cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.2v6wwpztq
title: Turkey Vulture survival is reduced in areas of greater road density

description: The demography of, and factors that influence these metrics, are largely
 unknown for most vultures in the Americas. Survivorship of Turkey Vultures
 (Cathartes aura) may be influenced by landscape heterogeneity and human
 disturbance. We quantified the effects of landscape composition (Shannon’s
 diversity index) and configuration (contagion, edge density, and largest
 patch index), and human disturbance (road density) on the annual and
 seasonal survival probabilities of the 3 North American breeding
 populations (western, central, and eastern) of Turkey Vultures that spend
 the nonbreeding season in the southeastern portion of the Nearctic and the
 northern Neotropics during a 17-yr period. We used Cox’s proportional
 hazards models with time-varying covariates to estimate spatial and
 temporal changes in survival rates of adult Turkey Vultures. Road density,
 but not landscape composition or configuration, influenced survival rates
 in space and time. Overall annual survival averaged 0.87 (95% CI:
 0.74–0.98). Mortality risk was low in western and central populations
 (hazard ratio &lt; 1) but was 3.7 times greater for vultures in
 the eastern population. Survival during the breeding (0.97, 95% CI:
 0.96–0.98) and outbound migration (1.0, 95% CI: 1–1) seasons was
 significantly higher than the other seasons. Average survival tended to be
 higher for nonbreeding (0.81, 95% CI: 0.71–0.88) compared to return
 migration (0.69, 95% CI: 0.56–0.81) seasons. Risk of mortality for all
 vulture populations increased with road density, and this was greater
 during the nonbreeding and return migration seasons. The spatial variation
 in road density across the Americas may generate a network of ecological
 traps for Turkey Vultures induced to stop in areas of greater road-kill
 abundance. Road-killed animals acting as an attractant for vultures can
 increase the occurrence of vulture-vehicle collisions and potentially
 aggravate human-wildlife conflicts. Further analyses are needed to address
 survivorship and mortality factors for young birds. Our results may help
 the implementation of specific mitigation efforts to reduce human–vulture
 conflicts and vulture mortality. For instance, concentrating efforts to
 remove road-killed animals in areas where road density is highest can
 likely reduce vulture–vehicle collisions and associated mortalities of
 these birds.
DOI: 10.5285/65400133-9cfb-4cf4-bffd-97f1c3752025
title: Water temperatures for the period 1984 to 2007 at 35 sites on 21 UK rivers

description: Seasonal average water temperatures for some UK rivers, 1984 to 2007- data are derived from other CEH projects and collated here. The rivers are Afon Gwy, Allt a Mharcaidh, Allt na Coire nan Con, Bere Stream, Bovington Stream, Dargall Lane, Devils Book, Frome, Great Ouse, Hafren, Hooke, Hore, Lambourn, Nant y Gronwen, Narrator Brook, Old Lodge, Pang, Piddle, River Etherow, Sydling Water and Tadnoll.
description: Stream water temperature (WT) is a key control for many river processes. WT data were collated from various completed or on-going projects, involving or ran by the Centre for Ecology & Hydrology (CEH), UK. The temporal resolution of the individual datasets therefore varies, as well as the way data are or were collected. These datasets totalled individually 35 sites. The Climate Hydrology and Ecology research Support System (CHESS) dataset features six climate variables (Air temperature (AT), Long wave radiation (LWR), Specific humidity (SH), Precipitation (P), Short wave radiation (SWR) and Wind speed (WS)). CHESS is the forcing dataset for the Joint UK Land Environment Simulator model (JULES; Best et al., 2011). CHESS is a UK-wide 1-km grid dataset derived by down scaling the UK Meteorological Office Rainfall and Evaporation Calculation System (MORECS) 40-km grids except for precipitation, which is based on rain gauge data. For each 1-km cell, modelled daily time series of all variables are available for the period 1971-2007. Firstly, sub-daily water temperature datasets were averaged at a daily time step while spot measurements were assumed representative of the day they were taken. Secondly, daily temperature data were matched by date to the daily climate data. Thirdly, seasonal averages were computed from the daily data for all seven variables. Common season definitions were applied: December-February (winter), March-May (spring), June-August (summer), and September-November (autumn). For winter, the seasonal data for year y are based on data from December of year y-1 to February of year y (e.g. for 1976, December 1975, January and February 1976). Lastly, five time series were compiled: one series per season at an annual time step (i.e. winter year y, winter year y+1, etc.), and one series with all seasons at a seasonal time step (i.e. autumn year y, winter year y, spring year y, etc). These series and their related models will be thereafter referred to as 'autumn', 'winter', 'spring', 'summer', and 'all seasons'.
DOI: 10.5061/dryad.nk98sf7z0
title: Known and prospective rocky shoal locations in three rivers in Georgia, USA

