cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.6463304
title: 2017 Shanghai Vaccine Hesitancy Scale

description: This study include a Discrete Choice Experiment and a survey using the Vaccine Hesitancy Scale (as developed by the World Health Organization Strategic Advisory Group of Experts on Immunization (https://doi.org/10.1016/j.vaccine.2015.04.037).
DOI: 10.6084/m9.figshare.6463304.v1
title: 2017 Shanghai Vaccine Hesitancy Scale

description: This study include a Discrete Choice Experiment and a survey using the Vaccine Hesitancy Scale (as developed by the World Health Organization Strategic Advisory Group of Experts on Immunization (https://doi.org/10.1016/j.vaccine.2015.04.037).
DOI: 10.6084/m9.figshare.6463298
title: Primary transcriptome analysis reveals importance of IS elements for the shaping of the transcriptional landscape of <i>Bordetella pertussis</i>

description: <i>Bordetella pertussis</i> is the causative agent of whooping cough, a respiratory disease still considered as a major public health threat and for which recent re-emergence has been observed. Constant reshuffling of <i>Bordetella pertussis</i> genome organization was observed during evolution. These rearrangements are essentially mediated by Insertion Sequences (IS), a mobile genetic elements present in more than 230 copies in the genome, which are supposed to be one of the driving forces enabling the pathogen to escape from vaccine-induced immunity. Here we use high-throughput sequencing approaches (RNA-seq and differential RNA-seq), to decipher <i>Bordetella pertussis</i> transcriptome characteristics and to evaluate the impact of IS elements on transcriptome architecture. Transcriptional organization was determined by identification of transcription start sites and revealed also a large variety of non-coding RNAs including sRNAs, leaderless mRNAs or long 3′ and 5′UTR including seven riboswitches. Unusual topological organizations, such as overlapping 5′- or 3′-extremities between oppositely orientated mRNA were also unveiled. The pivotal role of IS elements in the transcriptome architecture and their effect on the transcription of neighboring genes was examined. This effect is mediated by the introduction of IS harbored promoters or by emergence of hybrid promoters. This study revealed that in addition to their impact on genome rearrangements, most of the IS also impact on the expression of their flanking genes. Furthermore, the transcripts produced by IS are strain-specific due to the strain to strain variation in IS copy number and genomic context.
DOI: 10.6084/m9.figshare.6463298.v1
title: Primary transcriptome analysis reveals importance of IS elements for the shaping of the transcriptional landscape of <i>Bordetella pertussis</i>

description: <i>Bordetella pertussis</i> is the causative agent of whooping cough, a respiratory disease still considered as a major public health threat and for which recent re-emergence has been observed. Constant reshuffling of <i>Bordetella pertussis</i> genome organization was observed during evolution. These rearrangements are essentially mediated by Insertion Sequences (IS), a mobile genetic elements present in more than 230 copies in the genome, which are supposed to be one of the driving forces enabling the pathogen to escape from vaccine-induced immunity. Here we use high-throughput sequencing approaches (RNA-seq and differential RNA-seq), to decipher <i>Bordetella pertussis</i> transcriptome characteristics and to evaluate the impact of IS elements on transcriptome architecture. Transcriptional organization was determined by identification of transcription start sites and revealed also a large variety of non-coding RNAs including sRNAs, leaderless mRNAs or long 3′ and 5′UTR including seven riboswitches. Unusual topological organizations, such as overlapping 5′- or 3′-extremities between oppositely orientated mRNA were also unveiled. The pivotal role of IS elements in the transcriptome architecture and their effect on the transcription of neighboring genes was examined. This effect is mediated by the introduction of IS harbored promoters or by emergence of hybrid promoters. This study revealed that in addition to their impact on genome rearrangements, most of the IS also impact on the expression of their flanking genes. Furthermore, the transcripts produced by IS are strain-specific due to the strain to strain variation in IS copy number and genomic context.
DOI: 10.6084/m9.figshare.6463292
title: HDL summary statistics for 37 loci

description: Z scores and LD matrices for loci of interest.<br>
DOI: 10.6084/m9.figshare.6463292.v1
title: HDL summary statistics for 37 loci

