cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.j3tx95xgt
title: Data from: Classification of mathematics ability and use of online tools

description: Enrolment in secondary school science and mathematics subjects has been
 declining for some time. This decrease is particularly evident in the
 final years of secondary education and occurs in parallel with
 the delivery of advanced mathematics. This decreasing trend in
 science, technology, engineering and mathematics (STEM) enrolment at the
 secondary level are by no means restricted to Australia, with reports from
 the UK and Europe, the Middle East and Asia all echoing the same decline.
 Alongside this decline in mathematics enrolment comes an increased
 interest in, and reliance upon, online resources to bolster
 learning. The educational challenge arising from such an
 environment, while notable in the high school context, has profound
 follow-on effects within the higher education sector. The data in this
 submission is twofold and addresses both the decay in learning, and the
 increase in tool reliance. For the former we developed a tool to classify
 mathematics capacity in order to provide the educator with an easily
 deployed and robust manner. For the second, we analysed responses as to
 whether students (a) made use of online tools at all, and (b) did they use
 tools provided by us or another offering. Further to this, we analysed
 responses relating to student perception of the value of online tools.
 Building on previous works around self-efficacy, and including level of
 previous learning, we found three distinct groups (low, medium and high)
 which reflected pre-delivery testing scores which might allow an educator
 to design interventions targeting a students mathematical capacity. We
 also found no difference in perceived value of the use of online tools
 where students used either supplied or other programs.
description: Quiz scores extracted from LMS, remaining data extracted from
 surveys within LMS, IQ range calculation.
DOI: 10.5061/dryad.2v6wwpzqk
title: Water stages in a tidal marsh measured using images, visually and automatically, along with stages measured using pressure transducer and Doppler sensors

description: This data was acquired to evaluate the performance of an image based
 system to measure water stages in streams and rivers. It contains
 measurements performed visually and stored
 (NR_Visual_Data_120201_120724.csv) It contains the measurements performed
 automatically by the system studied corresponding to those done visually
 (NR_Gaugecam_Data_120201_120724.csv) It contains the measurements done
 automatically (GC) and those measured by ISCO, HOBO, and Sontek
 instruments (NR-GC-vs-ISCO.csv)
description: The water stage data were collected in a tidal marsh of the coast
 of North Carolina exactly at 34°49'03.7"N
 76°36'16.5"W. The visual data was collected
 from visually reading water stage in images taken by a time lapse camera
 equipped with an IR illuminator for nighttime readings.
 The automatically read data was collected from image analysis
 using the GaugeCam system. The  ISCO, HOBO, and Sontek
 data were acquired along side the other data.
description: N/A
DOI: 10.6078/d1wd9w
title: Data from: Diurnal trends of indoor and outdoor fluorescent biological aerosol particles in a tropical urban area

description: We evaluated diurnal trends of size-resolved indoor and outdoor
 fluorescent biological airborne particles (FBAPs) and their contributions
 to particulate matter (PM) within 0.5–20 μm. After a ten-week continuous
 sampling via two identical wideband integrated bioaerosol sensors, we
 found that both indoor and outdoor diurnal trends of PM were driven by its
 bioaerosol component. Outdoors, the median [interquartile range] FBAP mass
 concentration peaked at 8.2 [5.8–9.9] μg/m3 around sunrise and showed a
 downtrend from 6:00 to 18:00 during the daytime and an uptrend during the
 night. The nighttime FBAP level was 1.8 [1.4–2.2] times higher than that
 during the daytime. Indoors, the rise in concentrations of FBAPs smaller
 than 1 μm coincided with the starting operation of the heating,
 ventilation, and air conditioning (HVAC) system at 6:00, and the
 concentration peaked at 8:00 and dropped to the daily average by noontime.
 This indicated that the starting operation of the HVAC system dislodged
 the overnight settled and accumulated fine bioaerosols into the indoor
 environment. For particles larger than 1 μm, the variation of mass
 concentration was driven by occupancy. Based on regression modeling, the
 contributions of indoor PM, non-FBAP, and FBAP sources to indoor mass
 concentrations were estimated to be 93%, 67%, and 97% during the occupied
 period.
DOI: 10.5061/dryad.7m0cfxpwn
title: FURIN promoter methylation predicts the risk of incident diabetes: A prospective analysis in the Gusu cohort

