cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.14901064
title: Wake length of an artificial seagrass meadow: a study of shelter and its feasibility for restoration

description: Seagrasses are essential marine ecosystems for which restoration has proven challenging due to increased hydrodynamic stress. This study aims to analyze the flow alteration induced by an artificial seagrass (ASG) meadow by characterizing its wake effect through a shelter distance and thus yield guidance for seagrass restoration projects. Here, we define shelter distance as the longitudinal extent behind a meadow, with respect to the flow direction, where seagrass is protected and can hence grow successfully. Flume experiments were conducted for submerged meadows with three different lengths at constant canopy height, shoot density and water depth, and three different cross-section-averaged longitudinal flow velocities measured with state-of-the-art Particle Image Velocimetry (PIV). For the tested meadow morphology and hydrodynamic conditions, meadow length played a less important role regarding shelter distance, while incident flow velocity and effective canopy height governed the wake effect. Incident velocities &lt;30 cm s<sup>−1</sup> prompted shelter distances &gt;2 m behind the meadow, whereas higher velocities led to a reduced shelter distance ranging from 20-40 cm. ASG additionally produced an upwelling effect on the vertical distribution of the velocity profile observed along the wake, regardless of meadow length and incident velocity. Our results suggest that restoration projects should aim for areas of low flow, where currents induced by tidal or wind waves are less pronounced in order to activate larger shelter distances.
DOI: 10.6084/m9.figshare.14901064.v1
title: Wake length of an artificial seagrass meadow: a study of shelter and its feasibility for restoration

description: Seagrasses are essential marine ecosystems for which restoration has proven challenging due to increased hydrodynamic stress. This study aims to analyze the flow alteration induced by an artificial seagrass (ASG) meadow by characterizing its wake effect through a shelter distance and thus yield guidance for seagrass restoration projects. Here, we define shelter distance as the longitudinal extent behind a meadow, with respect to the flow direction, where seagrass is protected and can hence grow successfully. Flume experiments were conducted for submerged meadows with three different lengths at constant canopy height, shoot density and water depth, and three different cross-section-averaged longitudinal flow velocities measured with state-of-the-art Particle Image Velocimetry (PIV). For the tested meadow morphology and hydrodynamic conditions, meadow length played a less important role regarding shelter distance, while incident flow velocity and effective canopy height governed the wake effect. Incident velocities &lt;30 cm s<sup>−1</sup> prompted shelter distances &gt;2 m behind the meadow, whereas higher velocities led to a reduced shelter distance ranging from 20-40 cm. ASG additionally produced an upwelling effect on the vertical distribution of the velocity profile observed along the wake, regardless of meadow length and incident velocity. Our results suggest that restoration projects should aim for areas of low flow, where currents induced by tidal or wind waves are less pronounced in order to activate larger shelter distances.
DOI: 10.5281/zenodo.7576745
title: terapon_puta_ragtag_1.fasta.gz

description: .
DOI: 10.5281/zenodo.7576744
title: terapon_puta_ragtag_1.fasta.gz

description: .
DOI: 10.5281/zenodo.7576714
title: Imputed data from for predicting skeletal stature using ancient DNA

description: These are the three imputed genotype datasets from the following publication. Please consult the paper for details of the imputation approach, metadata for the samples, and the original data sources. These data are freely available but you should cite the original sources, as well as our paper. Predicting skeletal stature using ancient DNA; Cox S, Moots HM, Stock JT, Shbat A, Bitarello B, Nicklisch N, Alt K, Haak W, Rosenstock E, Ruff CB, Mathieson I; American Journal of Biological Anthropology, Jan 2022. https://doi.org/10.1002/ajpa.24426
DOI: 10.5281/zenodo.7576713
title: Imputed data from for predicting skeletal stature using ancient DNA

description: These are the three imputed genotype datasets from the following publication. Please consult the paper for details of the imputation approach, metadata for the samples, and the original data sources. These data are freely available but you should cite the original sources, as well as our paper. Predicting skeletal stature using ancient DNA; Cox S, Moots HM, Stock JT, Shbat A, Bitarello B, Nicklisch N, Alt K, Haak W, Rosenstock E, Ruff CB, Mathieson I; American Journal of Biological Anthropology, Jan 2022. https://doi.org/10.1002/ajpa.24426
DOI: 10.57745/cqagwi
title: departement_07.zip