description: Many central questions in river ecology and management rely on
 understanding the distributions of aquatic plants and their habitats.
 However, it remains difficult to map submerged aquatic vegetation and
 relevant habitat characteristics in rivers at scales beyond the scope of
 field surveys. We focus here on rocky shoals, which are the principal
 habitat of the riverine macrophyte Podostemum ceratophyllum
 Michx. This species is considered an indicator of the overall ecological
 health of the rivers it inhabits, including the well-being of several fish
 and invertebrate species of conservation concern. Here, we provide a map
 of known and likely rocky shoal habitats in three rivers in Georgia, USA,
 produced by a manual survey in Google Earth Pro using simple, repeatable
 criteria. We intend for this map to aid ongoing and future efforts to
 locate rocky shoals in these rivers, model the distribution and growth of
 associated species, and identify prospective shoals in other systems.
description: To establish an initial map of habitats potentially suitable
 for <em>Podostemum</em>, we used Google Earth Pro to search
 for rocky shoals along the lengths of the Middle Oconee, Conasauga, and
 Etowah Rivers in northern Georgia. For this purpose, we defined shoals as
 river reaches ≥10 m long in which rocky substrate (submerged or emergent
 bedrock, boulder, or cobble) was visible and turbulence was evident on the
 water surface at multiple time points, indicating consistently rapid water
 flow. Shoals separated from each other by ≥10 m were considered distinct;
 shoals separated by &lt;10 m were combined. Shoal-like habitats
 apparently associated with historical indigenous fishing weirs (Cook,
 2013) were counted as shoals. Non-shoal reaches were marked by sandy
 substrates and a consistent lack of turbulence on the water
 surface.  We used several sets of field observations to
 support this search, including GPS records of shoals sampled in previous
 and ongoing experiments (Argentina et al., 2010a; Argentina et al., 2010b;
 Baker 2012; Freeman et al., 2017; Marcinek 2002 unpublished) and river
 guides for recreational paddlers (Cook, 2013; Cook, 2019). We also
 included river start and end points and flowlines (USGS NHD,
 2023). This technique is sensitive to limitations in
 available imagery and our interpretations thereof. We strove to identify
 every location that was likely to be a rocky shoal, but factors such as
 narrow channel width, high tree cover, and high water level may have
 masked some shoals from detection. Similarly, classification of a shoal by
 the above criteria does not guarantee that a given habitat is actually a
 shoal, nor that it contains <em>Podostemum</em>. 
description: The .kmz data file can be opened in several spatial analysis
 programs including Google Earth. For a detailed guide to this dataset,
 please see the .pdf metadata file.
DOI: 10.3929/ethz-b-000729900
title: Data set for the article "In-vitro investigation of endothelial monolayer retention on an inflow VAD cannula inside a beating heart phantom"
DOI: 10.6076/d16w2h
title: ASTRAL-MP: scaling ASTRAL to very large datasets using randomization and parallelization