description: Background: Furin has been associated with diabetes but the underlying
 mechanisms are unclear. As a mediator linking fixed genome and dynamic
 environment, DNA methylation of its coding gene FURIN may be involved.
 Here, we aimed to examine the prospective association between DNA
 methylation in FURIN promoter and incident diabetes during 4 years of
 follow-up in Chinese adults. Methods: DNA methylation levels in FURIN
 promoter were quantified by target bisulfite sequencing using peripheral
 blood from 1836 participants in the Gusu cohort who were free of diabetes
 at baseline. To examine the association between DNA methylation levels in
 FURIN promoter and incident diabetes, we constructed a logistic regression
 model adjusting for the conventional factors. Multiple testing was
 controlled by adjusting for the total number of CpG sites assayed using
 the false-discovery rate approach. Results: Among the 1836 participants
 free of diabetes at baseline, 109 (5.94%) participants developed diabetes
 during the average of 4 years of follow-up. Hypermethylation at two of the
 eight CpG sites assayed in the FURIN promoter was associated with an
 increased risk of diabetes, after multivariable adjustment and multiple
 testing correction. Every 5% increment in methylation levels at CpG1 and
 CpG2 were associated with a 22% (OR=1.22, 95%CI: 1.05-1.43, P=0.009,
 q=0.038) and 39% (OR=1.39, 95%CI: 1.08-1.77, P=0.009, q=0.038) higher risk
 of incident diabetes, respectively. The gene-based association analysis
 revealed that DNA methylation at multiple CpG loci was jointly associated
 with incident diabetes (P&lt;0.001). Using the average methylation
 level of the 8 CpG loci in FURIN promoter revealed a similar association
 (OR=1.28, 95% CI: 1.02–1.62, P=0.037). Conclusions: These results
 suggested that the hypermethylation levels in FURIN promoter were
 associated with an increased risk for incident diabetes in Chinese adults.
DOI: 10.5061/dryad.0p2ngf23r
title: Full-factorial breeding experiment with lake char (Lake Geneva, winter 2017/2018)

description: We sampled 16 wild lake char (Salvelinus umbla) and used their gametes to
 investigate the genetic consequences of different mating scenarios. A
 full-factorial breeding was used to separate additive genetic from
 maternal environmental effects, and embryos were raised singly after
 sublethal exposures to a pathogen, a common pollutant, or water only. In
 all treatment groups, embryo development was strongly reduced with
 increased genetic relatedness between the parents. Contrary to predictions
 of ‘good genes’ sexual selection, pathogen tolerance of offspring declined
 with increasing coloration of their fathers. Determination of inbreeding
 and kinship coefficients: All 10 males and 4 of the 6 females were used in
 a parallel study that included sperm competition experiments (Nusbaumer et
 a. 2021). These 14 parents had been prepared in one library for ddRAD
 sequencing on 2 lanes on an Illumina HIseq 2500 (see de Guttry et al. 2022
 for the corresponding 14 gzipped .fastq of these individuals). The
 remaining 2 females were later genotyped in a different library but again
 on an Illumina HIseq 2500. After demultiplexing, the 16 individuals were
 processed together using stacks 2.53, and with the resulting filtered VCF
 file estimations of kinship and inbreeding have been done. For each
 individual, the fastq files of the 2 sequencings lanes (2018/2019), or of
 the replicates within the same library (2021), were merged after
 demultiplexing using process_radtags (Stacks 2.53). The
 bash and R scripts are provided. There are no legal or ethical
 considerations regarding the above-mentioned data.
description: See Methods
 in Garaud L., Nusbaumer D., de Guttry C., Ançay L.,
 Jacquet S., Lasne E., Wedekind C. 2022 Genomic compatibility excels
 possible good genes effects of sexual selection in lake char. bioRxiv.
 (doi:https://doi.org/10.1101/2022.03.03.482834).
description: Nusbaumer D., Garaud L., de Guttry C., Ançay L., Wedekind C. 2021
 Sperm of more colorful males are better adapted to ovarian fluids in lake
 char (Salmonidae). bioRxiv. (doi: https://doi.org/10.1101/2021.10.02.462848). de Guttry C., Nusbaumer D., Garaud L., Ançay L., Wedekind C. 2022 Inbreeding and kinship coefficients of parents of sperm competition experiment with lake char (Lake Geneva 2017/18). Dryad Digital Repository. (doi:10.5061/dryad.rn8pk0pct).
DOI: 10.5061/dryad.1ns1rn8wh
title: Optical signature dataset for living macrophages and monocytes