description: :unav
DOI: 10.57745/2oupeg
title: departement_08.zip

description: :unav
DOI: 10.17037/data.00003243
title: Codelists for: "Association between fluoroquinolones and hospitalization with aortic aneurysm or aortic dissection"
DOI: 10.5281/zenodo.7576777
title: zenarchopterus_dispar_ragtag_1.fasta.gz

description: .
DOI: 10.5281/zenodo.7576776
title: zenarchopterus_dispar_ragtag_1.fasta.gz

description: .
DOI: 10.57745/oqqgha
title: departement_09.zip

description: :unav
DOI: 10.6084/m9.figshare.21968603
title: Turkey_ Pop_Vitals_worksheet_vitals_only.xlsx

description: All vital rates for eastern wild turkeys extracted during a liturature review of turkey population dynamics. Spreadsheet provides the citation infromation for the publication reporting vital rates in addition to: the vital rate measured (vital rate column) the seasonal period the vital rate if for (period column) the life stage of the turkey (life stage column) sex of the turkey the vital rate is for (Sex column) sample size (n column) the vital rate estimate (parameter) error measurement, and type of error reported (error measurement & error measurement type columns) method for estimating vital rate (method of estimation) year measurement was recorded this is reported (year column) Miscellanious comment (Parameter comments) <br> Other notes: 1. If no error estimate or sample size were reported this was recorded as NA 2. Age and sex is for the adults so for nest or brood metricsmthis data is referring to the attending adult. 3. Adult refers to birds that are &gt; 2 years old (age otherwise unknown). this class is referred to as ASY birds in manuscript 4. Subadults refer to bird entering into first breeding season (between 9 and 22 months of age). Subadults referred to as SY birds in manuscript. 5. This spreadsheet only includes papers that reported vital rates. Wild turkey papers that do not include vital rates are not included. 6. If the specific period that seasonal survival was estimated for was reported this is recorded in the comments column.
DOI: 10.6084/m9.figshare.21968603.v1
title: Turkey_ Pop_Vitals_worksheet_vitals_only.xlsx

description: All vital rates for eastern wild turkeys extracted during a liturature review of turkey population dynamics. Spreadsheet provides the citation infromation for the publication reporting vital rates in addition to: the vital rate measured (vital rate column) the seasonal period the vital rate if for (period column) the life stage of the turkey (life stage column) sex of the turkey the vital rate is for (Sex column) sample size (n column) the vital rate estimate (parameter) error measurement, and type of error reported (error measurement & error measurement type columns) method for estimating vital rate (method of estimation) year measurement was recorded this is reported (year column) Miscellanious comment (Parameter comments) <br> Other notes: 1. If no error estimate or sample size were reported this was recorded as NA 2. Age and sex is for the adults so for nest or brood metricsmthis data is referring to the attending adult. 3. Adult refers to birds that are &gt; 2 years old (age otherwise unknown). this class is referred to as ASY birds in manuscript 4. Subadults refer to bird entering into first breeding season (between 9 and 22 months of age). Subadults referred to as SY birds in manuscript. 5. This spreadsheet only includes papers that reported vital rates. Wild turkey papers that do not include vital rates are not included. 6. If the specific period that seasonal survival was estimated for was reported this is recorded in the comments column.
DOI: 10.57745/ba5dwo
title: departement_10.zip

description: :unav
DOI: 10.17037/data.00003265
title: Clinical covariate codelist - Aurum

description: Clinical covariate codes.
DOI: 10.35077/act-bud
title: Neuron Morphology data in .swc format from Patch-seq experiments in mouse cortex, Cell ID 637846989

description: Mouse cortical neurons display diverse morphology, physiology and gene expression profiles. We use a method called Patch-seq, where these three data modalities are assayed simultaneously from the same neuron, to understand how the genetic profile of mouse cortical neuron types corresponds to their morphological and electrophysiological phenotypes. This collection may contain image stacks (TIFF), reconstruction files in image space (.swc, µm), a transformed file (.swc, µm) oriented so that the y axis extends vertically towards the pia surface, and a marker file (.marker, µm) indicating nodes where dendrites were truncated (10), reconstruction was not continued (20), or surface of tissue was closest to soma (30).
description: manual tracing
description: DATASET METADATA: title:'Neuron Morphology data in .swc format from Patch-seq experiments in mouse cortex, Cell ID 637846989', GeneralModality:'cell morphology', Technique:'PATCH-Seq' SPECIMEN METADATA: LocalID:'637846989', Species:'mouse', NCBITaxonomy:'NCBI:txid10090', Genotype:'Htr3a-Cre_NO152/wt;Ai14(RCL-tdT)/wt', SampleLocalID:'637846989', Locations:'VISp2/3' INSTRUMENT METADATA: MicroscopeType:'NA', MicroscopeManufacturerAndModel:'NA' IMAGE METADATA: xAxis:'NA', yAxis:'NA', zAxis:'NA', stepSizeX:'0.114', stepSizeY:'0.114', stepSizeZ:'0.28'
DOI: 10.57745/o38ovm
title: departement_11.zip