description: Z scores and LD matrices for loci of interest.<br>
DOI: 10.6084/m9.figshare.6463283
title: Measuring Reuse of Digital Objects: Preliminary Findings from the IMLS-funded project

description: Poster and extended abstract (published originally in JCDL '18, Proceedings of the 18th ACM/IEEE on Joint Conference on Digital Libraries, at https://doi.org/10.1145/3197026.3203871).<br>The first step of the Developing a Framework for Measuring Reuse of Digital Objects project involved a survey identifying how cultural heritage organizations currently assess digital library reuse, barriers to assessing reuse, and community priorities for potential solutions and next steps. This poster offers initial analysis of the survey results.
DOI: 10.6084/m9.figshare.6463283.v1
title: Measuring Reuse of Digital Objects: Preliminary Findings from the IMLS-funded project

description: Poster and extended abstract (published originally in JCDL '18, Proceedings of the 18th ACM/IEEE on Joint Conference on Digital Libraries, at https://doi.org/10.1145/3197026.3203871).<br>The first step of the Developing a Framework for Measuring Reuse of Digital Objects project involved a survey identifying how cultural heritage organizations currently assess digital library reuse, barriers to assessing reuse, and community priorities for potential solutions and next steps. This poster offers initial analysis of the survey results.
DOI: 10.6084/m9.figshare.6463220
title: West Bengal Study

description: Mothers and children who have been followed up to determine how community health workers impact their health behaviors.
DOI: 10.6084/m9.figshare.6463220.v1
title: West Bengal Study

description: Mothers and children who have been followed up to determine how community health workers impact their health behaviors.
DOI: 10.6084/m9.figshare.6463169
title: CT scans of Tenontosaurus tilletti (OMNH 58340) pathologies

description: <b>Description:</b> This data set includes CT scans of pathological elements from a single <i>Tenontosaurus tilletti.</i><i><br></i><b>Taxon: </b><i>Tenontosuarus tilletti</i><i><br></i><b>Specimen: </b>OMNH 58340. Collected from Atoka County, Oklahoma. <br><b>File information: </b>These CT scans were performed at the University of Oklahoma Health Science Center using a Philips Brilliance 16 slice CT scanner. Metacarpal IV was scanned at 120 kVp and 151 mAs at 16 x 0.7mm slices and reconstructed at 0.35 mm overlapping slices with a high-resolution filter on a 512 matrix. Phalanx I was scanned at 120 kVp and 251 mAs at 16 x 0.7mm slices and reconstructed at 0.35 mm overlapping slices with a high-resolution filter on a 512 matrix. Ribs L7-L10, and R10 were scanned at 140 kVp and 199 mAs at 16 x 1 mm slices and reconstructed at 0.5 mm overlapping slices with a high-resolution filter on a 512 matrix. The individual slices were then compiled into virtual stacks in Fiji and saved as TIFF files.NOTE: In the ribs TIFF file the rib order from left to right is: Left 7 (L7), L8, L9, L10, Right 10 (R10)
DOI: 10.6084/m9.figshare.6463157
title: Data of through-canopy snowfall and snow intercepted by the canopy with forest characteristics and slope recorded at 56 snow trough sampling points in spruce-fir Korean pine forests of China.xls

description: Average amount of through-canopy snowfall and snow intercepted by the canopy with forest characteristics and slope recorded at 56 snow trough sampling points of primary spruce-fir Korean pine forests in the Xiaoxing'an Mountains of China<b></b>
DOI: 10.6084/m9.figshare.6463157.v1
title: Data of through-canopy snowfall and snow intercepted by the canopy with forest characteristics and slope recorded at 56 snow trough sampling points in spruce-fir Korean pine forests of China.xls

description: Average amount of through-canopy snowfall and snow intercepted by the canopy with forest characteristics and slope recorded at 56 snow trough sampling points of primary spruce-fir Korean pine forests in the Xiaoxing'an Mountains of China<b></b>
DOI: 10.6084/m9.figshare.6463151
title: EmojiGrid: supplemental material

description: Research on food-experience is typically challenged by the way questions are worded. We therefore developed the EmojiGrid: a graphical (language-independent) intuitive self-report tool to measure food-related valence and arousal. The EmojiGrid is a valid affective self-report tool that does not rely on written instructions and that can efficiently be used to measure food-related emotions.
DOI: 10.6084/m9.figshare.6463133
title: The relative influences of shallow groundwater responses to rainfall events in forested headwater catchments

