cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.25903/5d006c1494cf9
title: Fossil charcoal particle training data for neural networks

description: <p>Photographs taken using a DSLR and lens adapter through a stereomicroscope of fossil charcoal particles (>63 micron diameter) isolated from Holocene lake sediments. These images have been processed ready to use as a training dataset for neural networks, with binary masks (charcoal versus not charcoal).</p>
DOI: 10.25903/6hrt-qg88
title: Mental Health before and in the Time of the COVID-19 Pandemic among Chinese Late Adolescents and Emerging Adults: A 28-Month, 10-Wave Longitudinal Study

description: <p>The present paper responds to the need to ascertain the effects of lockdown and social isolation over time through the use of a cohort of Chinese university students, measured at 10 points over a 28-month period (November, 2019 to March, 2022). The present study investigates mental health outcomes (depression, anxiety, and stress), as well as fear of infection, among this cohort of late adolescents and emerging adults, with a particular focus on the effects of lockdown type on mental health.</p>
<p>Software/equipment used to create/collect the data: SPSS V.28</p>
<p>Software/equipment used to manipulate/analyse the data: SPSS V.28</p>
DOI: 10.4225/28/56a1c156cf699
title: Marine conservation planning in the Gulf of California, Mexico
DOI: 10.4225/28/5ae15a2d946b4
title: Correlated effects of ocean acidification and warming on behavioral and metabolic traits of a large pelagic fish
DOI: 10.4225/28/54488b143a1a1
title: Behaviour and Ecology Video Library of Indo Pacific Flora and Fauna
DOI: 10.25903/5ecf06230a0b9
title: Subacromial impingement dataset

description: <p>This dataset consists of the statistical analyses (SPSS files) used in the following studies: </p>
<p>1. SymAsym Final DataSet.sav - relates to: Land, Helen, Gordon, Susan, and Watt, Kerrianne (2019) <em>Effect of manual physiotherapy in homogeneous individuals with subacromial shoulder impingement: a randomized controlled trial</em>. Physiotherapy Research International, 24(2): e1768.</p>
<p>This is also written up as Chapter 6 of the author's PhD thesis: Land, Helen (2017) <em>Specific physiotherapy management for subacromial shoulder impingement</em>. PhD thesis, James Cook University.</p>
<p>2. April 2017.sav - relates to: Land, Helen, and Gordon, Susan (2017) <em>Clinical assessment of factors associated with subacromial shoulder impingement: a systematic review</em>. Physical Therapy Reviews, 21 (3-6). pp. 192-206 and;</p>
<p>Land, Helen, Gordon, Susan, and Watt, Kerrianne (2017) <em>Isokinetic clinical assessment of rotator cuff strength in subacromial shoulder impingement</em>. Musculoskeletal Science and Practice, 27. pp. 32-39.</p>
<p>This is also written up as Chapter 4 of the author's PhD thesis: Land, Helen (2017) <em>Specific physiotherapy management for subacromial shoulder impingement.</em> PhD thesis, James Cook University.</p>
<p>The full methodologies are available from the Related Publications links below.</p>
DOI: 10.25903/5f31f85aa8011
title: Dataset and interactive version of Fig.1 and Fig.3 of the manuscript: Importance of health assessments for conservation in noncaptive wildlife

description: <p>The dataset includes the 261 studies analysed, sorted by author name. Please note that some studies were duplicated to account for multiple categories (highlighted in grey in the .xlsx and .ods formats). </p>
<p>The dataset is available as a spreadsheet saved in Comma-separated values (.csv), MS Excel (.xlsx) and Open Document (.ods) formats.</p>
<p>An interactive version of the following figures is included as .html file:</p>
<p>- Figure 1. "Global distribution of wildlife health assessments studies in relation to area (million km<sup>2</sup>), showing a mismatch between country of study (blue) and biodiversity hotspots (red) (n=261 studies)."</p>
<p>- Figure 3a and 3c. "Analyses of (a) co-occurrences and (c) collaboration networks between countries (n=261 studies)."</p>
DOI: 10.15468/dl.j3s33u
title: Occurrence Download

description: A dataset containing 13 species occurrences available in GBIF matching the query:
{
 "Geometry" : [
 "POLYGON ((143.664553 -36.82939, 143.664553 -36.836127, 143.660061 -36.836127, 143.660061 -36.838373, 143.664553 -36.838373, 143.664553 -36.842865, 143.666799 -36.842865, 143.666799 -36.838373, 143.669044 -36.838373, 143.669044 -36.836127, 143.673536 -36.836127, 143.673536 -36.831636, 143.675782 -36.831636, 143.675782 -36.82939, 143.664553 -36.82939))"
 ]
}

