cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.t794hh
title: Occurrence Download

description: A dataset listing the 4 species recorded in GBIF matching the query:
{
 "TaxonKey" : [
 "is Boasaxius princeps (Boas, 1880)"
 ]
}

 The dataset's 4 records were derived from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013126-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.17632/k3fsfzr7j8
title: Prkra dimer senses double-stranded RNAs to dictate global translation efficiency

description: Double-stranded RNAs (dsRNAs), known as conserved pathogen-associated molecular patterns, activate the integrated stress response via interferon-induced protein kinase R (PKR), leading to global translation inhibition. However, the interferon system is inactive in pluripotent cells, leaving the mechanisms of dsRNA sensing and translational control unclear. In this study, we utilized early zebrafish embryos as a model of pluripotent cells and discovered a PKR-independent blockage of translation initiation by dsRNA stimulation. Prkra dimer was identified as the genuine dsRNA sensor. Upon dsRNA binding, the dimerized dsRNA binding domain 3 of Prkra becomes activated to sequester the eIF2 complexes from the translation machinery, inhibiting global protein synthesis. This distinctive embryonic stress response restricts RNA virus replication in zebrafish embryos, is conserved in mouse embryonic stem cells, and compensates PKR function in differentiated cells. Therefore, the Prkra-mediated dsRNA sensing and translation control may serve as a common strategy for cells to adapt environmental stresses.
DOI: 10.6084/m9.figshare.12650834.v1
title: E. coli PopPUNK Database - complete

description: PopPUNK database which can be used to query any genome and examine its context relative to the E. coli dataset.<br>To use: download both parts, unzip into a single directory named "ecoli_poppunk_db" and run using:<br>poppunk --assign-query --ref-db ecoli_poppunk_db --q-files list_of_genomes.txt --output output_dir<br>**Built using PopPUNK version 1.1.3**
DOI: 10.6084/m9.figshare.24958776.v1
title: BJ_MARGA_Surfacedata.xlsx

description: Observations at BJ station
DOI: 10.17632/j57d4jrf2j
title: Optimal Design of Electric Machine with Efficient Handling of Constraints and Surrogate Assistance

description: This dataset includes data for reproducing results presented in the mentioned paper. There are results obtained from 3 different optimization methods, NSGA-II, NSGA-II-WR, and NSGA-II-WR-SA (details of methods included in the paper). For NSGA-II and NSGA-II-WR, there are 5 different excel files which are the output data of five optimization runs with both these methods. For NSGA-II-WR-SA, there are 12 excel files and each excel file corresponds to a particular parameter configuration (explained in the paper) and holds the data for five optimization runs completed for that configuration. 
In each dataset, the first two columns represent objective functions F1 (average torque) and F2 (torque pulsations). The next ten columns represent corresponding optimization variables (x1 – x10). It should be noted that values for F1 (average torque) are multiplied by -1 since the optimization problem was formulated as a minimization problem.
DOI: 10.17632/7chtgrwkv3
title: Natural fiber-recycled aggregate concrete compressive strength with web-based optimized UI

description: This dataset provides comprehensive data on the compressive and tensile strength of natural fiber-reinforced recycled aggregate concrete. It includes measurements from a range of samples prepared using different ratios of natural fibers and recycled aggregates. The dataset is intended to support research on sustainable building materials, specifically focusing on how the incorporation of natural fibers and recycled aggregates can enhance the mechanical properties of concrete.

Key Features:

Variables: Includes detailed columns for sample identifiers, mix ratios (natural fiber percentage, recycled aggregate percentage), curing time, and the corresponding compressive and tensile strength values.

Units: Compressive strength and tensile strength are measured in MPa.

Data Collection: Experimental data were obtained from published articles; available in peer reviewed journals mentioned in 'source' section.

Applications: Suitable for research in sustainable construction materials, concrete technology, and material science, as well as for those exploring the mechanical performance of eco-friendly building materials.

Potential Use Cases: This dataset can be used to analyze the impact of varying natural fiber and recycled aggregate content on concrete strength, develop predictive models for material performance, and support further innovation in sustainable construction practices.