description: The datasets include time series of groundwater stages for 22 wells and time series of rainfall for low and high elevation rain gauges collected at the Coweeta Hydrologic Lab, Otto, NC. These dataset accompany the manuscript published in Water Resources Research. The relevant details regarding datasets can be gleaned from the Methods section of the manuscript.
DOI: 10.6084/m9.figshare.6462962
title: Replication data for "Multiscale event detection using convolutional quadtrees and adaptive geogrids"

description: Increasing popularity of social networks made them a viable data source for many data mining applications and event detection is no exception. Researchers aim not only to find events that happen in networks but more importantly to identify and locate events occurring in the real world.In this paper, we propose an enhanced version of quadtree - convolutional quadtree (ConvTree) - and demonstrate its advantage compared to the standard quadtree. We also introduce the algorithm for searching events of different scales using geospatial data obtained from social networks. The algorithm is based on statistical analysis of historical data, generation of ConvTrees representing the normal state of the city and anomalies evaluation for events detection.Experimental study conducted on the dataset of 60 million geotagged Instagram posts in the New York City area demonstrates that the proposed approach is able to find a wide range of events from very local (indie band concert or wedding party) to city (baseball game or holiday march) and even country scale (political protest or Christmas) events. This opens up a perspective of building simple and fast yet powerful system for real-time multiscale events monitoring.
DOI: 10.6084/m9.figshare.6462962.v1
title: Replication data for "Multiscale event detection using convolutional quadtrees and adaptive geogrids"

description: Increasing popularity of social networks made them a viable data source for many data mining applications and event detection is no exception. Researchers aim not only to find events that happen in networks but more importantly to identify and locate events occurring in the real world.In this paper, we propose an enhanced version of quadtree - convolutional quadtree (ConvTree) - and demonstrate its advantage compared to the standard quadtree. We also introduce the algorithm for searching events of different scales using geospatial data obtained from social networks. The algorithm is based on statistical analysis of historical data, generation of ConvTrees representing the normal state of the city and anomalies evaluation for events detection.Experimental study conducted on the dataset of 60 million geotagged Instagram posts in the New York City area demonstrates that the proposed approach is able to find a wide range of events from very local (indie band concert or wedding party) to city (baseball game or holiday march) and even country scale (political protest or Christmas) events. This opens up a perspective of building simple and fast yet powerful system for real-time multiscale events monitoring.
DOI: 10.6084/m9.figshare.6462857
title: Plant remains from Mullaghattin, Co. Louth 15E0375 early medieval archaeological site.csv

description: Dataset describing archaeobotanical remains from an early medieval archaeological site in Co. Louth, Ireland.<br>
DOI: 10.6084/m9.figshare.6462857.v1
title: Plant remains from Mullaghattin, Co. Louth 15E0375 early medieval archaeological site

description: Dataset describing archaeobotanical remains from an early medieval archaeological site in Co. Louth, Ireland.<br>
DOI: 10.6084/m9.figshare.12893198
title: Evaluation of ghost cities_data

description: Tencent LBS population location heat data and community vector data
DOI: 10.6084/m9.figshare.12893198.v1
title: Evaluation of ghost cities_data

description: Tencent LBS population location heat data and community vector data
DOI: 10.6084/m9.figshare.6462776
title: Effect of organic solvents and acidic catalysts on biodiesel yields from primary sewage sludge, and characterization of fuel properties

