cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.fck53z
title: Occurrence Download

description: A dataset containing 1272 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Nepal",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Felidae"
 ]
}

 The dataset includes 1272 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000565-250121130708018/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14707152
title: Testing

description: Testing bias in code generation and security in large language models (LLMs) ChatGPT, Claude, and Gemini. This data is accompanying a paper submitted to USENIX '25. In experimentation, three trials were completed, each testing five different categories. 

 

The file Trial Charts.zip includes the trial model versions, final results from each category and test, as well as results from manual analysis. Each bias has its own .csv (Sex, Age, Race & Ethnicity, Experience, Special Circumstances) for every trial's results and another file with the first letter of the bias + Overall (i.e. A Overall for Age, SC Overall for Special Circumstances) for overall results of the category. The files labeled Manual Analysis (or Manual A.) highlight some of the differences between the biased code and the control code. It also includes notable outputs from each bias.

 

The Trial Results.zip includes all of the raw data from testing the biases. The data was collected in OneNote. The files "Trial [1-3]" include all ouputs from all categories. The files "Trial [1-3] Retests" include any non-control retests. The files "[1-3] Control Retests" give the results of retesting the control for all three trials. The files "[1-3] A and B Tests" show the results from resting with the new labels "a" and "b".
DOI: 10.5281/zenodo.14707151
title: Testing

description: Testing bias in code generation and security in large language models (LLMs) ChatGPT, Claude, and Gemini. This data is accompanying a paper submitted to USENIX '25. In experimentation, three trials were completed, each testing five different categories. 

 

The file Trial Charts.zip includes the trial model versions, final results from each category and test, as well as results from manual analysis. Each bias has its own .csv (Sex, Age, Race & Ethnicity, Experience, Special Circumstances) for every trial's results and another file with the first letter of the bias + Overall (i.e. A Overall for Age, SC Overall for Special Circumstances) for overall results of the category. The files labeled Manual Analysis (or Manual A.) highlight some of the differences between the biased code and the control code. It also includes notable outputs from each bias.

 

The Trial Results.zip includes all of the raw data from testing the biases. The data was collected in OneNote. The files "Trial [1-3]" include all ouputs from all categories. The files "Trial [1-3] Retests" include any non-control retests. The files "[1-3] Control Retests" give the results of retesting the control for all three trials. The files "[1-3] A and B Tests" show the results from resting with the new labels "a" and "b".
DOI: 10.15468/dl.wr3bff
title: Occurrence Download

description: A dataset containing 89788 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Erythranthe Spach)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 89788 records from 724 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000568-250121130708018/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.zadthj
title: Occurrence Download

description: A dataset containing 870 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((180 -44.3,173 -44.3,173 -47.5,170 -47.5,157 -47.5,157 -45.9,150 -45.9,150 -47.5,143 -47.5,143 -45.8,140 -45.8,140 -44.5,137 -44.5,137 -43,135 -43,135 -41.7,131 -41.7,131 -40.1,115 -40.1,92 -40.1,92 -41.4,78 -41.4,78 -42.3,69 -42.3,69 -43.3,47 -43.3,47 -41.7,30 -41.7,12 -41.7,12 -40.3,10 -40.3,10 -38.3,-5 -38.3,-5 -38.9,-9 -38.9,-9 -40.2,-13 -40.2,-13 -41.4,-21 -41.4,-21 -42.5,-39 -42.5,-39 -40.7,-49 -40.7,-49 -48.6,-54 -48.6,-54 -55.7,-62.7972582608082 -55.7,-64 -55.7,-64 -57.8,-71 -57.8,-71 -58.9,-80 -58.9,-80 -40,-125 -40,-167 -40,-167 -42.6,-171 -42.6,-171 -44.3,-180 -44.3,-180 -90, 0 -90,180 -90,180 -44.3))",
 "TaxonKey is Deschampsia P.Beauv.",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 870 records from 45 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000569-250121130708018/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.brrjhr
title: Occurrence Download

description: A dataset containing 4188469 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is United States of America",
 "GadmGid is USA.28_1",
 "OccurrenceStatus is Present",
 "TaxonKey is Aves"
 ]
}