description: Motivation Evolutionary histories can change from one part of the genome
 to another. The potential for discordance between the gene trees has
 motivated the development of summary methods that reconstruct a species
 tree from an input collection of gene trees. ASTRAL is a widely used
 summary method and has been able to scale to relatively large datasets.
 However, the size of genomic datasets is quickly growing. Despite its
 relative efficiency, the current single-threaded implementation of ASTRAL
 is falling behind the data growth trends and is not able to analyze the
 largest available datasets in a reasonable time.   Results ASTRAL
 uses dynamic programing and is not trivially parallel. In this paper, we
 introduce ASTRAL-MP, the first version of ASTRAL that can exploit
 parallelism and also uses randomization techniques to speed up some of its
 steps. Importantly, ASTRAL-MP can take advantage of not just multiple CPU
 cores but also one or several graphics processing units (GPUs). The
 ASTRAL-MP code scales very well with increasing CPU cores, and its GPU
 version, implemented in OpenCL, can have up to 158× speedups compared to
 ASTRAL-III. Using GPUs and multiple cores, ASTRAL-MP is able to analyze
 datasets with 10,000 species or datasets with more than 100,000 genes in
 &lt;2 days.  Availability and implementation ASTRAL-MP is
 available at https://github.com/smirarab/ASTRAL/tree/MP. 
description: In testing the efficiency of
 ASTRAL-MP, we use several simulated and real datasets (see Table). The
 datasets range in the number of species (<em>n</em>) between
 48 and 1,000 and have between 1,000 and 14,446 gene trees
 (<em>k</em>).  
 Name
 Original publication # Species
 (n) # Genes (k) Type
 # Generations Contraction
 threshold # Reps. 
 SV 
 Mirarab and
 Warnow (2015)  100, 200, 500,
 1000  1000 
 Simulated  2×1062×106  Fully resolved  10  Avian  Mirarab <em>et al.</em> (2014a)  48  14 446, 1000  Real  Unknown (order: 10<sup>7</sup>)  Full, 0, 33, 50, 75%  1, 10  Insects  Sayyari <em>et al.</em> (2017)  144  1478  Real  Unknown  Fully resolved  1  <em>Note</em>: For SV, some outlier replicates have fewer than 1m000 genes because poorly resolved gene trees are removed. For avian, the full dataset is subsampled randomly to create 10 inputs with 1m000 gene trees. In addition, to test limits of <em>n</em>, we used an existing simulated dataset (20 replicates) with 10<sup>4</sup> species and 1000 gene trees similarly to the SV1000 dataset.  To test limits of <em>k</em>, we used an insect transcriptomic dataset (Misof <em>et al.</em>, 2014; Sayyari <em>et al.</em>, 2017) with 144 taxa and 1,478 genes, each with 100 bootstrapped gene trees.
DOI: 10.15468/dl.fbaaa7
title: Occurrence Download

description: A dataset containing 1204296 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((108.3 24.5,116.2 24.5,116.2 33.5,108.3 33.5,108.3 24.5))",
 "Year 1926-2026"
 ]
}

 The dataset includes 1204296 records from 1049 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003460-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mugbzp
title: Occurrence Download

description: A dataset containing 36448 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "TaxonKey is Streptomyces Waksman & Henrici, 1943"
 ]
}

 The dataset includes 36448 records from 425 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016354-250525065834625/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ws9jun
title: Occurrence Download

description: A dataset containing 0 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "BasisOfRecord is one of (Human Observation, Machine Observation, Occurrence evidence, Observation)",
 "TaxonKey is one of (Glyphorynchus spirurus (Vieillot, 1819))",
 "Country is one of (Bermuda, Canada, Greenland, Saint Pierre and Miquelon, United States of America)"
 ]
}

