cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.280gb5n0z
title: Mean daily river temperature of the Coppermine River, Nunavut, during the ice-free season 2018-2023

description: Shifts in migration timing in response to climate change have implications
 for fitness and survival of cold-adapted species. We used acoustic
 telemetry to investigate and compare environmental influences on
 freshwater return between sympatric anadromous Arctic Char (Salvelinus
 alpinus) and Dolly Varden (Salvelinus malma malma), and between
 overwintering locations (above or below an obstacle – a substantial
 cascade). Both Arctic Char and Dolly Varden that overwintered below the
 cascade returned to freshwater when sea surface temperature was warm and
 river temperature was cool, whereas Dolly Varden that overwintered above
 the cascade returned to freshwater at cooler sea surface temperatures and
 during warm and likely stressful river temperatures. Ascension of the
 cascade by Dolly Varden (no Arctic Char were observed to ascend the
 cascade) was likely assisted by high tide but unaffected by other
 environmental factors, including temperature. Fish demonstrated plasticity
 in response to inter-annual variation in environmental conditions, but may
 experience decoupling of environmental cues and suitable migratory
 conditions, which could impact persistence of these ecologically and
 culturally important species.
description: # Mean daily river temperature of the Coppermine River, Nunavut, during
 the ice-free season 2018-2023
 [https://doi.org/10.5061/dryad.280gb5n0z](https://doi.org/10.5061/dryad.280gb5n0z) ## Description of the data and file structure Mean daily river temperatures recorded by a VR2AR acoustic receiver (Innovasea, Halifax, Canada) located in the lower reaches of the Coppermine River, Nunavut (67.75601 N, 115.332 W). Temperatures were corrected by comparing to a series of Hobo data loggers (Onset Computer Corp). Temperatures were aggregated (mean) by day, using local time (Mountain Daylight Time) to define days. Temperature units are Celsius. ### Files and variables #### File: CoppermineRiverTemperature_2018-2023.csv **Description:** Mean daily river temperature in the lower reaches of the Coppermine River, Nunavut ##### Variables * Day: Day of year, defined using local time (Mountain Standard Time) YYYY-MM-DD * Temperature.C: River temperature, in degrees Celsius ## Code/software N/A ## Access information Other publicly accessible locations of the data: * N/A Data was derived from the following sources: * N/A
DOI: 10.15468/dl.jpsybh
title: Occurrence Download

description: A dataset containing 2412 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cyanocorax dickeyi"
 ]
}

 The dataset includes 2412 records from 40 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004218-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.maurr5
title: Occurrence Download

description: A dataset containing 2241 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-124.24049 48.47031,-124.90551 46.82732,-125.727 41.58538,-123.10604 36.26521,-119.07679 32.70538,-115.04754 32.70538,-109.49265 31.45358,-103.27274 36.38256,-102.49036 38.29939,-102.95979 49.09621,-106.98904 49.33093,-115.28225 49.52652,-120.44595 49.40917,-124.24049 48.47031))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Robinia pseudoacacia"
 ]
}

 The dataset includes 2241 records from 88 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004217-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.2547d7x2c
title: Repository of raw qPCR data to assess Sin Nombre hantavirus presence in lung tissues and replication in vitro