 The dataset includes 4188469 records from 65 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000537-250121130708018/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.82s5sq
title: Occurrence Download

description: A dataset containing 26789 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is CUMV Amphibian and Reptile Collection"
 ]
}

 The dataset includes 26789 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000571-250121130708018/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4942nh
title: Occurrence Download

description: A dataset containing 264 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is one of (Panama, El Salvador, Costa Rica)",
 "OccurrenceStatus is Present",
 "TaxonKey is Pogonopus exsertus (Oerst.) Oerst.",
 "Year 1970-2025"
 ]
}

 The dataset includes 264 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000573-250121130708018/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ez467f
title: Occurrence Download

description: A dataset containing 325 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "OccurrenceStatus is Present",
 "TaxonKey is Pogonopus exsertus (Oerst.) Oerst.",
 "Year 1970-2025"
 ]
}

 The dataset includes 325 records from 18 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000574-250121130708018/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.cp7tzc
title: Occurrence Download

description: A dataset containing 264 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is one of (El Salvador, Panama, Costa Rica)",
 "OccurrenceStatus is Present",
 "TaxonKey is Pogonopus exsertus (Oerst.) Oerst.",
 "Year 1970-2025"
 ]
}

 The dataset includes 264 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000572-250121130708018/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hup88e
title: Occurrence Download

description: A dataset containing 264 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is one of (El Salvador, Costa Rica, Panama)",
 "OccurrenceStatus is Present",
 "TaxonKey is Pogonopus exsertus (Oerst.) Oerst.",
 "Year 1970-2025"
 ]
}

 The dataset includes 264 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000575-250121130708018/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5066/p14mhfyx
title: Field Survey Results of Damage and Ground Shaking Intensity in Humboldt, Trinity, and Mendocino Counties Following the 2022 Mw 6.4 Ferndale Earthquake

description: This data release provides supplementary information supporting our study on seismic intensities, ground motions, and basin amplification during the Mw 6.4 Ferndale, California earthquake of December 20th, 2022. A field survey was conducted between January 9-12 and March 6-9 in 2023 to assess the damage and shaking intensity experienced across the affected areas. During this survey, 17 sites in Northern California were visited. The sites include cities, towns, unincorporated communities, and census-designated places that fall within 150km of the earthquake epicenter. The data collected at each site includes qualitative observations of structural damage to homes and urban infrastructure, descriptions of damage to interior spaces and publicly accessible facilities, as well as reports of earthquake shaking intensity. Observations were made at multiple sub-localities within a designated site and were later summarized in order to assign a Modified Mercalli Intensity (MMI) Index to each site. The journal article accompanying this data release integrates the calculated MMI values with seismic waveform data from seismometers to characterize strong ground motion regionally and to better constrain the hazards associated with subduction zone earthquakes in Northern California.
DOI: 10.5063/f1cn72d8
title: Water levels in the Skagit and Nisqually and river estuaries, Washington

description: We obtained time series of water levels in tidal channels in the Skagit River Estuary (48.32029°N, 122.39529°W) from October 2017 to October 2018 and in the Nisqually River Estuary (47.08141°N, 122.70514°W) from June to December 2023 to determine local tidal datums for nearby tidal wetland research sites. We deployed Hobo pressure sensors in PVC wells and surveyed their elevations using real-time kinematic GPS in the North American Vertical Datum of 1988 (NAVD88). At the Skagit station, the sensor was at 0.130 m NAVD88 and water level was collected every 12 minutes. At the Nisqually station, sensor 20144078 was at -1.111 m NAVD88 and sensor 20183671 was at -0.930 m NAVD88; water level was collected every 6 minutes. Using NOAA CO-OPS’s on-line “Tidal Analysis Datum Calculator” with the direct method and Seattle tide gauge (Station 9447130) as the control station, we used 12 months of data to determine tidal datums (in meters relative to NAVD88) at the Skagit site as follows: mean high water = 2.593 and mean higher high water = 2.863. We used the calculator with the standard range ratio method and the Tacoma tide gauge (station 9446484) as the control station at Nisqually to determine tidal datums (in meters relative to NAVD88) with the five full months of data (July-November) as follows: mean lower low water = -0.399, mean low water = 0.189, mean tide level = 1.500, mean high water = 2.810, and mean higher high water = 3.103. Each time series also provides water temperatures.
DOI: 10.15468/dl.qdc6rm
title: Occurrence Download