description: Biodiesel is considered the most convenient biofuel, due to its direct use in existing combustion engines; however, its production is not economically optimal due to processes that utilize costly substrates, require high energy expenditure or achieve low biodiesel yields. We used primary sewage sludge for the production of biodiesel and compared yields at different temperatures (40, 50 and 60 °C) and with different organic solvents (chloroform, toluene and hexane), acid catalysts (HCl and H<sub>2</sub>SO<sub>4</sub>) and catalyst concentrations (3, 5 and 7%). A maximum of 18 wt% biodiesel was obtained using chloroform with 3% H<sub>2</sub>SO<sub>4</sub> at 40 °C. The conversion efficiency of the primary sludge to biodiesel under these conditions was 86.4%. Based on the fatty acid methyl ester composition of the obtained biodiesel and measured fuel properties, it was deduced that fuel from primary sludge is more suitable for areas with warmer climates than ones that reach temperatures close to 0 °C. However, the fuel properties of the produced biodiesel were within the limits of accepted international standards. We conclude that production of biodiesel from primary sewage sludge under optimized conditions reduces the impact of the feedstock on the environment, decreases overall costs and produces fuel with acceptable properties.
DOI: 10.6084/m9.figshare.6462776.v1
title: Effect of organic solvents and acidic catalysts on biodiesel yields from primary sewage sludge, and characterization of fuel properties

description: Biodiesel is considered the most convenient biofuel, due to its direct use in existing combustion engines; however, its production is not economically optimal due to processes that utilize costly substrates, require high energy expenditure or achieve low biodiesel yields. We used primary sewage sludge for the production of biodiesel and compared yields at different temperatures (40, 50 and 60 °C) and with different organic solvents (chloroform, toluene and hexane), acid catalysts (HCl and H<sub>2</sub>SO<sub>4</sub>) and catalyst concentrations (3, 5 and 7%). A maximum of 18 wt% biodiesel was obtained using chloroform with 3% H<sub>2</sub>SO<sub>4</sub> at 40 °C. The conversion efficiency of the primary sludge to biodiesel under these conditions was 86.4%. Based on the fatty acid methyl ester composition of the obtained biodiesel and measured fuel properties, it was deduced that fuel from primary sludge is more suitable for areas with warmer climates than ones that reach temperatures close to 0 °C. However, the fuel properties of the produced biodiesel were within the limits of accepted international standards. We conclude that production of biodiesel from primary sewage sludge under optimized conditions reduces the impact of the feedstock on the environment, decreases overall costs and produces fuel with acceptable properties.
DOI: 10.6084/m9.figshare.6462773
title: Hybrid UK36 test assemblies

description: These files contain the best hybrid assemblies produced by SPAdes, ABruijn (pre-corrected + Nanopolish + Pilon x3), Canu (Racon x4 + Nanopolish + Pilon x3), Flye (pre-corrected + Nanopolish + Pilon x3), Miniasm + Minimap (Racon x5 + Nanopolish + Pilon x4) and Unicycler (pre-corrected)
DOI: 10.6084/m9.figshare.6462773.v1
title: Hybrid assemblies

description: These files contain the best hybrid assemblies produced by SPAdes, ABruijn (pre-corrected + Nanopolish + Pilon x3), Canu (Racon x2 + Nanopolish + Pilon x2), Flye (pre-corrected + Nanopolish + Pilon x3), Miniasm + Minimap (pre-corrected, Racon x7 + Nanopolish + Pilon x3) and Unicycler (pre-corrected)
DOI: 10.6084/m9.figshare.6462773.v2
title: Hybrid UK36 test assemblies

description: These files contain the best hybrid assemblies produced by SPAdes, ABruijn (pre-corrected + Nanopolish + Pilon x3), Canu (Racon x4 + Nanopolish + Pilon x3), Flye (pre-corrected + Nanopolish + Pilon x3), Miniasm + Minimap (Racon x5 + Nanopolish + Pilon x4) and Unicycler (pre-corrected)
DOI: 10.6084/m9.figshare.6462773.v3
title: Hybrid UK36 test assemblies

description: These files contain the best hybrid assemblies produced by SPAdes, ABruijn (pre-corrected + Nanopolish + Pilon x3), Canu (Racon x4 + Nanopolish + Pilon x3), Flye (pre-corrected + Nanopolish + Pilon x3), Miniasm + Minimap (Racon x5 + Nanopolish + Pilon x4) and Unicycler (pre-corrected)
DOI: 10.6084/m9.figshare.6462767
title: Nanopore-only UK36 test assemblies

description: These files contain the best nanopore-only assembly produced by ABruijn (pre-corrected + Nanopolish), Canu (Racon x2 + Nanopolish), Flye (pre-corrected + Nanopolish), Miniasm + Minimap (filtered to 100x coverage with Filtlong, Racon x5 + Nanopolish) and Unicycler (pre-corrected + Nanopolish)
DOI: 10.6084/m9.figshare.6462767.v1
title: Nanopore-only assemblies