Format: Excel file (.xlsx)

Keywords: Natural fiber, Recycled aggregate, Concrete, Compressive strength, Tensile strength, Sustainable construction, Eco-friendly materials

Run the app in powershell with following code:-
streamlit run app.py

Required libraries:-
numpy==1.21.4
pickle-mixin==1.0.2
streamlit==1.12.0
streamlit-option-menu==0.3.2
scikit-learn==1.0.1
protobuf==3.20.1
xgboost==1.6.1
lightgbm==3.3.2
catboost==1.0.6
DOI: 10.17632/tw2bjh857f
title: Synonymous codon usage regulates translation initiation; Barrington et al.

description: Abstract: Nonoptimal synonymous codon usage represses gene expression, but the underlying mechanisms are poorly understood. We and others have shown that nonoptimal codons slow translation elongation speeds and thereby trigger mRNA degradation. Nevertheless, transcript levels are often insufficient to explain protein levels, suggesting there are additional mechanisms by which codon usage regulates gene expression. Using reporter assays in human and Drosophila cells, we found that transcript levels account for less than half of the variation in protein abundance. This discrepancy is explained by translational differences whereby nonoptimal codons repress translation initiation. Nonoptimal transcripts are also less bound by the key translation initiation factors eIF4E and eIF4G, providing a mechanistic explanation for their reduced initiation rates. Importantly, translational repression can occur in the absence of mRNA decay and deadenylation, and it does not depend on the known nonoptimality sensor, CNOT3. Our results reveal a potent new mechanism of regulation by codon usage, where nonoptimal codons repress further rounds of translation.

Raw images are included here, i.e. Western blots and microscopy images. They are organized by Figure.
DOI: 10.6084/m9.figshare.24239056.v2
title: Holstein_Meta_Analysis_ Supplementary_Material

description: Supplementary Materials
DOI: 10.6084/m9.figshare.24718599.v2
title: Additional files for Ethanolamine metabolism through two genetically distinct loci enables Klebsiella pneumoniae to bypass nutritional competition in the gut

description: This is additional information generated for the publication entitled: <i>Ethanolamine metabolism through two genetically distinct loci enables Klebsiella pneumoniae to bypass nutritional competition in the gut</i>.This includes:Supplemental methods file for publication brevitySupporting statistics for the within protein variation analysisThe eut loci used in fasta formatGenome metadata of all <i>K. pneumoniae</i> Species Complex genomes used in this study All R code used to generate figures and perform statistics in this study
DOI: 10.6084/m9.figshare.27239181.v1
title: Test for Test

description: Test research
DOI: 10.11583/dtu.14546616.v1
title: Data for "Improved dynamic imaging of multiphase flow by constrained tomographic reconstruction” - simulation_attenuation_blur

description: Ground truth used for forward projection in the article 'Improved dynamic imaging of multiphase flow by constrained tomographic reconstruction'. The forward projections can be reconstructed and compared to with the file <i>simulation_attenuation_rotated.npy </i>https://doi.org/10.11583/DTU.14553741 to check the quality of the reconstruction. The code can be found at https://gitlab.gbar.dtu.dk/pwra/NumericalExperiments<br>This item is a part of the collection: Data for "Improved dynamic imaging of multiphase flow by constrained tomographic reconstruction”, https://doi.org/10.11583/DTU.c.5448594
DOI: 10.4121/uuid:71354fa6-a5e2-49f3-80ab-ccc7ed1ec327
title: Data underlying the research of Integrated Sensor Placement for LW-SHM

description: Captured ultrasonic sensor data from different sensing locations for baseline and impacted aluminum plates. Dataset for doi 10.1177/1475921720933172
DOI: 10.6084/m9.figshare.21131953.v2
title: Data-Supara Mental Health Service

description: <strong>Prevalence of common mental health problems and associated </strong> <strong>factors among university students visiting Supara mental health service: A Cross-Sectional Study</strong> <br>
DOI: 10.6084/m9.figshare.28605827.v1
title: Oryza australiensis structural variations

description: <i>O. australiensis </i>chromosomes were compared with those from <i>O. sativa </i>(NCBI: PRJNA953663 (Shang et al., 2023), as well as those from a previously published O. australiensis assembly (Long et al., 2024) using D-Genies v1.5 (Cabanettes and Klopp, 2018) and Syri (Goel et al., 2019) with Minimap2 v2.28 (Li, 2018) to investigate intra- and inter-species structural synteny.
DOI: 10.15468/dl.pxsp22
title: Occurrence Download