description: Background: Orthohantaviruses are negative-sense RNA viruses that can
 cause hantavirus cardiopulmonary syndrome (HCPS) in humans. In the United
 States, Sin Nombre orthohantavirus (SNV) is the primary cause of HCPS,
 with a fatality rate of 36% and most cases occuring in the southwestern
 states. The western deer mouse, Peromyscus sonoriensis, is the primary
 reservoir for SNV; however, it remains unclear if alternative reservoirs
 exist. Results: We conducted an extensive survey of SNV genetic prevalence
 in wild-caught small mammal communities throughout New Mexico and observed
 that 27% of all animals were positive for SNV. Through longitudinal
 trapping at a site of patient exposure, we found that SNV circulates at a
 high rate in multiple species over time. Furthermore, we isolated live SNV
 from tissues and feces from multiple small mammal species, demonstrating
 infectious virus in alternative and novel reservoirs. Significance:
 Altogether, this work shows that SNV is widely prevalent and persistent
 throughout New Mexico in multiple small mammal reservoirs that can harbor
 and shed infectious virus. This encourages future work for additional
 surviellance efforts and revaluates host-species dynamics for New World
 hantaviruses.
description: # Repository of raw qPCR data to assess Sin Nombre hantavirus presence in
 lung tissues and replication in vitro
 [https://doi.org/10.5061/dryad.2547d7x2c](https://doi.org/10.5061/dryad.2547d7x2c) ## Description of the data and file structure PCR data assessing Sin Nombre hantavirus prevalence in small mammal tissue samples.  Each tab lists the figure it is representing. The data are RNA copies/mL from various rodent samples.  Each tab in the spreadsheet refers to the data used in the listed figure panel in the manuscript.  Some columns contain empty cells because there are more animals in some experiments compared to others, due to different trap rates Figures 1-5:  Lung tissue was acquired and RNA was isolated and converted to cDNA as listed in the methods section.  Quantitative PCR was conducted using primer/probe sets specific for Sin Nombre hantavirus.  Shown are copies of viral RNA/mL. Figures 6 and Supplemental Figure 1.  Tissues from hantavirus-positive mice were homogenized and passaged on deer mouse endothelial cells.  Every 7 days, supernatants were harvested and used to infect newly seeded cells.  Shown are viral RNA copies/mL in the supernatant of cells at the indicated times post-infection. Abbreviations: ENMU: Eastern New Mexico University, as these samples were collected by that team. SNV:  Sin Nombre virus, the hantavirus studied in this manuscript. HCPS:  Hantavirus Cardiopulmonary Syndrome ## Code/software MS excel can be used to view the file. ## Access information Other publicly accessible locations of the data: * NA Data was derived from the following sources: * NA
DOI: 10.5061/dryad.0k6djhbb4
title: Spatiotemporal variation of small hive beetle infestation levels in honeybee host colonies

description: High infestation levels of small hive beetle (SHB), Aethina tumida, can
 cause more damage to honeybee, Apis mellifera, host colonies. However, the
 spatiotemporal variation of SHB infestations is poorly understood. Here,
 we show that SHB infestations can be equally high in native and invasive
 ranges, suggesting that differences between host populations are the key
 criterion for damage. The data revealed that spatial variation within
 locations were not correlated with migratory beekeeping, SHB management
 strategies, or the number of colonies at an apiary. Despite no annual
 changes in SHB infestations, the data confirm seasonal variation in
 infestations in two locations probably due to environmental factors
 affecting SHB. Infestations are lower in Italy than elsewhere, possibly
 due to strongly implemented management. It is apparent that our
 understanding of varying SHB infestations is still limited. This calls for
 more efforts to elucidate our knowledge of this host-parasite system.
description: # Spatiotemporal variation of small hive beetle infestation levels in
 honeybee host colonies Dataset DOI:
 [https://doi.org/10.5061/dryad.0k6djhbb4](https://doi.org/10.5061/dryad.0k6djhbb4) ## Description: Spatial and temporal data of small hive beetle (*Aethina tumida*, SHB) infestation levels in honeybee colonies. ### Files and variables #### File: Palonen_etal_2025_spatial_data.csv **Description:**  ##### Variables * location: country/state where data were collected * apiary: Name of the apiary * colony: A unique ID for each colony * shb_total: Number of SHB found in the colony * n_colonies: Number of colonies at the apiary at the time of data collection * moved:  Whether any colonies were moved to or from the apiary in the last year before data collection [1 = yes, 0 = no] * managed: Whether any colonies in the apiary were treated against SHB in any way in the last year before data collection [1 = yes, 0 = no] #### File: Palonen_etal_2025_temporal_data.csv **Description:**  ##### Variables * location: country/state where data were collected * apiary: Name of the apiary * colony: A unique ID for each colony * year_season: year or season of data collection * shb_total: Number of SHB found in the colony ## Code/software ### File type: The data are stored in a .csv format. Data can be read in software that can read .csv data (we used Microsoft Excel, R and RStudio). ## Access information Data was derived from the following sources: * All data were manually collected and no other sources have been used.
DOI: 10.5281/zenodo.18394018
title: Frozonium: Freezing Anharmonicity in Floquet Superconducting Circuits