 The dataset includes 13 records from 2 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0075338-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.pnkee5
title: Occurrence Download

description: A dataset containing 164 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Duttaphrynus melanostictus (Schneider, 1799))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1900",
 "BasisOfRecord is one of (Specimen)",
 "Country is one of (Indonesia)",
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than or equal to 20000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 164 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0075339-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25903/891f-1q62
title: MangroveWatch Coastal Habitat Assessment & Monitoring Portal (CHAMP)

description: <p>The project strategy is called the Coastal Health Archive and Monitoring Program (CHAMP). High resolution panolapse imagery & overlapping images with continuous views of the intertidal shorelines of Australasia. This category of ShoreView data includes - small vessel estuarine and shoreline imagery - the extent has been around 2000 km in total from multiple sites around the country. For example, surveys have been undertaken from 8 Southern GBR estuaries between Gladstone and Hervey Bay. Data has been collected under the supervision of JCU researchers by numerous community groups, as community volunteers, and by indigenous ranger teams.</p>
<p>Primary assessment of imagery includes: coordinate location of each image, the assignment of categories of ecosystem type, structure like tree height, condition, and the types and severity of processes observed like trees damaged by storms, fire, weeds, livestock, erosion. Further assessment includes apportioning these categories for specific estuarine sections, and ranking conditions for summary in regional reporting frameworks. The software required for uploading, processing and assessment of data is in development.</p>
DOI: 10.4225/28/5ae8f3cc790f9
title: Data from 'Global drivers of reef fish growth'
DOI: 10.4225/28/571eb18aa6ab7
title: Rabbitfish fishery and spawning aggregation surveys in the Seychelles
DOI: 10.25903/pzez-fh26
title: Bathymetric grid for the Gulf of Papua and adjacent areas
DOI: 10.4225/28/57f5c247d061f
title: Modern Arnis and adult pedagogy: a unique project
DOI: 10.25903/1bzz-wc42
title: Characterisation of ulvan from Ulva ohnoi and the immunomodulatory effect of ulvan on secreted cytokines from RAW264.7 cells

description: <p>See chapter 5 of PhD thesis for complete details of data collection. The aims of this study were to elucidate the effect of the molecular weight of purified ulvan, extracted from Ulva ohnoi, on the inflammatory response of RAW264.7 murine macrophages. Chemical characterisation of ulvan from Ulva ohnoi through elemental, sulfate and ash quantification, size exclusion chromatography with multi-angle light scattering detector, constituent sugar analysis with high performance anion exchange chromatography with pulsed amperometric detection, and nuclear magnetic resonance spectroscopy. Immunmodulatory effect of ulvan assessed through the concentration of secreted cytokines from RAW264.7 cells in response to lipopolysaccharide and ulvan determined by ELISA.</p>
<p>The full methodologies will be available in the author's thesis (Chapter 5) from the Related Publications link below.</p>
DOI: 10.25903/g5t1-zj62
title: Being a Good Citizen in Pandemics 

description: <p><strong>Background</strong>:</p>
<p>These two studies aim to investigate the effects of pandemics and self-construal primes (i.e., collectivist/individualist) on two pandemic behaviours, namely compliance to social distancing measures and prosociality while controlling for health anxiety. Study 1 (n = 207) examined the effect of pandemic salience and self-construal on compliance to social distancing measures. Study 2 (n = 203) examined the effects of pandemic salience and self-construal on prosociality, as measured by the Prosocial Behavioural Intentions Scale and Prosociality Scale. </p>
<p><strong>This data record contains:</strong></p>
<p>Two x SPSS (.sav) files containing input data and calculation of compliance to social distancing measures (Study1) and prosociality (Study 2) respectively.</p>
<p>Files also available in Open Document (.ods) format.</p>
<p>--//--</p>
<p>Software/equipment used to collect the data: Qualtrics</p>
<p>Software/equipment used to analyse the data: SPSS</p>
DOI: 10.4225/28/593893efcb5cb
title: Cross-scale habitat structure driven by coral species composition on tropical reefs
DOI: 10.25903/3bzv-1y39
title: Data from: Spatial patchiness in change, recruitment, and recovery on coral reefs at Lizard Island following consecutive bleaching events