description: A dataset containing 468 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "Country is one of (Mexico, Guatemala)",
 "OccurrenceStatus is Present",
 "TaxonKey is Coryphaena hippurus Linnaeus, 1758",
 "Year 1899-2025"
 ]
}

 The dataset includes 468 records from 23 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000577-250121130708018/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.dp6x24
title: Occurrence Download

description: A dataset containing 59900 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is iNaturalist Research-grade Observations",
 "EventDate is greater than or equal to 2015-01-21",
 "CoordinateUncertaintyInMeters is less than or equal to 200",
 "TaxonKey is one of (Aphelocoma californica (Vigors, 1839), Callipepla californica (Shaw, 1798), Melanerpes formicivorus (Swainson, 1827), Nycticorax nycticorax (Linnaeus, 1758), Sialia mexicana Swainson, 1832, Zonotrichia leucophrys (J.R.Forster, 1772), Danaus plexippus (Linnaeus, 1758), Helminthoglypta nickliniana (I.Lea, 1838), Canis latrans Say, 1823, Lontra canadensis (Schreber, 1777), Sciurus griseus Ord, 1818, Chlorogalum pomeridianum (DC.) Kunth, Juglans hindsii (Jeps.) Jeps. ex R.E.Sm., Actinemys marmorata (Baird & Girard, 1852), Aneides lugubris (Hallowell, 1849), Elgaria coerulea (Wiegmann, 1828), Elgaria multicarinata (Blainville, 1835), Thamnophis elegans (Baird & Girard, 1853), Thamnophis sirtalis (Linnaeus, 1758))",
 "GadmGid is one of (USA.5.1_1, USA.5.7_1, USA.5.28_1, USA.5.48_1, USA.5.21_1, USA.5.49_1, USA.5.43_1, USA.5.44_1, USA.5.41_1, USA.5.38_1)"
 ]
}

 The dataset includes 59900 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000576-250121130708018/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.e3584e
title: Occurrence Download

description: A dataset containing 4871 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((180 -44.3,173 -44.3,173 -47.5,170 -47.5,157 -47.5,157 -45.9,150 -45.9,150 -47.5,143 -47.5,143 -45.8,140 -45.8,140 -44.5,137 -44.5,137 -43,135 -43,135 -41.7,131 -41.7,131 -40.1,115 -40.1,92 -40.1,92 -41.4,78 -41.4,78 -42.3,69 -42.3,69 -43.3,47 -43.3,47 -41.7,30 -41.7,12 -41.7,12 -40.3,10 -40.3,10 -38.3,-5 -38.3,-5 -38.9,-9 -38.9,-9 -40.2,-13 -40.2,-13 -41.4,-21 -41.4,-21 -42.5,-39 -42.5,-39 -40.7,-49 -40.7,-49 -48.6,-54 -48.6,-54 -55.7,-62.7972582608082 -55.7,-64 -55.7,-64 -57.8,-71 -57.8,-71 -58.9,-80 -58.9,-80 -40,-125 -40,-167 -40,-167 -42.6,-171 -42.6,-171 -44.3,-180 -44.3,-180 -90, 0 -90,180 -90,180 -44.3))",
 "TaxonKey is Poaceae",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present"
 ]
}