description: :unav
DOI: 10.17037/data.00003263
title: Therapy codelists for antibiotics and corticosteroids - Aurum

description: Therapy codes for antibiotics and corticosteroids.
DOI: 10.5281/zenodo.7576661
title: Self-Supervised Maize Kernel Classification and Segmentation for Embryo Identification

description: These are companion data of manuscript "Self-Supervised Maize Kernel Classification and Segmentation for Embryo Identification" that was submitted to Frontiers in Plant Science. The data is organized into three main folders: 'class_full_imgs', 'seg_full_imgs', and 'unlabeled'. <br> The 'class_full_imgs' folder contains labeled data used to train the classification model, which is divided into train, validation, and test subfolders. Each of these subfolders contains 'oriented' and 'non-oriented' images. <br> The 'seg_full_imgs' folder contains labeled data used to train the segmentation model. The 'InputImages' subfolder contains raw images, and the 'OutputImages' subfolder contains the segmented images. <br> The 'unlabeled' folder contains images without any labels. These images were used for self-supervised pretraining of classification and segmentation models.
description: This work was partially supported by the AI Institute for Resilient Agriculture (USDA-NIFA #2021-67021-35329), COALESCE: COntext Aware LEarning for Sustainable CybEr-Agricultural Systems (CPS Frontier # 1954556), and support from a PSI faculty fellowship.
DOI: 10.57745/twwbel
title: departement_12.zip

description: :unav
DOI: 10.18113/s1393p
title: Survey of the Entomological Collections Network's use of Adhesives
DOI: 10.5523/bris.1m1aqxh299w2j20l7i8umgqwct
title: Data for ICRA 2023 - variable stiffness unit

description: Data for ICRA2023 paper: Tianqi Yue, Tsam Lung You, Hemma Philamore, Hermes Bloomfield-Gadêlha and Jonathan Rossiter, A Silicone-sponge-based Variable-stiffness Device, 2023 IEEE International Conference on Robotics and Automation (ICRA)
DOI: 10.5519/qd.7mcyrf2f
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (248 records)
DOI: 10.5523/bris.11gbyp96cqskc2mfjq2wwpaizt
title: Data for RoboSoft2022 - soft exosuit

description: Data supporting paper: Emanuele Pulvirenti, Richard Diteesawat, Helmut Hauser, Jonathan Rossiter, Towards a Soft Exosuit for Hypogravity adaptation: Design and Control of Lightweight Bubble Artificial Muscles, Proceedings of the 2022 IEEE Conference on Soft Robotics, RoboSoft 2022.
DOI: 10.35078/fwlwaq
title: Replication Data for: Ficha epidemiológica de localidade: Distrito: Montes Claros | Município: Montezuma

description: Levantamento Triatomínico com operações de campo ocorridas em Minas Gerais pela Superintendência de Campanhas de Saúde Pública (SUCAM) e FUNASA (Fundação Nacional de Saúde), no período de 1979 a 1999, objetivando a busca da presença de vetores da doença de Chagas ou de vestígios dessa presença. A partir dela são orientadas as operações com inseticida (pt) Triatomine survey with field operations carried out in Minas Gerais by the Public Health Campaigns Superintendence (SUCAM) and FUNASA (National Health Foundation), from 1979 to 1999, aiming to search for the presence of Chagas disease vectors or traces of that presence. From it, operations with insecticide are guided (en) Encuesta de triatominos con operaciones de campo realizada en Minas Gerais por la Superintendencia de Campañas de Salud Pública (SUCAM) y FUNASA (Fundación Nacional de Salud), de 1979 a 1999, con el objetivo de buscar la presencia de vectores de la enfermedad de Chagas o rastros de esa presencia. Desde ella se orientan las operaciones con insecticida (es)
DOI: 10.5523/bris.239k7m1nddrq72vaxbsfis2mf8
title: Data for AFM dielectrophoretic gel

description: Included here are data to support the paper: Ciqun Xu, Charl F. J. Faul, Majid Taghavi, and Jonathan Rossiter, Electric Field-driven Dielectrophoretic Elastomer Actuators, Advanced Functional Materials (2023), DOI:10.1002/adfm.202208943
DOI: 10.6084/m9.figshare.21968660.v1
title: on_line_files_Deng_SICM_model.zip