description: A dataset containing 539 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "TaxonKey is Phlox hoodii Richardson",
 "Year is less than or equal to 2000",
 "Year is greater than or equal to 1970",
 {
 "or" : [
 {
 "not" : {
 "EstablishmentMeans" : [
 "is one of (MANAGED, INTRODUCED)"
 ]
 }
 },
 "EstablishmentMeans is null"
 ]
 },
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 1000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 539 records from 63 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0013133-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.gmsbcc2zv
title: Data from: Atypical winter coat coloration of snowshoe hares near the southern extent of their range

description: Many species have a variety of adaptations to winter weather, but these
 adaptations could become maladaptive if winter snowfall and temperatures
 are more variable. Snowshoe hares (Lepus americanus) molt from a brown
 summer coat to a white winter coat, but reductions in snow cover could
 result in phenotypic mismatch, which in turn could reduce survival. Hare
 populations near the southern extent of their range might be especially
 sensitive to phenotypic mismatch because of variable winter weather, but
 variation in winter coat coloration could allow for these populations to
 persist in inconsistent snow cover conditions. Using capture data (n=59
 individual hares) spanning 8 years, we document the prevalence of 3
 atypical winter coat color phenotypes (brown bodies, brown-ringed eyes,
 and brown ears) in a snowshoe hare population in Pennsylvania. The
 majority of hares in our study (84.7%) exhibited at least one of these
 atypical winter phenotypes, with a high probability of hares having
 brown-ringed eyes or brown ears, and four hares remaining brown during the
 winter. The presence and high prevalence of non-white winter phenotypes
 could be beneficial for hares in this population if winters are mild with
 low snow cover. If these phenotypes have a genetic basis, there may be the
 evolutionary potential for hares to persist near the southern extent of
 their range, even in the face of changing winters.
description: # Atypical winter coat coloration of snowshoe hares near the southern
 extent of their range
 [https://doi.org/10.5061/dryad.gmsbcc2zv](https://doi.org/10.5061/dryad.gmsbcc2zv) ## Description of the data and file structure Data of snowshoe hare winter coloration phenotypes, Pennsylvania, 2014-2022. ### Files and variables #### File: Ecosphere\_hare\_coloration\_data.csv **Description:** Hare coloration data ##### Variables * Hare_ID: Unique individual animal ID * Capture_date: Date of animal capture at which photos were taken to document coloration (dd/mm/yyyy format) * Study: Phone of the research project either indicating Old (2014-2015) or New (2021-2022) * Brown_body: Binary column indicating if a hare exhibited a brown winter body * Brown_ears: Binary column indicating if a hare exhibited brown winter ears * Brown_eyes: Binary column indicating if a hare exhibited winter brown-ringed eyes * DOY: Day of the year associated with the capture data ## Access information Contact Information: Please contact Emily Boyd (eboyd@pa.gov) for more information about the data or analyses.
DOI: 10.5061/dryad.2bvq83c20
title: Soybean phenology dataset for determining soybean growth stages