description: Pro-inflammatory (M1) and anti-inflammatory (M2) macrophage phenotypes
 play a fundamental role in the immune response. The interplay and
 consequently the classification between these two functional subtypes is
 significant for many therapeutic applications. Albeit, a fast
 classification of macrophage phenotypes is challenging. For instance,
 image-based classification systems need cell staining and coloration,
 which is usually time and cost-consuming, such as multiple cell surface
 markers, transcription factors and cytokine profiles are needed. A simple
 alternative would be to identify such cell types by using a single-cell,
 label-free and high-throughput light scattering pattern analyses combined
 with a straightforward machine-learning-based classification. Here, we
 compared different machine learning algorithms to classify distinct
 macrophage phenotypes based on their optical signature obtained from an
 ad-hoc developed wide angle static light scattering apparatus. As the main
 result, we were able to identify unpolarized macrophages from M1- and
 M2-polarized phenotypes and distinguished them from naive monocytes with
 an average accuracy above 85%. Therefore, we suggest that optical
 single-cell signatures within a lab-on-a-chip approach along with machine
 learning could be used as a fast, affordable, non-invasive macrophage
 phenotyping tool to supersede resource-intensive cell labelling.
description: Fluid forces 3D align cells from a cell sample to the centreline
 of a microfluidic device, where a collimated laser beam interacts with
 passing individual cells. The light interaction reveals significantly
 different scattering patterns (optical signature) for each macrophage
 phenotype as well as monocytes, which a camera-based readout system
 records. The obtained data is processed (dataset) and classified with
 machine learning to obtain a label-free macrophage phenotype
 classification. The dataset indicates pooled data of three probands in the
 last column the cell type (0 - monocyte, 1 - MO-macrophages, 2 -
 M1-macrophages, 3 - M2-macrophages). In addition, we show the dataset of
 the PCR analysis and bright-field observations of investigated cells from
 one porband.
DOI: 10.5061/dryad.7h44j0zw7
title: Multi-trophic consequences of mass flowering in two bamboos (Poales: Poaceae)

description: Mass flowering (masting) has been hypothesized to be an adaptive strategy
 to satiate florivores/granivores. However, few studies have corroborated
 this by examining seed predation in multiple flowering patches of varying
 sizes across a wide geographical range over multiple years. Moreover, the
 trophic consequences of masting for the parasitoids of
 florivores/granivores and their feedback effects are poorly understood.
 Here, we used the nationwide masting of two bamboo
 species, Sasamorpha borealis var. borealis and Phyllostachys
 nigra var. henonis, in Japan and compared florivory and
 seed sets in multiple flowering patches during the masting year and the
 following sporadic flowering years. We found lower florivory damage in
 both bamboo species and higher seed set for Sasamorpha
 borealis var. borealis in patches with massive
 and spatiotemporally isolated flowering. Additionally, the relative level
 of parasitism of florivores increased considerably in the sporadic
 flowering year, particularly in large flowering patches of Sasamorpha
 borealis var. borealis. Our results indicate the importance of
 spatiotemporal isolation during masting for satiating two dipteran
 florivores and suggest that parasitoids might rapidly suppress the extent
 of florivory in the sporadic flowering years after masting. Collectively,
 our study highlights the importance of considering multi-trophic
 consequences in understanding the adaptive significance of masting.
DOI: 10.5061/dryad.0vt4b8h1x
title: Adaptation to environmental temperature in divergent clades of the nematode Pristionchus pacificus