description: <p>This dataset contains the data associated with the following publication:</p>
<p>Tebbett SB, Morais J, Bellwood DR (2022) Spatial patchiness in change, recruitment, and recovery on coral reefs at Lizard Island following consecutive bleaching events. Marine Environmental Research 173: 105537 <a href="https://doi.org/10.1016/j.marenvres.2021.105537">https://doi.org/10.1016/j.marenvres.2021.105537</a></p>
<p>This study was based on repeatedly examining the same 349 photoquadrats around Lizard Island over a 5 year period (2016-2021). Data on benthic cover and Acropora recruitment from these photoquadrats were subsequently extracted, and these data were used to explore how the benthos responded to coral bleaching in 2016 and 2017 and where/to what extent coral cover recovered following this disturbance. This data publication includes raw data on benthic community composition at the quadrat level for broad benthic categories and specific coral genera. In addition, it includes a data file of the number of new Acropora recruits per quadrat detected form 2018 - 2021, as well as key explanatory variables that were quantified to see if they related to Acropora recruitment rates. </p>
<p>For full methodological details, please see the published manuscript (referenced above).</p>
<p>Details of the datasets including units of measure can be found in the 'read me' file.</p>
DOI: 10.25903/5eebf8f419abf
title: In situ water quality among coral reefs and microhabitats at Lizard Island, Great Barrier Reef

description: <p>This dataset contains water quality data collected by Gabrielle Miller of James Cook University in 2014 at three different reefs and three different microhabitats around the Lizard Island Lagoon.</p>
DOI: 10.25903/5c0765e975664
title: Streetfighter - Streetlight-integrated Sensor Platform - Live deployment trial

description: <p>The Streetfighter live trial included a traffic and environmental sensor platform integrated into a streetlight housing on a campus road.</p><p>The project investigated the traffic detection performance of low-cost sensors to determine if a streetlight-integrated system would be viable in a ubiquitous deployment. This system included a passive-infrared (PIR) sensor for motion-based traffic detection, and sonar and lidar sensors for distance-based detection.</p><ul><li>The HC SR-501 PIR motion sensor typically undercounted traffic due to its detection mechanisms being ill-suited to the changing speeds and density of vehicular traffic.</li><li>The MB1240 sonar was operating beyond its rated range and did not produce useful data.</li><li>The LidarLite v1 lidar could detect a limited number of traffic events due, but missed most traffic due to improper mounting.</li></ul><p>This dataset consists of the following folders/files available via a CloudStor link:</p><ul><li>StreetFighter Video 2015-10-08: contains 20 video files in Audio Video Interleave (.AVI) format (1.2 GB) - 2015-10-08 Med39 Traffic (01) - (20)</li><li>StreetFighter Video 2015-12-08: contains 29 video files in Audio Video Interleave (.AVI) format (1.9 GB) - 2015-12-08 TrafficCam (01) - (29)</li><li>StreetFighter Traffic Events 2015-10-08.zip: contains 3, 707 compressed image files in JPEG (.jpg) format (92.4 MB) - motion 2015-10-08 08.24.14 - 17.54.36</li><li>streetfighter_sensor_data: 1 file in comma-separated values (.csv) format (379.9 MB). </li><li>streetfighter_sensor_data_metadata: 1 file in Markdown (.md) format (2 KB). The metadata file is also saved in PDF format and attached.</li><li>streetfighter_video_2015-10-08: 1 file in comma-separated values (.csv) format (36 KB) - video_events_time variable</li></ul><p>The streetfighter_sensor_data CSV file exceeds row limits for opening in Microsoft Excel. It can be handled in a number of ways e.g. imported into an Access database, opened in a text editor such as Notepad++ or opened in the 'R' software environment by using the "read.csv" function.</p>
DOI: 10.25903/5f22492a64642
title: International Fishery Conflict Database

description: <p>This database logs international conflicts over fishery resources occuring between 1974 and 2016 by using event data, i.e. detailed records of interactions between countries. </p>
DOI: 10.25903/gzf1-8e56
title: Data from: Field-based adipose tissue quantification using bioelectrical impedance spectroscopy validated with CT scans and deep learning