 The dataset includes 4871 records from 69 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000578-250121130708018/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5063/f17w69pj
title: Water levels in the Skagit and Nisqually River estuaries, Washington

description: We obtained time series of water levels in tidal channels in the Skagit River Estuary (48.32029°N, 122.39529°W) from October 2017 to October 2018 and in the Nisqually River Estuary (47.08141°N, 122.70514°W) from June to December 2023 to determine local tidal datums for nearby tidal wetland research sites. We deployed Hobo pressure sensors in PVC wells and surveyed their elevations using real-time kinematic GPS in the North American Vertical Datum of 1988 (NAVD88). At the Skagit station, the sensor was at 0.130 m NAVD88 and water level was collected every 12 minutes. At the Nisqually station, sensor 20144078 was at -1.111 m NAVD88 and sensor 20183671 was at -0.930 m NAVD88; water level was collected every 6 minutes. Using NOAA CO-OPS’s on-line “Tidal Analysis Datum Calculator” with the direct method and Seattle tide gauge (Station 9447130) as the control station, we used 12 months of data to determine tidal datums (in meters relative to NAVD88) at the Skagit site as follows: mean high water = 2.593 and mean higher high water = 2.863. We used the calculator with the standard range ratio method and the Tacoma tide gauge (station 9446484) as the control station at Nisqually to determine tidal datums (in meters relative to NAVD88) with the five full months of data (July-November) as follows: mean lower low water = -0.399, mean low water = 0.189, mean tide level = 1.500, mean high water = 2.810, and mean higher high water = 3.103. Each time series also provides water temperatures.
DOI: 10.5281/zenodo.12512458
title: How to identify priority sites for invasive alien species policy and management

description: R code and data related to Clarke et al., (2025) which describes an approach for identifying priority sites for invasive alien species policy and management. 

Clarke, D. A., Clarke, R. H., & McGeoch, M. A. (2025). How to identify priority sites for invasive alien species policy and management. Diversity and Distributions, 31(1), e13970. https://doi.org/10.1111/ddi.13970
DOI: 10.5281/zenodo.12512459
title: How to identify priority sites for invasive alien species policy and management

description: R code and data related to an approach for identifying priority sites for invasive alien species management. Currently organised for a double-blind submission process for the associated publication.
DOI: 10.5281/zenodo.14014991
title: How to identify priority sites for invasive alien species policy and management

description: R code and data related to Clarke et al., (2025) which describes an approach for identifying priority sites for invasive alien species policy and management. 

Clarke, D. A., Clarke, R. H., & McGeoch, M. A. (2025). How to identify priority sites for invasive alien species policy and management. Diversity and Distributions, 31(1), e13970. https://doi.org/10.1111/ddi.13970
DOI: 10.15468/dl.pqb8zr
title: Occurrence Download

description: A dataset containing 36515 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Taxon occurrence data for the FungalRoot database"
 ]
}

 The dataset includes 36515 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000581-250121130708018/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14714786
title: Bias, Randomness, and Blind-Faith: Large Language Model Code Generation and Security Analysis

description: Testing bias in code generation and security in large language models (LLMs) ChatGPT, Claude, and Gemini. This data is accompanying a paper submitted to USENIX '25. In experimentation, three trials were completed, each testing five different categories. 

 

The file Trial Charts.zip includes the trial model versions, final results from each category and test, as well as results from manual analysis. Each bias has its own .csv (Sex, Age, Race & Ethnicity, Experience, Special Circumstances) for every trial's results and another file with the first letter of the bias + Overall (i.e. A Overall for Age, SC Overall for Special Circumstances) for overall results of the category. The files labeled Manual Analysis (or Manual A.) highlight some of the differences between the biased code and the control code. It also includes notable outputs from each bias.