description: Data for the figures in the main text and supplementary material.
DOI: 10.5281/zenodo.18394019
title: Frozonium: Freezing Anharmonicity in Floquet Superconducting Circuits

description: Data for the figures in the main text and supplementary material.
DOI: 10.5061/dryad.41ns1rnqp
title: Data from: Building Earth with pebbles made of chondritic components

description: Pebble accretion provides new insights into Earth’s building blocks and
 early protoplanetary disk conditions. Here, we show that mixtures of
 chondritic components: metal grains, chondrules, calcium-aluminum-rich
 inclusions (CAIs), and amoeboid olivine aggregates (AOAs) match Earth’s
 major element composition (Fe, Ni, Si, Mg, Ca, Al, O) within
 uncertainties, whereas no combination of chondrites and iron meteorites
 does. Our best fits also match the e54Cr and e50Ti values of Earth
 precisely, whereas the best fits for chondrites, or components with a high
 proportion of E chondrules, fail to match Earth. In contrast to some
 previous studies, our best-fitting component mixture is predominantly
 carbonaceous, rather than enstatite chondrules. It also includes 15 wt% of
 early-formed refractory inclusions (CAIs + AOAs), which is similar to that
 found in some C chondrites (CO, CV, CK), but notably higher than NC
 chondrites. High abundances of refractory materials are lacking in NC
 chondrites, because they formed after the majority of refractory grains
 were either drawn into the Sun or incorporated into terrestrial
 protoplanets via pebble accretion. We show that combinations of Stokes
 numbers of chondritic components build 0.35-0.7 Earth masses in 2 My in
 the Hill regime accretion, for a typical pebble column density of 1.2
 kg/m2 at 1 au. However, a larger or smaller column density leads to
 super-Earth or moon-mass bodies, respectively. Our calculations also
 demonstrate that a few My of pebble accretion with these components yields
 a total protoplanet mass inside 1 au exceeding the combined masses of
 Earth, Moon, Venus, and Mercury. Accordingly, we conclude that pebble
 accretion is a viable mechanism to build Earth and its major element
 composition from primitive chondritic components within the solar nebula
 lifetime.
description: # Building Earth with pebbles made of chondritic components
 [https://doi.org/10.5061/dryad.41ns1rnqp](https://doi.org/10.5061/dryad.41ns1rnqp) ## Description of the data and file structure The data represent the compositions found by our best-fitting Component and Chondrite models. It also shows the best-fitting mixtures of various pebbles in those models ( e.g., chondrites and chondritic components) obtained by inversions. Here, IM= Iron meteorite; Chon = Chondrite; MG = Metal grain; Ch = Chondrule; C = Carbonaceous; E/EL/EH = Enstatite; O = Ordinary; CAIs = Calcium-aluminum-rich-inclusions; AOAs = Amoeboid-olivine-aggregates. Elemental composition is given in mg/g. Pebble proportion is given in wt%.
DOI: 10.34740/kaggle/dsv/14656588
title: Peer-to-Peer Boliviano (BOB) Exchange Data
DOI: 10.5061/dryad.msbcc2g7w
title: Data for: Accurate sequence-to-affinity models for SH2 domains from multi-round peptide binding assays coupled with free-energy regression