description: This database compiles soybean phenology data to address significant
 variations in soybean adaptation and development caused by genetic
 improvements and regional climatic differences. The dataset includes
 growth staging information collected from field experiments conducted
 across 11 location-years in Arkansas, Minnesota, Ohio, Virginia, and
 Wisconsin (USA) during 2017 and 2018. It incorporates data from commercial
 soybean varieties spanning maturity groups 0 to 7.5. Growth stages were
 determined using Fehr and Caviness (1977) approach. This dataset is
 intended as a resource for the scientific community, students, and
 stakeholders, providing soybean phenological data to improve predictions
 and decision-making in areas such as input timing, yield estimation,
 irrigation management, cultivar selection, and phenotyping.
description: This study examined changes in soybean phenology to determine
 growth stages, focusing on the influence of genetic improvements and
 regional climatic differences. The dataset includes data from field
 experiments conducted across 11 location-years in Arkansas, Minnesota,
 Ohio, Virginia, and Wisconsin (USA) during 2017 and 2018. The experiments
 followed a randomized complete block split-plot design with four
 replications. The commercial soybean varieties planted across these
 location-years ranged from maturity group 0 to 7.5. This dataset contains
 soybean phenology data assessed using the Fehr and Caviness (1977)
 approach. For that, we collected daily (minimum of three times per week)
 growth staging, plant growth characteristics (e.g., number of nodes),
 grain yield, and composition.
description: # Soybean phenology dataset for determining soybean growth stages
 [https://doi.org/10.5061/dryad.2bvq83c20](https://doi.org/10.5061/dryad.2bvq83c20) ## Description of the data and file structure This dataset contains soybean phenology data assessed using the Fehr and Caviness (1977) approach. For that, we collected daily (minimum of three times per week) growth staging, plant growth characteristics (e.g., number of nodes), grain yield, and composition. ### Files and variables #### File: SeveroSilvaEtal\_Phenology\_Dataset\_Dryad.xlsx **Description:** This dataset contains five tabs within a single Excel file: ##### Variables * **readme**: Provides detailed information about the field experiments, including descriptions of the variables measured and analyzed. * **GeneralInformation**: Contains site information, including tillage type, site coordinates, planting and harvest dates, and seeding rate at each location-year. * **PhenologyData**: Includes soybean growth stage data. * **NodeData**: Represents the number of soybean nodes over time. * **GrainHarvest**: Contains grain soybean yield and composition measurements.
DOI: 10.15468/dl.g77tp8
title: Occurrence Download

description: A dataset containing 1050 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Ecuador",
 "TaxonKey is Didelphis marsupialis"
 ]
}

 The dataset includes 1050 records from 33 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004257-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.34740/kaggle/dsv/14656758
title: Peer-to-Peer Boliviano (BOB) Exchange Data
DOI: 10.5281/zenodo.18406165
title: SuperDARN data in netCDF format (2006-Nov)

description: 2006-Nov SuperDARN radar data in netCDF format. These files were produced using version 3.0 of the public FitACF algorithm, using the AACGM v2 coordinate system. Cite this dataset if using our data in a publication.


The RST is available here: https://github.com/SuperDARN/rst



The research enabled by SuperDARN is due to the efforts of teams of scientists and engineers working in many countries to build and operate radars, process data and provide access, develop and improve data products, and assist users in interpretation.
Users of SuperDARN data and data products are asked to acknowledge this support in presentations and publications.
A brief statement on how to acknowledge use of SuperDARN data is provided below.




Users are also asked to consult with a SuperDARN PI prior to submission of work intended for publication.
A listing of radars and PIs with contact information can be found here:
(SuperDARN Radar Overview)



Recommended form of acknowledgement for the use of SuperDARN data:



'The authors acknowledge the use of SuperDARN data. SuperDARN is a collection of radars funded by national scientific funding agencies of Australia, Canada, China, France, Italy, Japan, Norway, South Africa, United Kingdom and the United States of America.'
DOI: 10.5281/zenodo.6631371
title: SuperDARN data in netCDF format (2006-Nov)

description: 2006-Nov SuperDARN radar data in netCDF format. These files were produced using version 3.0 of the public FitACF algorithm, using the AACGM v2 coordinate system. Cite this dataset if using our data in a publication.


The RST is available here: https://github.com/SuperDARN/rst



The research enabled by SuperDARN is due to the efforts of teams of scientists and engineers working in many countries to build and operate radars, process data and provide access, develop and improve data products, and assist users in interpretation.
Users of SuperDARN data and data products are asked to acknowledge this support in presentations and publications.
A brief statement on how to acknowledge use of SuperDARN data is provided below.




Users are also asked to consult with a SuperDARN PI prior to submission of work intended for publication.
A listing of radars and PIs with contact information can be found here:
(SuperDARN Radar Overview)



Recommended form of acknowledgement for the use of SuperDARN data:



'The authors acknowledge the use of SuperDARN data. SuperDARN is a collection of radars funded by national scientific funding agencies of Australia, Canada, China, France, Italy, Japan, Norway, South Africa, United Kingdom and the United States of America.'
DOI: 10.5061/dryad.9kd51c5v3
title: Europe’s Nature Restoration Law has now been adopted. What comes next?

