cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.7789466.v1
title: Simulation Trajectories: "Graded activation and free energy landscapes of a muscarinic G-protein–coupled receptor"

description: * Simulations described in the following paper:Miao Y & McCammon JA (2016) Graded activation and free energy landscapes of a muscarinic G-protein–coupled receptor. Proc Natl Acad Sci U S A, 113(43):12162–12167. PMCID: PMC5087018.<br>* Simulation lengths: system 4mqs-apo-pro-mem-wb-0.15MID 1 2 3duration(ns) 410 460 430<br>system 3uon-apo-c36-pro-mem-wb-0.15MID 1 2 3duration(ns) 400 400 400<br>system 3uon-c36-pro-mem-wb-0.15MID 1 2 3duration(ns) 405 405 400<br>system 4mqs-nb-arc-pro-mem-wb-0.15MID 1 2 3duration(ns) 402 405 400<br>system 4mqs-nb-ixo-pro-mem-wb-0.15MID 1 3 2duration(ns) 500 400 500<br>system 4mqs-arc-pro-mem-wb-0.15MID 1 2 3 4 5 6 7 8 9 10duration(ns) 2030 1520 1190 650 650 650 620 600 600 540<br>system 4mqs-ixo-pro-mem-wb-0.15MID 1 2 3 4 5 6 7 8 9 10duration(ns) 1050 1000 940 500 500 500 500 480 450 410<br>* List of simulation trajectores:3uon-c36-pro-mem-wb-0.15M-sim-1.nc3uon-c36-pro-mem-wb-0.15M-sim-2.nc3uon-c36-pro-mem-wb-0.15M-sim-3.nc4mqs-arc-pro-mem-wb-0.15M-sim-1.nc4mqs-arc-pro-mem-wb-0.15M-sim-2.nc4mqs-arc-pro-mem-wb-0.15M-sim-3.nc4mqs-arc-pro-mem-wb-0.15M-sim-4.nc4mqs-arc-pro-mem-wb-0.15M-sim-5.nc4mqs-arc-pro-mem-wb-0.15M-sim-6.nc4mqs-arc-pro-mem-wb-0.15M-sim-7.nc4mqs-arc-pro-mem-wb-0.15M-sim-8.nc4mqs-arc-pro-mem-wb-0.15M-sim-9.nc4mqs-arc-pro-mem-wb-0.15M-sim-10.nc4mqs-ixo-pro-mem-wb-0.15M-sim-1.nc4mqs-ixo-pro-mem-wb-0.15M-sim-2.nc4mqs-ixo-pro-mem-wb-0.15M-sim-3.nc4mqs-ixo-pro-mem-wb-0.15M-sim-4.nc4mqs-ixo-pro-mem-wb-0.15M-sim-5.nc4mqs-ixo-pro-mem-wb-0.15M-sim-6.nc4mqs-ixo-pro-mem-wb-0.15M-sim-7.nc4mqs-ixo-pro-mem-wb-0.15M-sim-8.nc4mqs-ixo-pro-mem-wb-0.15M-sim-9.nc4mqs-ixo-pro-mem-wb-0.15M-sim-10.nc4mqs-nb-arc-pro-mem-wb-0.15M-sim-1.nc4mqs-nb-arc-pro-mem-wb-0.15M-sim-2.nc4mqs-nb-arc-pro-mem-wb-0.15M-sim-3.nc4mqs-nb-ixo-pro-mem-wb-0.15M-sim-1.nc4mqs-nb-ixo-pro-mem-wb-0.15M-sim-2.nc4mqs-nb-ixo-pro-mem-wb-0.15M-sim-3.nc<br>stride: 100 ps / frame<br>* PSF/PDB files for loading the trajectories:3uon-apo-c36-pro-mem-wb-0.15M-pro.pdb3uon-apo-c36-pro-mem-wb-0.15M-pro.psf3uon-c36-pro-mem-wb-0.15M-pro.pdb3uon-c36-pro-mem-wb-0.15M-pro.psf4mqs-apo-pro-mem-wb-0.15M-pro.pdb4mqs-apo-pro-mem-wb-0.15M-pro.psf4mqs-arc-pro-mem-wb-0.15M-pro.pdb4mqs-arc-pro-mem-wb-0.15M-pro.psf4mqs-ixo-pro-mem-wb-0.15M-pro.pdb4mqs-ixo-pro-mem-wb-0.15M-pro.psf4mqs-nb-arc-pro-mem-wb-0.15M-pro.pdb4mqs-nb-arc-pro-mem-wb-0.15M-pro.psf4mqs-nb-ixo-pro-mem-wb-0.15M-pro.pdb4mqs-nb-ixo-pro-mem-wb-0.15M-pro.psf<br>
DOI: 10.6084/m9.figshare.7789250
title: Data base.xlsx