description: All mfiles starting with 'Run_*' can be run on Matlab without any pre-loaded variables or data. <br> The three files in the root directory consist of the only input data to all program mfiles. Of which, SICM.m is the mathematical model, Input_Matched_InitialsAndParameters.mat contains initial conditions and parameter values for each day from day 50 to day 590, 30 best-fitted values for each day, ranked from the best to worst fit. The third csv file is the US cases and deaths data from CDC. <br> The order in which to generate the output data files is to run all Run_* mfiles in folders (1) Build_Real_Data (2) Build_Solution_Book (3) Build_Forecast_Book (4) Plot_Output <br> When you reach the Plot_Output folder, you have build all data files for plotting and annimation. <br> Run "Run_Plot_Output" will generate the first batch of output plots. <br> Note: It requires zero knowledge to verify the result. All one needs is the model SICM.m and the initial values and parameters provided to explore the dynamics of the model, and to analyze the fit of the model to the data, with the parameter and initial values provided from the data file `Input_Matched_InitialsAndParameters.mat'. All the remaining folders contain Matlab programs to present the fit and the forecast presented in the manuscript `Forecast U.S. Covid-19 Numbers by Open SIR Model with Testing'. <br>
DOI: 10.35077/act-bug
title: Neuron Morphology data in .swc format from Patch-seq experiments in mouse cortex, Cell ID 638212024

description: Mouse cortical neurons display diverse morphology, physiology and gene expression profiles. We use a method called Patch-seq, where these three data modalities are assayed simultaneously from the same neuron, to understand how the genetic profile of mouse cortical neuron types corresponds to their morphological and electrophysiological phenotypes. This collection may contain image stacks (TIFF), reconstruction files in image space (.swc, µm), a transformed file (.swc, µm) oriented so that the y axis extends vertically towards the pia surface, and a marker file (.marker, µm) indicating nodes where dendrites were truncated (10), reconstruction was not continued (20), or surface of tissue was closest to soma (30).
description: manual tracing
description: DATASET METADATA: title:'Neuron Morphology data in .swc format from Patch-seq experiments in mouse cortex, Cell ID 638212024', GeneralModality:'cell morphology', Technique:'PATCH-Seq' SPECIMEN METADATA: LocalID:'638212024', Species:'mouse', NCBITaxonomy:'NCBI:txid10090', Genotype:'Oxtr-T2A-Cre/wt;Ai14(RCL-tdT)/wt', SampleLocalID:'638212024', Locations:'VISp2/3' INSTRUMENT METADATA: MicroscopeType:'NA', MicroscopeManufacturerAndModel:'NA' IMAGE METADATA: xAxis:'NA', yAxis:'NA', zAxis:'NA', stepSizeX:'0.114', stepSizeY:'0.114', stepSizeZ:'0.28'
DOI: 10.5281/zenodo.6521966
title: ReimagineReview data

description: An export of data about innovative peer review experiments and platforms hosted on reimaginereview.asapbio.org. Note that test listings created by the team and unpublished listings have been removed. This version also includes cleaned files for previous exports.
description: This work was supported by a grant from CZI.
DOI: 10.5281/zenodo.2842330
title: ReimagineReview data

description: An export of data about innovative peer review experiments and platforms hosted on reimaginereview.asapbio.org. Note that test listings created by the team and unpublished listings have been removed. This version also includes cleaned files for previous exports.
description: This work was supported by a grant from CZI.
DOI: 10.5281/zenodo.3955154
title: Biomedical preprints per month, by source and as a fraction of total literature

description: This is a snapshot of a Google sheet containing counts of biomedical preprints by source and as a fraction of the total biomedical literature <strong>through 2020-06.</strong> Note: this does not yet include &gt;6,000 preprints on relevant OSF platforms. <strong>Data sources</strong> arXiv q-bio, PeerJ Preprints, and bioRxiv counts through 2018-12 were sourced from Jordan Anaya's PrePubMed. Following that, arXiv q-bio counts were sourced from arXiv statistics, and PeerJ Preprints and bioRxiv counts were taken from searches of EuropePMC. All counts from F1000 & Open Research platforms, preprints.org, ChemRxiv, and medRxiv were taken from searches of EuropePMC. Counts for Research Square are derived from Crossref through 2020-03, thereafter from EuropePMC. Counts for the Lancet and Sneak Peek were taken from web searches. Total biomedical literature is from PubMed.
description: {"references": ["Anaya (2018): PrePubMed. https://github.com/OmnesRes/prepub/tree/master/analyses", "Penfold and Polka (2019): Preprints in biology as a fraction of the biomedical literature. 10.5281/zenodo.3256298"]}
DOI: 10.5281/zenodo.3668744
title: Biomedical preprints per month, by source and as a fraction of total literature