description: Because of ongoing climate change, populations of organisms are being
 subjected to stressful temperatures more often. This is especially
 problematic for ectothermic organisms, which are likely to be more
 sensitive to changes in temperature. Therefore, we need to know if
 ectotherms have adapted to environmental temperature and, if so, what are
 the evolutionary mechanisms behind such adaptation. Here, we use the
 nematode Pristionchus pacificus as a case study to
 investigate thermal adaptation on the Indian Ocean island of La Réunion,
 which experiences a range of temperatures from coast to summit. We study
 the evolution of high temperature tolerance by constructing a phylogenetic
 tree of strains collected from many different thermal niches. We show that
 populations of P. pacificus at low altitudes have higher
 fertility at warmer temperatures. Most likely, this phenotype has arisen
 recently and at least twice independently, consistent with parallel
 evolution. We also studied low temperature tolerance and showed that
 populations from high altitudes have increased their fertility at cooler
 temperatures. Together, these data indicate that P.
 pacificus strains on La Réunion are subject to divergent
 selection, adapting to hot and cold niches at the coast and summit of the
 volcano. Precisely defining these thermal niches provides
 essential information for models that predict the impact of future climate
 change on these populations.
description: This dataset consists of a list of P. pacificus strains,
 phenotype data, clade and beetle host. The data was processed In Matlab to
 plot the data and in R for statistical analysis. The data is from the
 manuscript "Adaptation to environmental temperature in divergent
 clades of the nematode Pristionchus pacificus" which is in press at
 Evolution.
description: Save these files to a folder  
 Leaver_Temerature_Adaptation_figures_in_Matlab.m
 get_counts.m equal_bins.m
 Strain_Table_name_phenotype_location_alt_beetle_clade.csv stations.csv beetleRange.csv Open the .m file in Matlab and run the script from that folder. The script calls the two functions 'get_counts.m' and 'equal_bins.m' and loads the three '.cvs' files. The output are the figures and a file called 'HBAC.txt' which is input for the R script. Download these files Leaver_et_al_2022_Adaptation to environmental temperature_Evolution_statistical_analysis.R Alt-Freq_groups.txt HBAC.txt stations.txt TFmaxVclade.txt Open the .R file in an R compiler and run the script. The script calls loads the four .txt files and performs statistical analyses. Please consult the comments in the scripts for futher details.
DOI: 10.5061/dryad.gtht76hp8
title: Data from: Fauxcurrence: simulating multi-species occurrences for null models in species distribution modelling and biogeography

description: This dataset contains GPS coordinates of occurrences from 22 species from
 Sulawesi, Indonesia. It was used in the manuscript "Fauxcurrence:
 simulating multi-species occurrences for null models in species
 distribution modelling and biogeography" to demonstrate the utility
 of the fauxcurrence R package (https://github.com/ogosborne/fauxcurrence).
description: The raw occurrence data came from one of three source
 types: The Global Biodiversity Information Facility
 (GBIF), from georeferenced specimens in museum or herbarium collections,
 or from previously published papers. Which of these source types was used
 for each data point, as well as publication DOI and the institution which
 holds the specimen, where applicable, are indicated in the dataset.
 Occurrences were then filtered using a 2.5 minute raster of Sulawesi (i.e
 each raster cell was approximately 4.65 km across) such that there was a
 maximum of one occurrence per species in each cell. The coordinates in the
 dataset are the center of the raster cell in which they occur, rather than
 the original raw coordinates.
description: The dataset consists of an xlsx spreadsheet containing three
 sheets. The sheet entitled "data" contains latitude and
 longitude, species name and the source of each data point. The sheet
 entitled "column descriptions" contains detailed descriptions of
 each column in "data". The sheet entitled "institution
 identifiers" contains the full name of each short institution ID used
 in "data" to represent the source instituion for datapoints
 derived from georeferenced herbarium or museum specimens.
DOI: 10.5061/dryad.6hdr7sr31
title: Why does the metabolic cost of walking increase on compliant substrates?