description: Database
DOI: 10.6084/m9.figshare.7789250.v1
title: Data base.xlsx

description: Database
DOI: 10.6084/m9.figshare.7789220
title: How Do You Motivate Citizen Scientists to Dive with Sharks?

description: "Given the current level of Galeophobia, or fear of sharks, that’s an excellent question. Most people will leave the water immediately if they think a shark is in the area. Oddly, the greatest number of those who fear sharks seem to come from those who rarely, if ever, go into the ocean—so, clearly, this is a primal fear, much like snakes or spiders."
DOI: 10.6084/m9.figshare.7789220.v1
title: How Do You Motivate Citizen Scientists to Dive with Sharks?

description: "Given the current level of Galeophobia, or fear of sharks, that’s an excellent question. Most people will leave the water immediately if they think a shark is in the area. Oddly, the greatest number of those who fear sharks seem to come from those who rarely, if ever, go into the ocean—so, clearly, this is a primal fear, much like snakes or spiders."
DOI: 10.6084/m9.figshare.7786547
title: 2013 Ash Meadows 18S data

description: Mapping file and raw data associated with 2013 18S MiSeq sequencing run. Environmental samples collected from Ash Meadows National Wildlife Refuge, Nevada.<br>
DOI: 10.6084/m9.figshare.7789133.v1
title: 2015 Ash Meadows 18S data

description: Mapping file and raw data associated with 2015 18S MiSeq sequencing run. Environmental samples collected from Ash Meadows National Wildlife Refuge, Nevada.
DOI: 10.6084/m9.figshare.7786547.v2
title: 2013 Ash Meadows 18S data

description: Mapping file and raw data associated with 2013 18S MiSeq sequencing run. Environmental samples collected from Ash Meadows National Wildlife Refuge, Nevada.<br>
DOI: 10.6084/m9.figshare.7786547.v1
title: mapping_18s_2013.csv

description: Mapping file associated with 2013 18S sequencing run.<br>
DOI: 10.6084/m9.figshare.7786205
title: Kamoun et al. Nature Biomedical Engineering "Antitumor activity and tolerability of an EphA2-targeted nanotherapeutic in multiple mouse models" Data share

description: A data share to support figures presented in the Nature Biomedical Engineering paper, written by WS Kamoun et.al., entitled, ""Antitumor activity and tolerability of an EphA2-targeted nanotherapeutic in multiple mouse models."
DOI: 10.6084/m9.figshare.7786334
title: GHCND observed Precip and Temp

description: Observed precipitation and temperature - climate forcing inputs for SWAT model calibration and validation periods.
DOI: 10.6084/m9.figshare.7786205.v1
title: Kamoun et al. Nature Biomedical Engineering "Antitumor activity and tolerability of an EphA2-targeted nanotherapeutic in multiple mouse models" Data share

description: A data share to support figures presented in the Nature Biomedical Engineering paper, written by WS Kamoun et.al., entitled, ""Antitumor activity and tolerability of an EphA2-targeted nanotherapeutic in multiple mouse models."
DOI: 10.6084/m9.figshare.7786202
title: Online_Data_Vikas Sharma_D12090.zip

description: PhD Thesis Online Data (Vikas Sharma, D12090)
DOI: 10.6084/m9.figshare.7786334.v1
title: GHCND observed Precip and Temp

description: Observed precipitation and temperature - climate forcing inputs for SWAT model calibration and validation periods.
DOI: 10.6084/m9.figshare.7786202.v1
title: Online_Data_Vikas Sharma_D12090.zip