description: This is a snapshot of a Google sheet containing counts of biomedical preprints by source and as a fraction of the total biomedical literature <strong>through 2020-06.</strong> Note: this does not yet include &gt;6,000 preprints on relevant OSF platforms. <strong>Data sources</strong> arXiv q-bio, PeerJ Preprints, and bioRxiv counts through 2018-12 were sourced from Jordan Anaya's PrePubMed. Following that, arXiv q-bio counts were sourced from arXiv statistics, and PeerJ Preprints and bioRxiv counts were taken from searches of EuropePMC. All counts from F1000 & Open Research platforms, preprints.org, ChemRxiv, and medRxiv were taken from searches of EuropePMC. Counts for Research Square are derived from Crossref through 2020-03, thereafter from EuropePMC. Counts for the Lancet and Sneak Peek were taken from web searches. Total biomedical literature is from PubMed.
description: {"references": ["Anaya (2018): PrePubMed. https://github.com/OmnesRes/prepub/tree/master/analyses", "Penfold and Polka (2019): Preprints in biology as a fraction of the biomedical literature. 10.5281/zenodo.3256298"]}
DOI: 10.5281/zenodo.1249620
title: Peer review surveys for ASAPbio/HHMI/Wellcome Meeting #bioPeerReview

description: The following information is adapted from asapbio.org/peer-review/surveys and asapbio.org/peer-review/summary On February 7-9, 2018, a group of approximately 90 junior and senior scientists, publishers, editors, and funders convened at HHMI Headquarters in Chevy Chase, MD for a meeting on Transparency, Recognition, and Innovation in Peer Review in the Life Sciences, organized by Wellcome, ASAPbio, and HHMI. The plenary sessions of the agenda were webcast, and all videos can be viewed in the webcast archive. Slides from talks can be downloaded from the agenda. In the weeks leading up to the meeting, two surveys captured attitudes toward our current peer review system: one more general survey for all stakeholders (originally appeared on this page, closed 2018-02-06 with 295 responses) and one on Peer Feedback for authors and reviewers (appeared on the Peer Feedback page, closed 2018-01-31 with 370 responses). Both surveys were anonymous and no personally identifiable information was collected. Selected results from both surveys can be found in the presentation below. All original data CC-0; images CC-BY.
DOI: 10.5281/zenodo.1249619
title: Peer review surveys for ASAPbio/HHMI/Wellcome Meeting #bioPeerReview

description: The following information is adapted from asapbio.org/peer-review/surveys and asapbio.org/peer-review/summary On February 7-9, 2018, a group of approximately 90 junior and senior scientists, publishers, editors, and funders convened at HHMI Headquarters in Chevy Chase, MD for a meeting on Transparency, Recognition, and Innovation in Peer Review in the Life Sciences, organized by Wellcome, ASAPbio, and HHMI. The plenary sessions of the agenda were webcast, and all videos can be viewed in the webcast archive. Slides from talks can be downloaded from the agenda. In the weeks leading up to the meeting, two surveys captured attitudes toward our current peer review system: one more general survey for all stakeholders (originally appeared on this page, closed 2018-02-06 with 295 responses) and one on Peer Feedback for authors and reviewers (appeared on the Peer Feedback page, closed 2018-01-31 with 370 responses). Both surveys were anonymous and no personally identifiable information was collected. Selected results from both surveys can be found in the presentation below. All original data CC-0; images CC-BY.
DOI: 10.5281/zenodo.176452
title: Notes from breakout sessions at the ASAPbio Preprint Service Technical Workshop

description: 1A; Architecture, APIs, metadata, and file formats of existing preprint servers/platforms/journals) 1B: Capabilities of document conversion services (.doc or latex to .xml/.html) 2A: Tools for automated screening – plagiarism, image manipulation, author authentication 2B: Interfaces and approaches for human moderation and curation 3A: Data storage models (and linking to external datasets) 3B: Identifiers, versioning, linking (including to journal publications) 4A: Search and bibliometrics tools; syndicating content to external search tools 4B: Enabling access by individuals, journal content management systems, and others