description: The European Union has recently adopted the Nature Restoration Law to
 address the widespread degradation of ecosystems. A key concern now is how
 effectively the law will be implemented across member states. We highlight
 the potential of spontaneous ecological succession as a viable method for
 ecosystem restoration, often overlooked in favor of active restoration
 approaches. Analysis of 530 global studies and 156 European studies found
 that spontaneous succession succeeded in restoring natural or semi-natural
 vegetation in 60% and 67% of cases, respectively. This restoration
 approach, when applied under suitable conditions, can effectively recover
 degraded or destroyed ecosystems while being cost-efficient. We argue that
 the ecological benefits of spontaneous succession should be more widely
 considered in restoration projects.
description: List of European studies used for comparison with world studies
 (published in Prach & Walker, 2020, https://doi.org/10.1017/9781108561167). 
description: # Europe’s Nature Restoration Law has now been adopted. What comes next?
 [https://doi.org/10.5061/dryad.9kd51c5v3](https://doi.org/10.5061/dryad.9kd51c5v3) ## Description of the data and file structure ### Files and variables #### File: Supplementary\_Prach\_et\_al.xlsx **Description:** List of European studies used for comparisons with world studies (published in Prach & Walker, 2020; new recent studies added). The blue marked study provides results for four sites in four European countries. ##### Variables * References: References of European studies used for comparisons with world studies (published in Prach & Walker, 2020) * Success: For each study the success of succession was evaluated (successful, partly-successful, unsuccessful) * Type: Type of successional series (Abandoned fields, Cyclone, Dunes, Fire, Floodplain, Forest clearings, Glaciers, Landslide, Mining, Volcano) ## Code/software Excel File (.xlsx)
DOI: 10.13140/rg.2.2.12166.64325
title: PROFIL SASARAN PROGRAM STOP PERNIKAHAN USIA DINI
DOI: 10.5061/dryad.2rbnzs80w
title: Scaling the fitness effects of mutations with respect to differentially adapted Arabidopsis thaliana accessions under natural conditions

description: Mutations are the ultimate source of genetic variation for natural
 selection to act upon. A major question in evolutionary biology is the
 extent to which new mutations can generate genetic variation under natural
 conditions to permit adaptive evolution over ecological time scales. Here
 we collected fitness data for chemically induced (ethylmethane sulfonate,
 EMS) mutant lines descended from two Arabidopsis thaliana ecotypes that
 show differential adaptation to the local environment of our common garden
 plot. Using a novel nonparametric Bayesian statistical approach, we found
 that both ecotypes accumulated substantial proportions of beneficial
 mutations. The poorly adapted ecotype exhibited higher mean mutational
 effects and higher variance in the fitness effects of mutations compared
 to the well-adapted ecotype. Furthermore, we predict that it takes less
 than 4000 generations for the fitness space of the two ecotypes to overlap
 through mutation accumulation, and that a single founder, through mutation
 accumulation, is able to achieve the species-wide genetic variation in
 less than 10,000 generations. Our results provide evidence for relatively
 rapid local adaptation of Arabidopsis thaliana in natural conditions
 through new mutations, as well as the utility of a nonparametric Bayesian
 method for modeling the distribution of fitness effects for
 field-collected data.
description: # Scaling the fitness effects of mutations with respect to differentially
 adapted Arabidopsis thaliana accessions under natural conditions
 [https://doi.org/10.5061/dryad.2rbnzs80w](https://doi.org/10.5061/dryad.2rbnzs80w) ## Description of the data and file structure Mutant lines were generated for Arabidopsis thaliana accessions using EMS. Lines were planted in a randomized block design in an experimental farm at the University of Maryland. Survivorship and dry weight were collected as fitness components. The data was analyzed using a novel Bayesian approach (code included). **Description:** "`dat_split.csv`" The raw data of survivorship and dry weight for each accession in an Excel file. Columns are: "founder" - the name for the ecotype used to generate the mutant lines, "line" - the mutant lines derived from the founder, "sub" - the sublines (A and B) derived from each founder line to account for maternal effects, "block" - the number of randomized block in the field experiment, and "weight" - the dry weight of each sample in grams. "`code_for_posterior_inference_and_plotting.ipynb`" code for the statistical analysis ## Code/software Python 3 and Juypter notebook are needed to reproduce the data analysis and plots.