description: PhD Thesis Online Data (Vikas Sharma, D12090)
DOI: 10.6084/m9.figshare.7785476
title: Salient Region Detection through Salient and Non-salient Dictionaries

description: We assess our SRD model on four different standard datasets that are: 1) ASD [1], 2) 3ECSSD [2], 3) DUT-OMRON [3], 4) SED2 [4].<br><br>[1] Achanta, R.; Hemami, S.; Estrada, F.; Susstrunk, S., ”Frequency-tuned salient region detection,” in Computer Vision and Pattern Recognition, 2009. CVPR 2009. IEEE Conference on , vol., no., pp.1597-1604, 20-25 June, 2009. doi: 10.1109/CVPR.2009.5206596. <br>[2] Qiong Yan, Li Xu, Jianping Shi, Jiaya Jia, Hierarchical SRD, in: 2013 IEEE Conference on Computer Vision and Pattern Recognition (CVPR), 2328 June, 2013, pp. 11551162. doi:http://dx.doi.org/10.1109/CVPR.2013. 153.[3]Chuan Yang; Lihe Zhang; Huchuan Lu; Xiang Ruan; Ming-Hsuan Yang, ”SRD via Graph-Based Manifold Ranking,” in Computer Vision and Pattern Recognition (CVPR), 2013 IEEE Conference on , vol., no., pp.3166-3173, 23-28, June, 2013. doi: 10.1109/CVPR.2013.407<br> [4] Alpert, S.; Galun, M.; Basri, R.; Brandt, A., Image Segmentation by Probabilistic Bottom-Up Aggregation and Cue Integration, Computer Vision and Pattern Recognition, 2007. CVPR 07. IEEE Conference on , vol., no., pp.1,8, 17-22 June, 72007. doi: 10.1109/CVPR.2007.383017. <br><br>
DOI: 10.6084/m9.figshare.7785611
title: Metagenomic Bins from Stamps et. al 2018

description: Metagenomic bins from 10.1128/AEM.01171-18, Metabolic Capability and Phylogenetic Diversity of Mono Lake during a Bloom of the Eukaryotic Phototroph Picocystis sp. Strain ML. <br>Bin identification and summary statistics can be found within the manuscript in Supplemental Table S3. <br>Eukaryotic bins within this dataset are appended with "Euk_" to differentiate them from the Bacterial or Archaeal bins in the dataset, but are otherwise identical to those in supplemental table S3.
DOI: 10.6084/m9.figshare.7785455
title: SOL Experiment Data

description: SOL-Experiment-Data Overview<br>The SOL-Experiment-Data dataset presents the data acquired from the execution of the SOL-Experiments project. The SOL-Experiments case studies include queries from music (Band and Musical Artists) and movies (Film) domain. The experiments uses SOL-Engine framework to query DBpedia, retrieving not only the query results but also related data found by serendipity.<br>The experiment consisted of the following steps:(1-a) Retrieving a list of 10,000 entities of selected types (Band, Musical Artists and Film) from DBpedia SPARQL endpoint.(1-b) Submitting each entity to SOL-Engine in order to locate related content based on SOL-Engine serendipity patterns set (Music Influenced Analogy, Generic Hierarchy Analogy, SeeAlso Surprizing Observation, Music Association Surprizing Observation, SameAs Surprizing Observation, Different From Inversion). Each serendipity pattern is considered alone. One last configuration is used to combine all the serendipity patterns together.(2) The related content is compared to its source entity according to a dissimilarity metric that observes the retrieved labels. This analysis is used to value unexpectedness.(3) The unexpectedness score of each serendipity pattern is computed as the average of unexpectedness of each entity processed.<br>The data is compressed in .zip format and can be uncompressed by standard compression utilities. The dataset contains raw data (.json).<br>The underlying data and code can be accessed through standard text edit software.<br>Maintainability Plan<br>The SOL-Experiment-Data dataset is result of the following projects: SOL-Engine framework and SOL-Experiments. This way, as the cited projects evolve, the SOL-Experiment-Data dataset is going to be update in order to reflect the projects modification.<br>Additionally, there are plans to expand the dataset to include other queries, and therefore, to retrieve different entities set. This dataset update is planned to be conducted every semester. This will enable the dataset to incrementally grow with diverse scenarios.
DOI: 10.6084/m9.figshare.7785434
title: Ae. albopictus Model from The UK’s suitability for <i>Aedes albopictus</i> in current and future climates