 The dataset includes 0 records from 0 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0016489-250525065834625/datasets/export for details.
DOI: 10.15468/dl.pksecs
title: Occurrence Download

description: A dataset containing 288760 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-104.0461 25.16085,-101.13305 25.16085,-101.13305 28.90122,-104.0461 28.90122,-104.0461 25.16085))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 288760 records from 576 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005617-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.nkk3zf
title: Occurrence Download

description: A dataset containing 558 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Connarus perrottetii",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 558 records from 48 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005634-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.t29uwe
title: Occurrence Download

description: A dataset containing 52 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Connarus thonningii",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 52 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005635-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.18451449
title: CoT+ (Chain-of-Thought Extended): Reproducibility Workflow

description: This document serves as the companion reproducibility package for the manuscript\emph{CoT$^{+}$ (Chain-of-Thought Extended): A Reproducible Multi-Reasoning Prompting Architecture for Deterministic PLC Code Generation}.Its purpose is twofold: (i) to provide a complete, implementation-level specification of the proposed CoT$^{+}$ prompt protocol, and (ii) to enableindependent researchers to replicate all reported comparisons against the baseline prompting strategies (CoT, PoT, CoC, and CCoT) on arbitrary external PLC datasets.

To support transparent replication, the document consolidates the full prompt cards, fixed protocol obligations, and artifact definitions(\texttt{PHASE 0 / [TASK\_SPEC]} and \texttt{S1--S4}) used throughout the study, together with explicit acceptance rules(e.g., symbol-contract freezing, verification verdicts, and traceability requirements). In addition, it provides step-by-step reproducibility workflowsfor each evaluation layer employed in the manuscript: BLEU-based lexical determinism (including normalization and deterministic BLEU calculation),LLM-in-the-loop validation with five independent validator models (LITL), and human-in-the-loop expert assessment (HITL), including the inter-raterreliability (IRR) procedures based on Cohen's $\kappa$ and Krippendorff's $\alpha$ with a fixed stability gate.

Overall, this documentation is designed to function as a standalone replication manual: by keeping the protocol components fixed and substituting onlythe task instances, an external researcher can regenerate the intermediate artifacts, recompute the reported statistics, and verify the prompt-inducedeffects of CoT$^{+}$ relative to the baseline suite under controlled and auditable conditions.
DOI: 10.5281/zenodo.18451450
title: CoT+ (Chain-of-Thought Extended): Reproducibility Workflow

description: This document serves as the companion reproducibility package for the manuscript\emph{CoT$^{+}$ (Chain-of-Thought Extended): A Reproducible Multi-Reasoning Prompting Architecture for Deterministic PLC Code Generation}.Its purpose is twofold: (i) to provide a complete, implementation-level specification of the proposed CoT$^{+}$ prompt protocol, and (ii) to enableindependent researchers to replicate all reported comparisons against the baseline prompting strategies (CoT, PoT, CoC, and CCoT) on arbitrary external PLC datasets.

To support transparent replication, the document consolidates the full prompt cards, fixed protocol obligations, and artifact definitions(\texttt{PHASE 0 / [TASK\_SPEC]} and \texttt{S1--S4}) used throughout the study, together with explicit acceptance rules(e.g., symbol-contract freezing, verification verdicts, and traceability requirements). In addition, it provides step-by-step reproducibility workflowsfor each evaluation layer employed in the manuscript: BLEU-based lexical determinism (including normalization and deterministic BLEU calculation),LLM-in-the-loop validation with five independent validator models (LITL), and human-in-the-loop expert assessment (HITL), including the inter-raterreliability (IRR) procedures based on Cohen's $\kappa$ and Krippendorff's $\alpha$ with a fixed stability gate.

Overall, this documentation is designed to function as a standalone replication manual: by keeping the protocol components fixed and substituting onlythe task instances, an external researcher can regenerate the intermediate artifacts, recompute the reported statistics, and verify the prompt-inducedeffects of CoT$^{+}$ relative to the baseline suite under controlled and auditable conditions.
DOI: 10.7910/dvn/vyiowb
title: Data for "Uniaxial spin texture in a superconducting electron gas revealed by exchange interactions"

description: Data for figures in Manuscript and Supplementary Materials
DOI: 10.15468/dl.8qe63r
title: Occurrence Download