description: Short linear peptide motifs play important roles in cell signaling. They
 can act as modification sites for enzymes and as recognition sites for
 peptide binding domains. SH2 domains bind specifically to
 tyrosine-phosphorylated proteins, with the affinity of the interaction
 depending strongly on the flanking sequence. Quantifying this sequence
 specificity is critical for deciphering phosphotyrosine-dependent
 signaling networks. In recent years, protein display technologies and deep
 sequencing have allowed researchers to profile SH2 domain binding across
 thousands of candidate ligands. Here, we present a concerted experimental
 and computational strategy that improves the predictive power of SH2
 specificity profiling. Through multi-round affinity selection and deep
 sequencing with large randomized phosphopeptide libraries, we produce
 suitable data to train an additive binding free energy model that covers
 the full theoretical ligand sequence space. Our models can be used to
 predict signaling network connectivity and the impact of missense variants
 in phosphoproteins on SH2 binding.
description: # Repository containing data related to *"Accurate
 sequence-to-affinity models for SH2 domains from multi-round peptide
 binding assays coupled with free-energy regression"* --- This
 repository contains the data * `S1_Datasets.tsv` - Supplemental table
 listing the sequencing datasets. * `S2_ProBound_models.tsv` - Supplemental
 table listing all ProBound models and the settings that were used. *
 `sequencingReads.zip/` * `.fastq.gz` - The sequencing
 reads * `countTables.zip/` *
 `..tsv.gz` - File tabulating the
 number of occurrences of each observed sequence in the input and
 binding-selected libraries. *
 `..folds.gz` - File assigning
 each sequence to one of 10 folds. * `configuration.zip/` *
 `config..builder.json` - Configuration builder file (used by
 ProBound to build the full configuration file) *
 `config..json` - Configuration file used as input to ProBound
 To build the sequence recognition models, first [download and
 install](https://github.com/RubeGroup/ProBound/) ProBound. Make sure to
 set the environmental variable `PROBOUND_DIR`: ``` export
 PROBOUND_DIR="/path/to/ProBound" ``` Next, build the
 configuration file using: ``` fitID=21868 java -jar
 $PROBOUND_DIR/ProBound.jar -b -c configuration/config.$fitID.builder.json
 &gt; configuration/config.$fitID.json ``` Finally run ProBound ``` cd
 configuration/ java -jar $PROBOUND_DIR/ProBound.jar -c config.$fitID.json
 ```
DOI: 10.7266/jcyz0n9k
title: A survey of community perceptions of ecosystems in St. Thomas, U.S Virgin Islands obtained from 2024-03-25 to 2024-05-30
DOI: 10.15468/dl.djjyh2
title: Occurrence Download

description: A dataset containing 3280 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Balanidae, Serpulidae, Watersiporidae, Styelidae, Pennariidae, Mytilidae, Teredinidae, Ulvaceae, Caulerpaceae, Bougainvilliidae, Syllidae, Hydractiniidae, Varunidae, Bolinopsidae)",
 "Geometry POLYGON ((33.925781 30.297018, 30.849609 30.221102, 36.738281 17.978733, 42.539063 11.867351, 46.054688 9.362353000000001, 53.613281 12.297068, 64.6875 21.616579, 66.269531 25.403585, 65.302734 29.993002, 50.976563 32.398516, 33.925781 30.297018))"
 ]
}

 The dataset includes 3280 records from 86 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004220-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.cc2fqz6gs
title: Scalable acoustic virtual stirrer for enhanced interfacial enzymatic nucleic acid reactions

description: The enzymatic nucleic acid reaction is a fundamental tool in molecular
 biology. However, high-throughput, high-complexity enzymatic DNA reactions
 and assays are still challenging, due to the difficulties in integrating
 and scaling up micro-scale reaction units and mixing tools. Here, we
 present a scalable acoustofluidic platform featuring acoustic virtual
 stirrer (AVS) arrays, serving as stirrers to increase the efficiency of
 interfacial enzymatic nucleic acid reactions. Analogous to magnetic
 stirrers, AVS arrays perturb the fluid through oscillating pressure nodes,
 controllable in terms of speeds and amplitudes via frequency shift keying
 (FSK) modulation. By optimizing the kinetics of surface-tethered DNA and
 enzymes via AVS, 7.74% improvement in the stepwise yield of enzymatic DNA
 synthesis is achieved. Additionally, the AVS enhanced DNA logic gate
 architecture can complete responses within 2 minutes, achieving average
 speed enhancement of 8.58 times compared to the non-AVS configuration.
 With its tunability, ease of integration, and efficiency, this technology
 holds significant potential for applications in biology and chemistry.
description: # Scalable acoustic virtual stirrer for enhanced interfacial enzymatic
 nucleic acid reactions