description: Folder containing Octave scripts plus a small example for test runs.
DOI: 10.6084/m9.figshare.7785455.v1
title: SOL Experiment Data

description: SOL-Experiment-Data Overview<br>The SOL-Experiment-Data dataset presents the data acquired from the execution of the SOL-Experiments project. The SOL-Experiments case studies include queries from music (Band and Musical Artists) and movies (Film) domain. The experiments uses SOL-Engine framework to query DBpedia, retrieving not only the query results but also related data found by serendipity.<br>The experiment consisted of the following steps:(1-a) Retrieving a list of 10,000 entities of selected types (Band, Musical Artists and Film) from DBpedia SPARQL endpoint.(1-b) Submitting each entity to SOL-Engine in order to locate related content based on SOL-Engine serendipity patterns set (Music Influenced Analogy, Generic Hierarchy Analogy, SeeAlso Surprizing Observation, Music Association Surprizing Observation, SameAs Surprizing Observation, Different From Inversion). Each serendipity pattern is considered alone. One last configuration is used to combine all the serendipity patterns together.(2) The related content is compared to its source entity according to a dissimilarity metric that observes the retrieved labels. This analysis is used to value unexpectedness.(3) The unexpectedness score of each serendipity pattern is computed as the average of unexpectedness of each entity processed.<br>The data is compressed in .zip format and can be uncompressed by standard compression utilities. The dataset contains raw data (.json).<br>The underlying data and code can be accessed through standard text edit software.<br>Maintainability Plan<br>The SOL-Experiment-Data dataset is result of the following projects: SOL-Engine framework and SOL-Experiments. This way, as the cited projects evolve, the SOL-Experiment-Data dataset is going to be update in order to reflect the projects modification.<br>Additionally, there are plans to expand the dataset to include other queries, and therefore, to retrieve different entities set. This dataset update is planned to be conducted every semester. This will enable the dataset to incrementally grow with diverse scenarios.
DOI: 10.6084/m9.figshare.7785434.v1
title: Ae. albopictus Model from The UK’s suitability for <i>Aedes albopictus</i> in current and future climates

description: Folder containing Octave scripts plus a small example for test runs.
DOI: 10.6084/m9.figshare.7785299
title: meta data

description: Meta data for Tokyo Skytree sequences.
DOI: 10.6084/m9.figshare.7785299.v1
title: meta data

description: Meta data for Tokyo Skytree sequences.
DOI: 10.6084/m9.figshare.7785101
title: Spirometry

description: Pulmonary function equations for Jordanians
DOI: 10.6084/m9.figshare.7785092
title: Stats data of "Enabling text search on SPARQL-endpoints through OSCAR"

description: Datasets of the charts integrated inside the "Enabling text search on SPARQL-endpoints through OSCAR" paper
DOI: 10.6084/m9.figshare.7784495
title: Data1.xlsxEffect of Ultrashort Wave Diathermy on Joint Dysfunction and Disuse Muscle Atrophy in a Rabbit Model of Extending Knee Joint Contracture Enhanced Expression of MyoD

description: Effect of Ultrashort Wave Diathermy on Joint Dysfunction and Disuse Muscle Atrophy in a Rabbit Model of Extending Knee Joint Contracture: Enhanced Expression of MyoD <b>Effect of Ultrashort Wave Diathermy on Joint Dysfunction and Disuse Muscle Atrophy in a Rabbit Model of Extending Knee Joint Contracture: Enhanced Expression of MyoD</b><b></b>
DOI: 10.6084/m9.figshare.7784495.v1
title: Data1.xlsxEffect of Ultrashort Wave Diathermy on Joint Dysfunction and Disuse Muscle Atrophy in a Rabbit Model of Extending Knee Joint Contracture Enhanced Expression of MyoD