description: <p>Dataset used in the manuscript "Field-based adipose tissue quantification using bioelectrical impedance spectroscopy validated with CT scans and deep learning"</p>
<p>Software/equipment used to create/collect the data: (a) Bioelectrical impedance measurements: Bioelectrical impedance measurements were performed using a BIS device (SFB7, Impedimed, Brisbane, QLD, Australia), that measures resistance and reactance to an applied harmless, alternating electric current at 256 logarithmically-spaced frequencies in the range of 3-1000 kHz. Device calibration was verified daily. The extracted data of interest were resistance at infinite frequency (Rinf, predictor of total body water and FFM); resistance at zero frequency (R0, predictor of extracellular water); intracellular resistance (Ri, an index of intracellular water); and, for comparison with studies using single-frequency (50 kHz) impedance devices, resistance at 50 kHz (R50); reactance at 50 kHz (Xc50) and phase angle at 50 kHz (PhA50).</p>
<p>(b) Computed tomography scans: Volumetric data of total body scans were acquired in helical scan mode, with 1.25 mm slice thickness and spacing between slices set at 0.625 mm (Optima CT660 16 slice scanner, GE Medical Systems, Milwaukee, WI USA; and Aquilion Lightning 160, Canon, Tokyo, Japan). The typical number of CT slices per animal was around 1,600. In this study, the total number of slices was approximately 80,000, and approximately 50,000 CT slices were used in the final calculations.</p>
<p>Software/equipment used to manipulate/analyse the data: (a) Adipose tissue identification: Adipose tissue Hounsfield units (HU) (i.e., attenuation ranges) were identified by three-dimensional rendering using a commercially available, validated software for DICOM (Digital Imaging and Communications in Medicine) visualisation and body composition analysis (NovaPACS, NovaradTM, American Fork, USA), following the methods described in Gibby et al. (2017) and DePersio et al. (2019).</p>
<p>(b) Adipose tissue quantification: An open-sourced machine learning framework (PyTorch) was used for implementing the U-Net (Paszke et al., 2019), and was adapted from Yakubovskiy (2020).</p>
DOI: 10.4225/28/5902aa36b7d13
title: Endurance of pair bonding reduces intra-pair conflict and promotes cooperative territory defense among coral feeding butterflyfishes
DOI: 10.25903/5c4a754d43218
title: Data from: Nadler L, E., Killen S, S., McCormick MI. Hierarchical effects of flow-regime and social assortment on physiological differences among groups of a coral reef fish


description: <p>Abstract [Related Publication]: Group-living in animals carries a variety of trade-offs, with the exact benefit for any group member being largely dependent on the characteristics of its group-mates. For instance, similarity in locomotory performance aids in maintaining cohesion and synchronicity during collective movements while heterogeneity in behavioural phenotypes can aid in establishment of social hierarchies and individualized niches. However, no one has yet investigated whether animal groups sort according to physiological traits by means of phenotypic plasticity, selective mortality, and/or passive and active assortment. Here, we examined whether wild schools of the gregarious coral reef fish <em>Chromis viridis</em> display inter-group differences in whole-animal physiological traits and whether such variation is associated with local habitat characteristics (temperature, depth and flow rate). Using oxygen uptake (ṀO2) as a proxy for aerobic metabolic rate, we found significant differences in maximum metabolic rate (MMR, the upper constraint on an individual’s oxygen-consuming physiological activities) and aerobic scope (AS, capacity to support activities beyond basic maintenance) among schools from different sites, with both traits 11-13% higher in individuals collected on high-flow regime reefs. Minimum (i.e., standard) metabolic rate (SMR) was higher both at sites with shallower depths and on reefs with higher flow. In addition, among groups within sites, SMR often showed inter-school variance, suggesting groups may be assorting locally by SMR phenotype. Recent research examining intraspecific diversity has mainly focussed on differences among individuals, or among populations inhabiting different geographic regions. These results indicate that, in social species, phenotypic differences among groups may be influenced by a hierarchy of effects, with abiotic environmental characteristics affecting the distribution of metabolic traits generally and mechanisms of assortment driving the basal energy demand among social groups within a site.</p><p>The dataset consists of an Excel datasheet containing location data and respirometry metabolism estimates for the damselfish <em>Chromis viridis.</em></p><p>The full methodology will be available from the Related Publications link below when the paper (submitted to the Journal of Fish Biology) is published.</p><p><em> </em></p>
DOI: 10.25903/d2nv-7496
title: Data from: Diagnostic Yield (pulmonary tuberculosis) in the Torres Strait / Papua New Guinea Border Region [Chapter 3 PhD Thesis]