description: A dataset containing 76 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Ellipanthus beccarii",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 76 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005637-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.urmxg9
title: Occurrence Download

description: A dataset containing 13061 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Türkiye",
 "DatasetKey is one of (Atlas of the dragonflies and damselflies of West and Central Asia, iNaturalist Research-grade Observations, Observation.org, Nature data from around the World, USMB Insecta, NABU|naturgucker, Naturalis Biodiversity Center (NL) - Odonata, ZFMK Odonata collection, International Barcode of Life project (iBOL), The genus Coenagrion Kirby, 1890 (Odonata: Coenagrionidae) in the Russian part of the Caucasus, Museum of Comparative Zoology, Harvard University, Cornell University Insect Collection (CUIC), izeltlabuak.hu observations validated to species level, NMNH Extant Specimen Records (USNM, US), Entomologische Sammlung (ETHZ-ENT) of Eidgenössische Technische Hochschule Zürich)",
 "Geometry POLYGON((32.14866 36.29683,32.71243 35.67504,35.76258 35.63709,37.64615 36.40446,39.89137 36.61617,42.44827 37.05482,44.62447 37.25955,44.0442 39.27689,44.68144 39.65751,43.60502 41.05526,42.84992 41.53724,41.68168 41.64171,35.09146 41.98153,33.15959 39.13874,32.14866 36.29683))",
 "HasGeospatialIssue is false",
 "License is one of (CC0 1.0, CC-BY 4.0, CC-BY-NC 4.0)",
 "Protocol is one of (EML, Darwin Core Archive, CAMTRAP_DP)",
 "PublishingOrg is one of (21c07296-77a8-4adf-aba1-e1035429be3a, 28eb1a3f-1c15-4a95-931a-4af90ecb574d, c8d737e0-2ff8-42e8-b8fc-6b805d26fc5f, 41cce8a0-925e-11da-8900-b8a03c50a862, 396d5f30-dea9-11db-8ab4-b8a03c50a862, 7ce8aef0-9e92-11dc-8738-b8a03c50a862, b3bf3a83-1f68-4541-a03f-330d30d567f5, b4640710-8e03-11d8-b956-b8a03c50a862, c1c50c16-d4fa-4fc7-85ae-86ede81f1f8f, 1ecaad1e-29a1-4af8-8098-40d942ae522d)",
 "TaxonKey is Odonata"
 ]
}

 The dataset includes 13061 records from 10 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005639-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.paen77
title: Occurrence Download

description: A dataset containing 74 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Ellipanthus madagascariensis",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 74 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0005640-260129131611470/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5517/ccdc.csd.cc2jpt46
title: CCDC 2344658: Experimental Crystal Structure Determination

description: Related Article: Yan-Li Lu, Shao-Jie Deng, Xi-Nan Yang, Yue Ma, Xin Xiao, Pei-Hua Ma|2026|Cryst.Growth Des.|||doi:10.1021/acs.cgd.5c01321
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2jpt57
title: CCDC 2344659: Experimental Crystal Structure Determination

description: Related Article: Yan-Li Lu, Shao-Jie Deng, Xi-Nan Yang, Yue Ma, Xin Xiao, Pei-Hua Ma|2026|Cryst.Growth Des.|||doi:10.1021/acs.cgd.5c01321
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2jpt79
title: CCDC 2344661: Experimental Crystal Structure Determination

description: Related Article: Yan-Li Lu, Shao-Jie Deng, Xi-Nan Yang, Yue Ma, Xin Xiao, Pei-Hua Ma|2026|Cryst.Growth Des.|||doi:10.1021/acs.cgd.5c01321
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
DOI: 10.5517/ccdc.csd.cc2jpv36
title: CCDC 2344688: Experimental Crystal Structure Determination

description: Related Article: Yan-Li Lu, Shao-Jie Deng, Xi-Nan Yang, Yue Ma, Xin Xiao, Pei-Hua Ma|2026|Cryst.Growth Des.|||doi:10.1021/acs.cgd.5c01321
description: An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.