description: Effect of Ultrashort Wave Diathermy on Joint Dysfunction and Disuse Muscle Atrophy in a Rabbit Model of Extending Knee Joint Contracture: Enhanced Expression of MyoD <b>Effect of Ultrashort Wave Diathermy on Joint Dysfunction and Disuse Muscle Atrophy in a Rabbit Model of Extending Knee Joint Contracture: Enhanced Expression of MyoD</b><b></b>
DOI: 10.6084/m9.figshare.7784435
title: Raw Data from No evidence of tactile distance anisotropy on the belly

description: The perceived distance between two touches has been found to be larger for pairs of stimuli oriented across the width of the body than along the length of the body, for several body parts. Nevertheless, the magnitude of such biases varies from place to place, suggesting systematically different distortions of tactile space across the body. Several recent studies have investigated perceived tactile distance on the belly as an implicit measure of body perception in clinical conditions including anorexia nervosa and obesity. In this study, we investigated whether there is an anisotropy of perceived tactile distance on the belly in a sample of adult women. Participants made verbal estimates of the perceived distance between pairs of touches oriented either across body width or along body length on the belly and the dorsum of the left hand. Consistent with previous results, a large anisotropy was apparent on the hand, with across stimuli perceived as larger than along stimuli. In contrast, no such bias was apparent on the belly. These results provide further evidence that anisotropies of perceived tactile distance vary systematically across the body and suggest that there is no anisotropy at all on the belly in healthy women.
DOI: 10.6084/m9.figshare.7784435.v1
title: Raw Data from No evidence of tactile distance anisotropy on the belly

description: The perceived distance between two touches has been found to be larger for pairs of stimuli oriented across the width of the body than along the length of the body, for several body parts. Nevertheless, the magnitude of such biases varies from place to place, suggesting systematically different distortions of tactile space across the body. Several recent studies have investigated perceived tactile distance on the belly as an implicit measure of body perception in clinical conditions including anorexia nervosa and obesity. In this study, we investigated whether there is an anisotropy of perceived tactile distance on the belly in a sample of adult women. Participants made verbal estimates of the perceived distance between pairs of touches oriented either across body width or along body length on the belly and the dorsum of the left hand. Consistent with previous results, a large anisotropy was apparent on the hand, with across stimuli perceived as larger than along stimuli. In contrast, no such bias was apparent on the belly. These results provide further evidence that anisotropies of perceived tactile distance vary systematically across the body and suggest that there is no anisotropy at all on the belly in healthy women.
DOI: 10.6084/m9.figshare.7784018
title: Supplementary Material for: Temporal Trends in Incident Mortality in Dialysis Patients: Focus on Sex and Racial Disparities

description: <b><i>Background:</i></b> Racial minorities and women constitute substantial portions of the incident and prevalent end-stage renal disease (ESRD) population in the United States. Although ESRD is characterized by high mortality, temporal trends, and race and sex differences in mortality have not been studied. <b><i>Methods:</i></b> We evaluated 944,650 adult patients who initiated dialysis between January 1, 2005 and December 31, 2014, using the United States Renal Data System, for sex-related and race-related trends in mortality. Logistic regression models adjusted for pre-dialysis health status were used to examine associations among the predictors’ sex, race, and year of incident dialysis, and the outcome all-cause mortality at 1-year post ESRD. <b><i>Results:</i></b> The mean age was 65 ± 14 years. The 1-year crude mortality rates in incident ESRD patients decreased by 28% from 2004 to 2015. Risk-adjusted 1-year mortality decreased by 3% for each later year of incident ESRD (<i>p </i>&lt; 0.001). In general, from 2005 to 2014, mortality rates decreased across both sexes, and all races. White patients experienced the lowest reduction in adjusted 1-year mortality rates (16%). While women experienced a survival advantage over men in 2005, by 2014 it was reversed to survival advantage for men. Combining all years, the adjusted risk of dying at 1-year after initiating dialysis was lower in women than men (OR 0.98; 95% CI 0.97–0.99), and as compared to whites, was lower in blacks (OR 0.73; 95% CI ­0.72–0.74), Hispanics (OR 0.64; 95% CI 0.63–0.65), Asians (OR 0.55; 95% CI 0.53–0.56), and Native Americans (OR 0.67; 95% CI 0.63–0.71). <b><i>Conclusion:</i></b> The 1-year mortality rates among patients with ESRD have decreased steadily during a recent 10-year period across both men and women, and in all 5 races. Women have only a 2% lower risk of dying at 1-year after dialysis initiation than men. White patients had higher mortality as compared to other races. Our results suggest the need for sex, and race-specific treatment strategies in ESRD care.
DOI: 10.6084/m9.figshare.7784018.v1
title: Supplementary Material for: Temporal Trends in Incident Mortality in Dialysis Patients: Focus on Sex and Racial Disparities