description: <p><strong>Background [Extract from related publication]: </strong>Smear-positive pulmonary tuberculosis (PTB) requires rapid diagnosis and treatment to prevent ongoing transmission. Collection of two sputum specimens is considered the minimum requirement for the diagnosis of PTB but current guidelines in the Torres Strait Islands, Australia, recommend three sputum specimens; this frequently delays treatment initiation.</p>
<p><br /><strong>Methods [Extract from related publication]</strong>:  A retrospective study was performed to ascertain the diagnostic yield of sputum specimens collected in the Torres Strait Islands. The study assessed demographics and characteristics of all PTB cases diagnosed between 2000 and 2018, and assessed the diagnostic yield in 143 patients from whom at least three sputum specimens had been collected prior to treatment commencement. Incremental and cumulative yield was calculated for each sputum specimen. Data were further analysed using binary logistic regression to examine the association between selected characteristics and a smear-positive acid-fast bacilli (AFB) result. Patients were included if at least three specimens were collected within 2 weeks of each other, prior to commencement of effective TB treatment; and at least one specimen was positive for Mycobacterium tuberculosis on culture or nucleic acid testing.</p>
<p><strong> </strong>This record consists of:</p>
<ul>
<li>1 SPSS (.sav) file which includes the variables for descriptive statistics</li>
<li>1 SPSS (.sav) file containing laboratory-based data, including three sputum specimens per patient plus diagnostic yield (nucleic acid amplification test / acid-fast bacilli)</li>
</ul>
<p>Data files are also saved in csv. format <p>
<p><span class="key">Software/equipment used to create/collect the data: </span><span class="key">SPSS</span></p>
<p>The full metholodgy is available in the Open Access publication from the Related publications link below.</p>
<p>Once access to the data has been obtained via negotiation with the Data Manager, use of the dataset is governed by the CC BY-NC-SA 4.0 licence.</p>
<p><strong>Note: The Data Manager may release age-related data in 5-year intervals to researchers, contingent upon consultation to establish research specifications and obtaining ethics approval.</strong></p>
DOI: 10.25903/y8zk-7483
title: Effects of elevated temperature on the performance and survival of Pacific crown-of-thorns starfish (Acanthaster cf. solaris)
DOI: 10.25903/a4k6-yg25
title: Increasing densities of Pacific crown-of-thorns starfish (Acanthaster cf. solaris) at Lizard Island, northern Great Barrier Reef, resolved using a novel survey method

description: <p>These data are associated with a 4 year study on the temporal variation of CoTS densities at a key site in the Northern Great Barrier Reef, Lizard Island. This study trialled the utility of a novel survey technique; Scooter-assisted large area diver-based surveys or 'SALAD surveys' for detecting changes in CoTS densities, especially focusing on capturing the earliest changes that occur to low density CoTS. Data consists of density data for individual SALAD surveys (CoTS/ha) from sites arounf Lizard Island over 4 years, and additional information for each individual CoTS encountered i.e. body size.</p>
<p>R studio was used to analyse and present the data in this paper.</p>
DOI: 10.25903/jp90-1103
title: Greater glider home range and habitat use

description: <p>This data was collected to directly compare the home range and habitat use between Petauroides volans and the newly designated norther species, P. minor. Home range data was collected using GPS collars. These locations where then used to estimate home range size. Biomass and habitat composition data was collected through plot surveys. A GLM analysis was used to explore is there was a connection between home range size and habitat variables.</p>
<p>Software/equipment used to create/collect the data: SIrtrack GPS collars were used to collect greater glider locations.</p>
<p>Software/equipment used to manipulate/analyse the data: Home range analysis was completed using the Zoatrack platform (R. G. Dwyer, C. Brooking, W. Brimblecombe, H. A. Campbell, J. Hunter, M. E. Watts, C. E. Franklin, "An open Web-based system for the analysis and sharing of animal tracking data", Animal Biotelemetry 3:1, 29 Jan 2015, DOI 10.1186/s40317-014-0021-8.) Statistical analysis was done using R software (Calenge C. The package &ldquo;adehabitat&rdquo; for the R software: A tool for the analysis of space and habitat use by animals. Ecol Modell. 2006;197(3):516-9).</p>
DOI: 10.4225/28/570ddde168124
title: CRUCLIM 30-year Average Bioclimate Time Series (1915 - 1995): Mapped climate data with global extent at 30 arcminute resolution
DOI: 10.4225/28/5546afe4f0b90
title: Soil respiration measurements for savanna and forest vegetation types in the Wet Tropics and Atherton Tablelands region