. Install the conda environment "kras.env" 2. pip install openpathsampling to commit 78382fce67f99f4d160c01673d5553affebb2437 (also listed in the comment at the top of kras.env)3. Make sure that you set the shell environment variables needed for the OpenMM platform you intend to use. 4. Go into the directory you want to simulate. 5. Alter the "make_engine" function in the .py file to fit your OpenMM platform, see http://docs.openmm.org/latest/userguide/library.html 5.a Point the "includeDir='/home/10166149/top" to the "top" directory in this directory 6. Call the python file with the flags "-nc init_traj.nc -snc states.nc -ts total_MC_steps" for instance to do 1000 steps for Q61L/switch1./run_tps.py -nc init_traj_S1_Q61L.nc -snc states_TPS_S1_Q61L.nc -ts 1000<br><br>
DOI: 10.6084/m9.figshare.11865540
title: Africadiv extract

description: This dataset is an extract from Africadiv. It provides the information required to replicate some analyses of the Data Descriptor Ploton et al., 2020, Scientific Data. doi:10.1038/s41597-020-0561-0. <br>Africadiv is a network of 1-ha forest monitoring plots spread across the moist forests of Cameroon and Gabon. In each plot, the diameter at breast height (DBH) of all trees with DBH ≥ 10 cm have been measured. All trees were identified in the field by expert botanists. Herbarium samples are conserved at the Herbarium of the Université Libre de Bruxelles (BRLU, Belgium) and the determination of the samples is frequently updated by ULB's botanists. Leaves samples were frequently collected along with herbarium samples for genetic analyses. Additional information on tree structure were collected on a subset of trees across the DBH gradient to study local tree allometry (total tree height, trunk height, crown diameter). Four soil samples per plots were collected and basic soil analyses are available. In order to facilitate the use of field plots in remote-sensing studies, a GPS point as well as laser measurements (distance, vertical & horizontal angles) were recorded every 20 m on the contour of the plot. These data are routinely collected and used by AMAP research unit (IRD) and partners (LaboSyst, Yaoundé 1 University) in the frame of their research activities on tropical forest stand structure, biomass, and remote-sensing inference of tropical forest properties. New plots are frequently added to the network. Scientific collaboration are welcomed, please get in touch with a Point of contact. <br>
DOI: 10.6084/m9.figshare.11865522
title: Electronic supplementary information from Photoinduced charge carrier dynamics in ZnSe quantum dots attached CdTe system

description: Photoinduced Charge Carrier Dynamics in ZnSe Quantum Dots Attached CdTe System
DOI: 10.6084/m9.figshare.11865522.v2
title: Electronic supplementary information from Photoinduced charge carrier dynamics in ZnSe quantum dots attached CdTe system

description: Photoinduced Charge Carrier Dynamics in ZnSe Quantum Dots Attached CdTe System