description: <b><i>Background:</i></b> Racial minorities and women constitute substantial portions of the incident and prevalent end-stage renal disease (ESRD) population in the United States. Although ESRD is characterized by high mortality, temporal trends, and race and sex differences in mortality have not been studied. <b><i>Methods:</i></b> We evaluated 944,650 adult patients who initiated dialysis between January 1, 2005 and December 31, 2014, using the United States Renal Data System, for sex-related and race-related trends in mortality. Logistic regression models adjusted for pre-dialysis health status were used to examine associations among the predictors’ sex, race, and year of incident dialysis, and the outcome all-cause mortality at 1-year post ESRD. <b><i>Results:</i></b> The mean age was 65 ± 14 years. The 1-year crude mortality rates in incident ESRD patients decreased by 28% from 2004 to 2015. Risk-adjusted 1-year mortality decreased by 3% for each later year of incident ESRD (<i>p </i>&lt; 0.001). In general, from 2005 to 2014, mortality rates decreased across both sexes, and all races. White patients experienced the lowest reduction in adjusted 1-year mortality rates (16%). While women experienced a survival advantage over men in 2005, by 2014 it was reversed to survival advantage for men. Combining all years, the adjusted risk of dying at 1-year after initiating dialysis was lower in women than men (OR 0.98; 95% CI 0.97–0.99), and as compared to whites, was lower in blacks (OR 0.73; 95% CI ­0.72–0.74), Hispanics (OR 0.64; 95% CI 0.63–0.65), Asians (OR 0.55; 95% CI 0.53–0.56), and Native Americans (OR 0.67; 95% CI 0.63–0.71). <b><i>Conclusion:</i></b> The 1-year mortality rates among patients with ESRD have decreased steadily during a recent 10-year period across both men and women, and in all 5 races. Women have only a 2% lower risk of dying at 1-year after dialysis initiation than men. White patients had higher mortality as compared to other races. Our results suggest the need for sex, and race-specific treatment strategies in ESRD care.
DOI: 10.6084/m9.figshare.7783991
title: ColPortal_miRNA_rawData

description: Metadata for joining raw from Human miRNA Microarray Kit (V3), 8x15K (Agilent) with clinical cases<br>
DOI: 10.6084/m9.figshare.7783982
title: Supplementary Material for: Quality of Life in Adolescent Boys with Idiopathic Short Stature: Positive Impact of Growth Hormone and Aromatase Inhibitors

description: <b><i>Background:</i></b> The combination of growth hormone (GH) and aromatase inhibitors (AI) improves linear growth in severely short adolescent boys; however, the effects of this intervention on quality of life (QoL) are unknown. This study assesses whether GH, AI, or their combination impacts the QoL of adolescent males with idiopathic short stature (ISS) from both the adolescent and the parent perspective. <b><i>Method:</i></b> A randomized open-label comparator trial was conducted in 76 pubertal males with ISS who received AI, GH, or AI/GH for 24 months. The condition-specific Quality of Life in Short Stature Youth questionnaire was used to assess QoL. <b><i>Results:</i></b> QoL scores were low at baseline in the children’s and parents’ reports. Within-group testing showed that total QoL scores increased significantly at 24 months in the GH and AI/GH group but not the AI group in the children’s report, whereas it increased in all of the groups in the parents’ report. Increases in QoL scores were associated with an increase in height SDS. <b><i>Conclusions:</i></b> Treatment with GH and AI/GH was associated with improved QoL scores as measured from both the patients’ and the parents’ perspectives, suggesting that the improved growth resulting from the use of these growth-promoting therapies has beneficial psychosocial effects in adolescent males with ISS followed for 24 months.