 

The Trial Results.zip includes all of the raw data from testing the biases. The data was collected in OneNote. The files "Trial [1-3]" include all outputs from all categories. The files "Trial [1-3] Retests" include any non-control retests. The files "[1-3] Control Retests" give the results of retesting the control for all three trials. The files "[1-3] A and B Tests" show the results from resting with the new labels "a" and "b".
DOI: 10.5281/zenodo.14714787
title: Bias, Randomness, and Blind-Faith: Large Language Model Code Generation and Security Analysis

description: Testing bias in code generation and security in large language models (LLMs) ChatGPT, Claude, and Gemini. This data is accompanying a paper submitted to USENIX '25. In experimentation, three trials were completed, each testing five different categories. 

 

The file Trial Charts.zip includes the trial model versions, final results from each category and test, as well as results from manual analysis. Each bias has its own .csv (Sex, Age, Race & Ethnicity, Experience, Special Circumstances) for every trial's results and another file with the first letter of the bias + Overall (i.e. A Overall for Age, SC Overall for Special Circumstances) for overall results of the category. The files labeled Manual Analysis (or Manual A.) highlight some of the differences between the biased code and the control code. It also includes notable outputs from each bias.

 

The Trial Results.zip includes all of the raw data from testing the biases. The data was collected in OneNote. The files "Trial [1-3]" include all outputs from all categories. The files "Trial [1-3] Retests" include any non-control retests. The files "[1-3] Control Retests" give the results of retesting the control for all three trials. The files "[1-3] A and B Tests" show the results from resting with the new labels "a" and "b".
DOI: 10.5281/zenodo.14714789
title: Bergmiller "Programming CRISPRi to control the lifecycle of bacteriophage T7" raw data

description: Raw growth rate data and DNA sequences of plasmids for 

doi: 10.3389/fmicb.2025.1497650
DOI: 10.5281/zenodo.14714790
title: Bergmiller "Programming CRISPRi to control the lifecycle of bacteriophage T7" raw data

description: Raw growth rate data and DNA sequences of plasmids for 

doi: 10.3389/fmicb.2025.1497650
DOI: 10.15468/dl.cnf2yh
title: Occurrence Download

description: A dataset containing 216 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Oxyura jamaicensis (J.F.Gmelin, 1789)",
 "Country is Spain",
 "Year is greater than or equal to 1500"
 ]
}

 The dataset includes 216 records from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000582-250121130708018/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5066/p1989rpn
title: Contemporary estimates for total seep refugial capacity and contributing metrics, including likelihood of seep occurrence, seep air and water temperature variability, and probability of seep permanence

description: We modeled the distribution and thermal and hydrologic stability of cliff-face seeps across moist portions of the Pacific Northwest, USA. We conducted surveys for cliff-face seeps across ~1,600km of roads, trails, and watercourses in Washington and Idaho and monitored water availability and air and water temperatures at a subset of these seeps. We detected 457 total seeps through an iterative process involving surveying, modeling, ground-truthing, and then remodeling the spatial distribution of seeps using boosted regression trees. Additionally, we used linear and generalized linear models to assess environmental correlates of seep thermal and hydrologic stability. Seeps were generally most concentrated in steep and relatively low-lying areas (e.g., towards the bottom of deep canyons or the base of tall cliffs), and were also positively associated with basalt, glacial drift, or graywacke bedrock, high average slope within 300m, and low average vapor pressure deficit. North-facing slopes were the best predictor of stable air and water temperatures and perennial seep discharge, and relatively low-lying areas also predicted stable seep water temperatures.
DOI: 10.6084/m9.figshare.28250687
title: DIFFUSIONE_CAPILLARE_05.xlsm

description: Visual Basic application within an Excel spreadsheet (Microsoft, Redmond, WA, USA) to simulate the the behavior of contrast agent within a capillary and surrounding extravascular tissue with a finite element model.
DOI: 10.6084/m9.figshare.28250687.v1
title: DIFFUSIONE_CAPILLARE_05.xlsm

description: Visual Basic application within an Excel spreadsheet (Microsoft, Redmond, WA, USA) to simulate the the behavior of contrast agent within a capillary and surrounding extravascular tissue with a finite element model.