description: These files contain the best nanopore-only assembly produced by ABruijn (pre-corrected + Nanopolish), Canu (Racon x2 + Nanopolish), Flye (pre-corrected + Nanopolish), Miniasm + Minimap (filtered to 100x coverage with Filtlong, Racon x5 + Nanopolish) and Unicycler (pre-corrected + Nanopolish)
DOI: 10.5281/zenodo.4007646
title: proteins.Rds

description: This dataset is an R data object of a download from uniprot.org. It will be used in an R package called `proteins`
description: This version adds sequence back to the dataset. Column names include: "uniprot_id" "entry_name" "protein_name" "protein_name_alt" "gene_names_synonym" "gene_name" "gene_name_alt" "length" "function_cc" "mass" "sequence" "ec"
DOI: 10.5281/zenodo.4004151
title: proteins.Rds

description: This dataset is an R data object of a download from uniprot.org. It will be used in an R package called `proteins`
description: This version adds sequence back to the dataset. Column names include: "uniprot_id" "entry_name" "protein_name" "protein_name_alt" "gene_names_synonym" "gene_name" "gene_name_alt" "length" "function_cc" "mass" "sequence" "ec"
DOI: 10.6084/m9.figshare.6462599
title: Women’s perceptions of the adoption of personalised risk-based breast cancer screening and primary prevention: a systematic review

description: <b>Introduction:</b> Increased knowledge of breast cancer risk factors may enable a paradigm shift from the current age-based mammographic screening programmes to a personalised risk-based approach. This would warrant a significant change in practice, yet the acceptability from a woman’s perspective has never been systematically explored. In this systematic review, we inventoried and appraised studies of women’s perceptions of risk-based breast cancer screening and prevention to identify factors associated with adopting this new paradigm. <b>Methods:</b> We searched Medline, Embase and PsycInfo to identify original articles in English containing perceptions of risk-based breast cancer screening and/or primary prevention of women with an average to above average risk of developing breast cancer. Qualitative data were systematically extracted and referenced against four theoretical models of preventative health behaviour adoption. <b>Results:</b> When considering the adoption of this novel screening and prevention programme, women carefully review their perceived susceptibility to breast cancer. Their decisions are based on a cost–benefit analysis of adopting lifestyle changes, chemoprevention, or prophylactic surgery, taking into account their perceived competence, individual autonomy, relatedness to others, and personal preference. The role of intent is limited when considering behavioural change. <b>Conclusions:</b> Implementing risk-based breast cancer screening and prevention will require a multifactorial approach. The transition from theory to practice can be supported by developing evidence-based shared decision aids and family-oriented (genetic) counselling programmes.
DOI: 10.6084/m9.figshare.6462599.v1
title: Women’s perceptions of the adoption of personalised risk-based breast cancer screening and primary prevention: a systematic review

description: <b>Introduction:</b> Increased knowledge of breast cancer risk factors may enable a paradigm shift from the current age-based mammographic screening programmes to a personalised risk-based approach. This would warrant a significant change in practice, yet the acceptability from a woman’s perspective has never been systematically explored. In this systematic review, we inventoried and appraised studies of women’s perceptions of risk-based breast cancer screening and prevention to identify factors associated with adopting this new paradigm. <b>Methods:</b> We searched Medline, Embase and PsycInfo to identify original articles in English containing perceptions of risk-based breast cancer screening and/or primary prevention of women with an average to above average risk of developing breast cancer. Qualitative data were systematically extracted and referenced against four theoretical models of preventative health behaviour adoption. <b>Results:</b> When considering the adoption of this novel screening and prevention programme, women carefully review their perceived susceptibility to breast cancer. Their decisions are based on a cost–benefit analysis of adopting lifestyle changes, chemoprevention, or prophylactic surgery, taking into account their perceived competence, individual autonomy, relatedness to others, and personal preference. The role of intent is limited when considering behavioural change. <b>Conclusions:</b> Implementing risk-based breast cancer screening and prevention will require a multifactorial approach. The transition from theory to practice can be supported by developing evidence-based shared decision aids and family-oriented (genetic) counselling programmes.