description: Walking on compliant substrates requires more energy than walking on hard
 substrates, but the biomechanical factors that contribute to this increase
 are debated. Previous studies suggest various causative mechanical
 factors, including disruption to pendular energy recovery, increased
 muscle work, decreased muscle efficiency and increased gait variability.
 We test each of these hypotheses simultaneously by collecting a large
 kinematic and kinetic data set of human walking on foams of differing
 thickness. This allowed us to systematically characterise changes in gait
 with substrate compliance, and, by combining data with mechanical
 substrate testing, drive the very first subject-specific computer
 simulations of human locomotion on compliant substrates to estimate the
 internal kinetic demands on the musculoskeletal system. Negative changes
 to pendular energy exchange or ankle mechanics are not supported by our
 analyses. Instead, we find that the mechanistic causes of increased
 energetic costs on compliant substrates are more complex than captured by
 any single previous hypothesis. We present a model in which elevated
 activity and mechanical work by muscles crossing the hip and knee are
 required to support the changes in joint (greater excursion and maximum
 flexion) and spatiotemporal kinematics (longer stride lengths, stride
 times and stance times, and duty factors) on compliant substrates.
description: Matlab R Qualisys Track
 Manager
DOI: 10.5061/dryad.3j9kd51m3
title: Elevational and local climate variability predicts thermal breadth of mountain tropical tadpoles

description: The climate variability hypothesis posits that increased environmental
 thermal variation should promote species with broader thermal tolerance
 breadths, while stable environments should promote thermal specialists.
 This hypothesis has been tested on large spatial scales, such as latitude
 and elevation, but less so on smaller scales which reflect the experienced
 microclimate. Here, we estimated thermal tolerance limits of 75 species of
 amphibian tadpoles from an aseasonal tropical mountain range of the
 Ecuadorian Andes, distributed along a 3500 m elevational range, to test
 the climatic variability hypothesis at a large (elevation) and a small
 (microhabitat) scales. We show how species from less variable thermal
 habitats, such as lowlands and those restricted to streams, exhibit
 narrower thermal tolerance breadths than highland and pond-dwelling
 species respectively. Interestingly, while broader thermal tolerance
 breadths at large scales are driven by higher cold tolerance variation
 (heat-invariant hypothesis), at local scales they are driven by higher
 heat tolerance variation. This contrasting pattern may result from
 divergent selection on both thermal limits to face environmental thermal
 extremes at different scales. Specifically, within the same elevational
 window, exposure to extreme maximum temperatures could be avoided through
 habitat shifts from temporary ponds to permanent ponds or streams, while
 minimum peak temperatures remained invariable between habitats but
 steadily decreased with elevation. Therefore addressing the effects of
 habitat conversion is crucial for future research on resilience to climate
 change.
DOI: 10.15468/dl.efvezs
title: Occurrence Download

description: A dataset containing 890 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is one of (Kenya, Tanzania, United Republic of)",
 "OccurrenceStatus is Present",
 "TaxonKey is Bitis arietans"
 ]
}

 The dataset includes 890 records from 46 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003081-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.17948921
title: Database experimental data (dataset 1 of 4) "Visualization and quantification of gas-liquid mass transfer in a sparger flow using a wire-mesh sensor", dataset 1 of 4, calibration series

description: ## DATABASE EXPERIMENTAL DATA (DATASET 1 OF 4) "VISUALIZATION AND QUANTIFICATION OF GAS-LIQUID MASS TRANSFER IN A SPARGER FLOW USING A WIRE-MESH SENSOR", DATASET 1 OF 4, CALIBRATION SERIESReference Open-Access journal publication: Alvaro Ramos Perez, Terttaliisa Lind, Victor Petrov, Annalisa Manera, Horst-Michael Prasser, Visualization and quantification of gas–liquid mass transfer in a sparger flow using a wire-mesh sensor, Chemical Engineering Science, Volume 320, Part A, 2026, 122360, ISSN 0009-2509, doi:10.1016/j.ces.2025.122360.

## THIS DATA CORRESPONDS TO THE DATASET 1 OF 4, CALIBRATION SERIES. THE ENTIRE DATASET LIST OF THE PUBLICATION IS:-DATASET 1 OF 4, CALIBRATION SERIES-DATASET 2 OF 4, TRACER SERIES-DATASET 3A+3B OF 4, CO2 SERIES-DATASET 4 OF 4, AIR SERIES

## WMS DATA"README_WMS.txt": Description of data matrix "WMS.csv" and data format "WMS.zip"