 [https://doi.org/10.5061/dryad.cc2fqz6gs](https://doi.org/10.5061/dryad.cc2fqz6gs) ## Description of the data and file structure This dataset encompasses the DNA sequencing results presented in the paper, specifically including the DNA synthesis sequences obtained through the acoustic virtual stirrer sub-array method, as well as the DNA sequences from the control group. The sequencing data consist of two parts: the initiator primer segment (ACTAGGACGACTCGAATT) and the 4-round synthesized oligo segment (ATCG). ### Files and variables #### File: DNA\_sequencing\_data.zip **Description:** With AVS groups.fq Without AVS groups.fq ## Code/software The FASTQ file format is a widely used standard for storing high-throughput sequencing data, including both sequence information and corresponding quality scores. In the analysis of FASTQ files, various bioinformatics tools can be applied to process and interpret the data. For instance, alignment tools such as Burrows-Wheeler Aligner (BWA), Bowtie2, HISAT2, and Minimap2 are commonly used to map the synthesized sequences against reference templates. By performing alignment analysis, researchers can accurately evaluate synthesis yield and error rates, including deletions, substitutions, and insertions, which are critical metrics for assessing the performance of DNA synthesis techniques.
DOI: 10.21223/rhsviy
title: Dataset for: 10 clones with high Parental Value for Late blight resistance and tuber yield from population B3C3

description: Datasets from four experiments planted in Huancayo under normal conditions for potato crop and one experiment planted under high temperatures in order to determinate Parental value for yield in advanced clones of B3C3 population. In the field experiments, the randomized complete block design was used with 3 replications and 40 plants.
DOI: 10.5061/dryad.v6wwpzh5v
title: Central Valley and other California smokers nicotine replacement therapy (NRT) furnishing surveys

description: From December 2023 to May 2024, we surveyed California smokers about their
 awareness of and interest in tobacco cessation provided by pharmacists.
 Participants were recruited via email and in person. We analyzed
 participants’ smoking and quitting history, awareness of
 pharmacist-prescribed NRT, and perceptions of NRT, comparing residents of
 California’s Central Valley to other regions of the state.
description: We collected all data using the Qualtrics survey platform; the
 survey could be completed from a mobile phone or computer. All responses
 were de-identified and screened for validity. 
description: # Perceptions of pharmacist-furnished nicotine replacement therapy (NRT)
 among California residents who smoke Access this dataset on Dryad:
 [https://doi.org/10.5061/dryad.v6wwpzh5v](https://doi.org/10.5061/dryad.v6wwpzh5v) ## Brief summary of dataset contents "Furnishing" describes pharmacists having the authorizing power to prescribe medications including nicotine replacement therapy (NRT). Residents who smoke within California's Central Valley (CV), and California residents who smoke outside the Central Valley, were surveyed about their perceptions of and experiences with pharmacist-furnished NRT. Despite the low risks and high efficacy of NRT for tobacco cessation, participants expressed concerns about perceived side effects, potential for dependency, and a belief that NRT was not useful. Our findings suggest that additional efforts are needed to successfully increase access to pharmacist-provided tobacco cessation services. ## Description of the data and file structure This dataset contains two raw files: (1) "`CV_Survey_Responses.xlsx`" and (2) "`CA_Outside_CV_Survey_Responses.xlsx`". The first file contains responses to a survey completed by residents of California's Central Valley (CV) about their opinions and experiences with smoking and vaping, their attitudes towards using nicotine replacement therapy (NRT) products, and their experiences with and knowledge of NRT furnishing in pharmacies, using closed-ended questions. The second file contains responses to the same survey completed by residents in other regions of California outside the Central Valley. In both files, summaries of each question participants were asked can be found on row 1, and **each question can be found in its entirety on row 2**. Missing values indicate that the participant did not respond to the question. Demographic data were removed to protect participant anonymity. The data indicate that respondents from both groups had few positive perceptions regarding NRT and expressed concerns about perceived side effects and the risk of dependency. Past use of NRT was also associated with lower odds of quitting. Higher cigarette costs, family pressure, and health concerns increased the likelihood of a quit attempt. Respondents had little awareness that pharmacists could assist with tobacco cessation.